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Details on Person Diagram of Formation of definitive endoderm

Class:IdPathwayDiagram:9824478
_displayNameDiagram of Formation of definitive endoderm
_timestamp2023-02-28 15:38:19
created[InstanceEdit:9824470] May, Bruce, 2023-01-20
height879
modified[InstanceEdit:9825931] May, Bruce, 2023-01-27
[InstanceEdit:9827632] May, Bruce, 2023-01-31
[InstanceEdit:9827642] May, Bruce, 2023-01-31
[InstanceEdit:9827853] May, Bruce, 2023-02-08
[InstanceEdit:9830221] May, Bruce, 2023-02-28
[InstanceEdit:9830246] May, Bruce, 2023-02-28
representedPathway[Pathway:9823730] Formation of definitive endoderm [Homo sapiens]
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/> <Component id="12" /> <Component id="42" /> <Component id="43" /> <Component id="44" /> <Component id="45" /> <Component id="46" /> <Component id="48" /> <Component id="49" /> <Component id="50" /> <Component id="51" /> <Component id="61" /> <Component id="62" /> <Component id="63" /> <Component id="64" /> <Component id="65" /> <Component id="66" /> <Component id="85" /> <Component id="104" /> <Component id="105" /> <Component id="106" /> <Component id="107" /> <Component id="108" /> <Component id="114" /> <Component id="116" /> <Component id="117" /> <Component id="119" /> <Component id="120" /> <Component id="140" /> <Component id="141" /> <Component id="142" /> <Component id="143" /> <Component id="180" /> <Component id="181" /> <Component id="182" /> <Component id="184" /> </Components> </org.gk.render.RenderableCompartment> <org.gk.render.RenderableProtein id="4" reactomeId="452232" position="508 60" bounds="483 47 51 27" textPosition="485 49"> <Properties> <displayName>EOMES</displayName> </Properties> </org.gk.render.RenderableProtein> <org.gk.render.RenderableGene id="6" reactomeId="9796194" position="137 176" bounds="97 151 81 51" textPosition="111 178"> <Properties> <displayName>FOXA2 gene</displayName> </Properties> </org.gk.render.RenderableGene> <org.gk.render.RenderableComplex id="7" reactomeId="9823963" position="267 263" bounds="194 237 146 52" textPosition="196 239" bgColor="204 255 255" hideComponents="true"> <Properties> <displayName>EOMES:TBXT:GATA6:p-2S-SMAD2,3:SMAD4:FOXA2 gene</displayName> </Properties> </org.gk.render.RenderableComplex> <org.gk.render.RenderableProtein id="9" reactomeId="211275" position="186 360" bounds="155 346 63 29" textPosition="162 349" /> <org.gk.render.RenderableEntitySet id="12" reactomeId="173511" position="330 93" bounds="248 78 164 31" textPosition="259 82"> <Properties> <displayName>p-2S-SMAD2,3:SMAD4</displayName> </Properties> </org.gk.render.RenderableEntitySet> <org.gk.render.RenderableGene id="43" reactomeId="2888975" position="601 162" bounds="559 137 84 51" textPosition="559 164"> <Properties> <displayName>GATA6 gene</displayName> </Properties> </org.gk.render.RenderableGene> <org.gk.render.RenderableComplex id="44" reactomeId="9823969" position="738 207" bounds="668 182 141 51" textPosition="674 183" bgColor="204 255 255" hideComponents="true"> <Properties> <displayName>p-2S-SMAD2,3:GATA6-AS1 lncRNA:GATA6 gene</displayName> </Properties> </org.gk.render.RenderableComplex> <org.gk.render.RenderableProtein id="46" reactomeId="452902" position="662 312" bounds="626 297 73 31" textPosition="637 301"> <Properties> <displayName>GATA6</displayName> </Properties> </org.gk.render.RenderableProtein> <org.gk.render.RenderableProtein id="48" reactomeId="400553" position="608 587" bounds="575 571 66 33" textPosition="583 576"> <Properties> <displayName>GATA4</displayName> </Properties> </org.gk.render.RenderableProtein> <org.gk.render.RenderableComplex id="49" reactomeId="9666624" position="546 289" bounds="487 276 118 27" textPosition="494 281" bgColor="204 255 