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<notes>
<body xmlns="http://www.w3.org/1999/xhtml">Two types of distinct cardiac progenitor cell populations can be identified during early heart development: the first heart field (FHF) and second heart field (SHF) lineage that later form the mature heart. They can be characterized by differential expression of transcription and signaling factors. These regulatory factors influence each other forming a gene regulatory network. Here, we present a core gene regulatory network for early cardiac development based on published temporal and spatial expression data of genes and their interactions. This gene regulatory network was implemented in a Boolean computational model. Simulations reveal stable states within the network model, which correspond to the regulatory states of the FHF and the SHF lineages. Furthermore, we are able to reproduce the expected temporal expression patterns of early cardiac factors mimicking developmental progression. Additionally, simulations of knock-down experiments within our model resemble published phenotypes of mutant mice. Consequently, this gene regulatory network retraces the early steps and requirements of cardiogenic mesoderm determination in a way appropriate to enhance the understanding of heart development.</body>
</notes>
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<vCard:Family>Helikar</vCard:Family>
<vCard:Given>Tomas</vCard:Given>
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<vCard:EMAIL>thelika@unmc.edu</vCard:EMAIL>
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<vCard:Orgname>University of Nebraska - Lincoln</vCard:Orgname>
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<body xmlns="http://www.w3.org/1999/xhtml">
<p>External signaling factor BMP2 number 1<div><br/></div></p></body>
</notes>
<annotation>
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<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>Exogenous canonical Wnt signaling II</p></body>
</notes>
<annotation>
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<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>Transcription factor GATA-4 (human)<div>UniProt AccessionID:&nbsp;<a href="http://www.uniprot.org/uniprot/P43694" style="font-size: small; text-decoration: none; font-family: sans-serif; background-color: rgb(255, 255, 255);">P43694</a></div><div>Transcription factor GATA-4 (mouse)<div>UniProt AccessionID:&nbsp;<a href="http://www.uniprot.org/uniprot/Q08369" style="font-size: small; text-decoration: none; font-family: sans-serif; background-color: rgb(255, 255, 255);">Q08369</a></div></div></p></body>
</notes>
<annotation>
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<rdf:Bag>
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<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>Transcription factor Mesp1&nbsp;<div>Human<br/><div>UniProt AccessionID:&nbsp;<a href="http://www.uniprot.org/uniprot/Q9BRJ9" style="font-size: small; text-decoration: none; font-family: sans-serif; background-color: rgb(255, 255, 255);">Q9BRJ9</a></div></div><div>Mouse</div><div>UniProt AccessionID:&nbsp;<a href="http://www.uniprot.org/uniprot/P97309" style="font-size: small; text-decoration: none; font-family: sans-serif; background-color: rgb(255, 255, 255);">P97309</a></div></p></body>
</notes>
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<rdf:Bag>
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<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>T-box transcription factor 1<div>Mouse</div><div>UniProt AccessionID:&nbsp;<a href="http://www.uniprot.org/uniprot/P70323" style="font-size: small; text-decoration: none; font-family: sans-serif; background-color: rgb(255, 255, 255);">P70323</a></div></p></body>
</notes>
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<dcterms:W3CDTF>2017-05-15T14:35:46Z</dcterms:W3CDTF>
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<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:pubmed:16444712"/>
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<bqbiol:isDescribedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:pubmed:23056457"/>
</rdf:Bag>
</bqbiol:isDescribedBy>
<bqbiol:isDescribedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:pubmed:16839542"/>
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<qual:qualitativeSpecies metaid="_80c67fcb-a5c1-4947-a677-c4b825892d92" qual:compartment="cytosol" qual:constant="false" qual:id="S_5" qual:initialLevel="0" qual:maxLevel="1" qual:name="Isl1">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p><span style="font-family: arial, helvetica, clean, sans-serif; line-height: 17px; background-color: rgb(255, 255, 255);">LIM homeodomain transcription factor&nbsp;</span><span class="highlight" style="font-family: arial, helvetica, clean, sans-serif; line-height: 17px; background-color: rgb(242, 245, 248);">Islet1 (mouse)</span><div><font face="arial, helvetica, clean, sans-serif"><span style="line-height: 17px;">UniProt AccessionID:&nbsp;</span></font><a href="http://www.uniprot.org/uniprot/A2RSV5" style="text-decoration: none; font-family: sans-serif; font-size: small; background-color: rgb(255, 255, 255);">A2RSV5</a><font face="arial, helvetica, clean, sans-serif"><span style="line-height: 17px;"><br/></span></font><div style="font-family: Arial, Verdana; line-height: normal;"><span class="highlight" style="background-color: rgb(242, 245, 248); font-family: arial, helvetica, clean, sans-serif; line-height: 17px;"><br/></span></div><div style="font-family: Arial, Verdana; line-height: normal;"><span class="highlight" style="background-color: rgb(242, 245, 248); font-family: arial, helvetica, clean, sans-serif; line-height: 17px;"><br/></span></div></div></p></body>
</notes>
<annotation>
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<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:pubmed:18000065"/>
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</bqbiol:isDescribedBy>