255" hideComponents="true"> <Properties> <displayName>TCF7L2:CTNNB1</displayName> </Properties> </org.gk.render.RenderableComplex> <org.gk.render.RenderableGene id="50" reactomeId="9823747" position="303 405" bounds="263 380 81 51" textPosition="263 407"> <Properties> <displayName>SOX17 gene</displayName> </Properties> </org.gk.render.RenderableGene> <org.gk.render.RenderableComplex id="51" reactomeId="9823744" position="435 492" bounds="371 445 128 95" textPosition="373 448" bgColor="204 255 255" hideComponents="true"> <Properties> <displayName>TCF7L2:CTNNB1:EOMES:TBXT:MIXL1:p-2S-SMAD2,3:SMAD4:FOXA2:GATA4:GATA6,SOX17 gene</displayName> </Properties> </org.gk.render.RenderableComplex> <org.gk.render.RenderableProtein id="62" reactomeId="5625834" position="351 569" bounds="320 554 62 30" textPosition="327 558"> <Properties> <displayName>SOX17</displayName> </Properties> </org.gk.render.RenderableProtein> <org.gk.render.RenderableProtein id="63" reactomeId="9758510" position="219 425" bounds="191 411 56 28" textPosition="197 414"> <Properties> <displayName>MIXL1</displayName> </Properties> </org.gk.render.RenderableProtein> <org.gk.render.RenderableGene id="65" reactomeId="9733696" position="560 416" bounds="518 391 85 51" textPosition="519 418"> <Properties> <displayName>GATA4 gene</displayName> </Properties> </org.gk.render.RenderableGene> <org.gk.render.RenderableComplex id="66" reactomeId="9823834" position="674 477" bounds="622 445 105 64" textPosition="624 445" bgColor="204 255 255" hideComponents="true"> <Properties> <displayName>p-2S-SMAD2,3:SMAD4:FOXA2:TBXT:GATA6:GATA4 gene</displayName> </Properties> </org.gk.render.RenderableComplex> <org.gk.render.RenderableGene id="105" reactomeId="2888980" position="104 484" bounds="67 459 75 51" textPosition="72 486"> <Properties> <displayName>GSC gene</displayName> </Properties> </org.gk.render.RenderableGene> <org.gk.render.RenderableComplex id="106" reactomeId="9823985" position="201 582" bounds="160 542 82 81" textPosition="160 545" bgColor="204 255 255" hideComponents="true"> <Properties> <displayName>EOMES:p-2S-SMAD2,3:SMAD4:MIXL1:GSC gene</displayName> </Properties> </org.gk.render.RenderableComplex> <org.gk.render.RenderableProtein id="108" reactomeId="452569" position="153 735" bounds="128 722 51 26" textPosition="137 724"> <Properties> <displayName>GSC</displayName> </Properties> </org.gk.render.RenderableProtein> <org.gk.render.RenderableComplex id="116" reactomeId="9823975" position="985 474" bounds="924 442 122 64" textPosition="927 442" bgColor="204 255 255" hideComponents="true"> <Properties> <displayName>EOMES:p-2S-SMAD2,3:SMAD4:GATA6:CXCR4 gene</displayName> </Properties> </org.gk.render.RenderableComplex> <org.gk.render.RenderableProtein id="118" reactomeId="2980772" position="926 855" bounds="895 840 63 31" textPosition="902 844"> <Properties> <displayName>CXCR4</displayName> </Properties> </org.gk.render.RenderableProtein> <org.gk.render.RenderableGene id="120" reactomeId="9756422" position="262 648" bounds="221 623 82 51" textPosition="224 650"> <Properties> <displayName>CDH1 gene</displayName> </Properties> </org.gk.render.RenderableGene> <org.gk.render.RenderableProtein id="121" reactomeId="198003" position="361 855" bounds="294 841 134 29" textPosition="311 844"> <Properties> <displayName>CDH1(155-882)</displayName> </Properties> </org.gk.render.RenderableProtein> <org.gk.render.RenderableProtein id="140" reactomeId="211275" position="600 358" bounds="569 344 63 29" textPosition="576 347"> <Properties> <displayName>FOXA2</displayName> </Properties> </org.gk.render.RenderableProtein> <org.gk.render.RenderableProtein id="141" reactomeId="452976" position="408 226" bounds="384 215 49 23" textPosition="390 215"> <Properties> <displayName>TBXT</displayName> </Properties> </org.gk.render.RenderableProtein> <org.gk.render.RenderableRNA id="143" reactomeId="9827615" position="764 114" bounds="690 94 149 40" textPosition="702 103"> <Properties> <displayName>GATA6-AS1 lncRNA</displayName> </Properties> </org.gk.render.RenderableRNA> <org.gk.render.RenderableRNA id="180" reactomeId="9827604" position="155 117" bounds="88 98 135 38" textPosition="103 106"> <Properties> <displayName>DEANR1 lncRNA</displayName> </Properties> </org.gk.render.RenderableRNA> <org.gk.render.RenderableRNA id="181" reactomeId="9827637" position="105 576" bounds="70 549 70 54" textPosition="79 558"> <Properties> <displayName>DIGIT lncRNA</displayName> </Properties> </org.gk.render.RenderableRNA> <org.gk.render.RenderableGene id="182" reactomeId="8960723" position="786 414" bounds="746 389 81 51" textPosition="746 416"> <Properties> <displayName>CXCR4 gene</displayName> </Properties> </org.gk.render.RenderableGene> <org.gk.render.RenderableProtein id="184" reactomeId="452976" position="690 351" bounds="666 340 49 23" textPosition="672 340" /> </Nodes> <Edges> <org.gk.render.RenderableReaction id="3" reactomeId="9823958" points="232 161, 244 192, 258 234" position="244 192" lineWidth="1.0" reactionType="Association"> <Inputs> <Input id="6" points="187 153" /> <Input id="12" points="307 115" /> <Input id="46" points="646 294, 510 161" /> <Input id="4" points="480 60, 229 66" /> <Input id="141" points="381 216" /> <Input id="180" points="188 131" /> </Inputs> <Outputs> <Output id="7" /> </Outputs> <Properties> <displayName>EOMES, TBXT (T BRACHYURY), GATA6, and SMAD2,3 bind the FOXA2 gene</displayName> </Properties> </org.gk.render.RenderableReaction> <org.gk.render.RenderableReaction id="8" reactomeId="9823989" points="187 153, 185 309, 185 343" position="185 309" lineWidth="1.0" reactionType="Uncertain Process"> <Inputs> <Input id="6" /> </Inputs> <Outputs> <Output id="9" /> </Outputs> <Activators> <Activator id="7" points="220 292" /> </Activators> <Properties> <displayName>Expression of FOXA2 in definitive endoderm</displayName> </Properties> </org.gk.render.RenderableReaction> <org.gk.render.RenderableReaction id="42" reactomeId="9823959" points="664 125, 698 157, 717 179" position="698 157" lineWidth="1.0" reactionType="Association"> <Inputs> <Input id="43" points="652 139" /> <Input id="143" points="687 122" /> <Input id="12" points="418 100" /> </Inputs> <Outputs> <Output id="44" /> </Outputs> <Properties> <displayName>SMAD2,3 and GATA6-AS1 lncRNA bind the GATA6 gene</displayName> </Properties> </org.gk.render.RenderableReaction> <org.gk.render.RenderableReaction id="45" reactomeId="9823977" points="652 139, 654 256, 659 294" position="654 256" lineWidth="1.0" reactionType="Uncertain Process"> <Inputs> <Input id="43" /> </Inputs> <Outputs> <Output id="46" /> </Outputs> <Activators> <Activator id="44" points="694 236" /> </Activators> <Properties> <displayName>Expression of GATA6 in definitive endoderm</displayName> </Properties> </org.gk.render.RenderableReaction> <org.gk.render.RenderableReaction id="61" reactomeId="9823729" points="353 382, 347 515, 349 551" position="347 515" lineWidth="1.0" reactionType="Uncertain Process"> <Inputs> <Input id="50" /> </Inputs> <Outputs> <Output id="62" /> </Outputs> <Activators> <Activator id="51" points="368 508" /> <Activator id="63" points="238 442" /> </Activators> <Properties> <displayName>Expression of SOX17 in definitive endoderm</displayName> </Properties> </org.gk.render.RenderableReaction> <org.gk.render.RenderableReaction id="64" reactomeId="9823836" points="641 401, 670 410, 672 442" position="670 410" lineWidth="1.0" reactionType="Association"> <Inputs> <Input id="65" points="612 393" /> <Input id="46" points="658 331" /> <Input id="12" points="418 93, 921 94, 912 301" /> <Input id="140" points="613 376" /> <Input id="184" points="678 366" /> </Inputs> <Outputs> <Output id="66" /> </Outputs> <Properties> <displayName>SMAD2,3, FOXA2, TBXT, and GATA6 bind the GATA4 gene</displayName> </Properties> </org.gk.render.RenderableReaction> <org.gk.render.RenderableReaction id="85" reactomeId="9823849" points="612 393, 609 528, 608 568" position="609 528" lineWidth="1.0" reactionType="Uncertain Process"> <Inputs> <Input id="65" /> </Inputs> <Outputs> <Output id="48" /> </Outputs> <Activators> <Activator id="66" points="633 512" /> </Activators> <Properties> <displayName>Expression of GATA4 in definitive endoderm</displayName> </Properties> </org.gk.render.RenderableReaction> <org.gk.render.RenderableReaction id="104" reactomeId="9823966" points="214 471, 214 504, 207 539" position="214 504" lineWidth="1.0" reactionType="Association"> <Inputs> <Input id="105" points="151 461" /> <Input id="4" points="480 60, 54 68, 55 416" /> <Input id="63" points="217 442" /> <Input id="12" points="242 93, 61 94, 64 406" /> </Inputs> <Outputs> <Output id="106" /> </Outputs> <Properties> <displayName>EOMES, SMAD2,3, MIXL1 bind the GSC gene</displayName> </Properties> </org.gk.render.RenderableReaction> <org.gk.render.RenderableReaction id="107" reactomeId="9823992" points="151 461, 153 677, 153 719" position="153 677" lineWidth="1.0" reactionType="Uncertain Process"> <Inputs> <Input id="105" /> </Inputs> <Outputs> <Output id="108" /> </Outputs> <Activators> <Activator id="106" points="180 626" /> <Activator id="181" points="117 598" /> </Activators> <Properties> <displayName>Expression of GSC in definitive endoderm</displayName> </Properties> </org.gk.render.RenderableReaction> <org.gk.render.RenderableReaction id="114" reactomeId="9823952" points="979 339, 980 395, 982 439" position="980 395" lineWidth="1.0" reactionType="Association"> <Inputs> <Input id="12" points="418 91, 969 83" /> <Input id="182" points="836 391" /> <Input id="46" points="702 315" /> <Input id="4" points="537 60, 977 73" /> </Inputs> <Outputs> <Output id="116" /> </Outputs> <Properties> <displayName>EOMES, SMAD2,3, and GATA6 bind the CXCR4 gene</displayName> </Properties> </org.gk.render.RenderableReaction> <org.gk.render.RenderableReaction id="117" reactomeId="9823950" points="836 391, 917 616, 925 837" position="917 616" lineWidth="1.0" reactionType="Uncertain Process"> <Inputs> <Input id="182" /> </Inputs> <Outputs> <Output id="118" /> </Outputs> <Activators> <Activator id="116" points="969 509" /> </Activators> <Properties> <displayName>Expression of CXCR4 in definitive endoderm</displayName> </Properties> </org.gk.render.RenderableReaction> <org.gk.render.RenderableReaction id="119" reactomeId="9823995" points="312 625, 350 650, 360 838" position="350 650" lineWidth="1.0" reactionType="Uncertain Process"> <Inputs> <Input id="120" /> </Inputs> <Outputs> <Output id="121" /> </Outputs> <Activators> <Activator id="62" points="350 587" /> <Activator id="63" points="226 442, 304 593" /> </Activators> <Properties> <displayName>Expression of E-cadherin (CDH1) in definitive endoderm</displayName> </Properties> </org.gk.render.RenderableReaction> <org.gk.render.RenderableReaction id="142" reactomeId="9824472" points="470 359, 439 405, 437 442" position="439 405" lineWidth="1.0" reactionType="Association"> <Inputs> <Input id="63" points="223 408, 237 371" /> <Input id="46" points="623 320" /> <Input id="12" points="418 103, 485 112" /> <Input id="141" points="413 241" /> <Input id="49" points="531 306" /> <Input id="9" points="221 359" /> <Input id="50" points="353 382" /> <Input id="48" points="579 568, 550 554" /> <Input id="4" points="506 77" /> </Inputs> <Outputs> <Output id="51" /> </Outputs> <Properties> <displayName>TCF7L2:CTNNB1, EOMES, TBXT, MIXL1, SMAD2,3, FOXA2, GATA4, and GATA6 bind the SOX17 gene</displayName> </Properties> </org.gk.render.RenderableReaction> </Edges> <Pathways /> </Process>
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