<bqbiol:isDescribedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:pubmed:17519333"/>
</rdf:Bag>
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<bqbiol:isDescribedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:pubmed:18328475"/>
</rdf:Bag>
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<bqbiol:isDescribedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:pubmed:16720879"/>
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<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:pubmed:18593559"/>
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</annotation>
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<qual:qualitativeSpecies metaid="f7f6c179-12f4-4f0f-88b4-6cee4197a1c3" qual:compartment="cytosol" qual:constant="false" qual:id="S_6" qual:initialLevel="0" qual:maxLevel="1" qual:name="Bmp2">
<notes>
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<p><div>Bone morphogenetic protein 2 (mouse)</div>Endothermal signal<div>UniProt Accession ID:&nbsp;<a href="http://www.uniprot.org/uniprot/P21274" style="font-size: small; text-decoration: none; font-family: sans-serif; background-color: rgb(255, 255, 255);">P21274</a></div></p></body>
</notes>
<annotation>
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<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:pubmed:23056457"/>
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</annotation>
</qual:qualitativeSpecies>
<qual:qualitativeSpecies metaid="de9b08d9-ab86-4ab7-baaa-cfd5d19fd8a0" qual:compartment="cytosol" qual:constant="false" qual:id="S_7" qual:initialLevel="0" qual:maxLevel="1" qual:name="Nkx2_5">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>Early cardiac regulatory gene Nkx-2.5<div>Human</div><div>UniProt AccessionID:&nbsp;<a href="http://www.uniprot.org/uniprot/P52952" style="text-decoration: none; font-family: sans-serif; font-size: small; background-color: rgb(255, 255, 255);">P52952</a></div><div>Mouse</div><div>UniProt AccessionID:&nbsp;<a href="http://www.uniprot.org/uniprot/P42582" style="text-decoration: none; font-family: sans-serif; font-size: small; background-color: rgb(255, 255, 255);">P42582</a><br/><div><br/><div><br/></div></div></div></p></body>
</notes>
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<rdf:Bag>
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<bqbiol:isDescribedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:pubmed:14662776"/>
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<bqbiol:isDescribedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:pubmed:18593559"/>
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<bqbiol:isDescribedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:pubmed:18297060"/>
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</bqbiol:isDescribedBy>
<bqbiol:isDescribedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:pubmed:15843409"/>
</rdf:Bag>
</bqbiol:isDescribedBy>
<bqbiol:isDescribedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:pubmed:11944934"/>
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</rdf:RDF>
</annotation>
</qual:qualitativeSpecies>
<qual:qualitativeSpecies metaid="_3f829cc1-5ed8-493d-b543-9aa5a7f96a2d" qual:compartment="cytosol" qual:constant="false" qual:id="S_8" qual:initialLevel="0" qual:maxLevel="1" qual:name="Foxc1_2">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>Forkhead box protein C1<div>UniProt AccessionID:&nbsp;<a href="http://www.uniprot.org/uniprot/Q12948" style="font-size: small; text-decoration: none; font-family: sans-serif; background-color: rgb(255, 255, 255);">Q12948</a></div><div>Forkhead box protein C2</div><div>UniProt AccessionID:&nbsp;<a href="http://www.uniprot.org/uniprot/Q99958" style="font-size: small; text-decoration: none; font-family: sans-serif; background-color: rgb(255, 255, 255);">Q99958</a></div></p></body>
</notes>
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#_3f829cc1-5ed8-493d-b543-9aa5a7f96a2d">
<dcterms:modified rdf:parseType="Resource">
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</dcterms:modified>
<bqbiol:isDescribedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:pubmed:17360443"/>
</rdf:Bag>
</bqbiol:isDescribedBy>
<bqbiol:isDescribedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:pubmed:23056457"/>
</rdf:Bag>
</bqbiol:isDescribedBy>
<bqbiol:isDescribedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:pubmed:19782461"/>
</rdf:Bag>
</bqbiol:isDescribedBy>
</rdf:Description>
</rdf:RDF>
</annotation>
</qual:qualitativeSpecies>
<qual:qualitativeSpecies metaid="_5844665f-e82c-4a21-9470-15231116e3c0" qual:compartment="cytosol" qual:constant="false" qual:id="S_9" qual:initialLevel="0" qual:maxLevel="1" qual:name="Tbx5">
<notes>
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<p>T-box transcription factor TBX5</p><p>Gene Name: TBX5</p><p>UniProt ID: Q99593</p><p>Gene ID: 6910</p><p>FHF transcription factor</p></body>
</notes>
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/">
<rdf:Description rdf:about="#_5844665f-e82c-4a21-9470-15231116e3c0">
<dcterms:modified rdf:parseType="Resource">
<dcterms:W3CDTF>2017-05-15T14:35:46Z</dcterms:W3CDTF>
</dcterms:modified>
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</rdf:RDF>
</annotation>
</qual:qualitativeSpecies>
<qual:qualitativeSpecies metaid="_79318bc6-a3a9-4935-b270-f8d1f109990c" qual:compartment="cytosol" qual:constant="false" qual:id="S_10" qual:initialLevel="0" qual:maxLevel="1" qual:name="Fgf8">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>Fibroblast growth factor 8 (mouse)<div>UniProt Accession ID:&nbsp;<a href="http://www.uniprot.org/uniprot/P37237" style="font-size: small; text-decoration: none; font-family: sans-serif; background-color: rgb(255, 255, 255);">P37237</a></div><div>Fibroblast growth factor 8 (human)<div>UniProt Accession ID:&nbsp;<a href="http://www.uniprot.org/uniprot/P55075" style="font-size: small; text-decoration: none; font-family: sans-serif; background-color: rgb(255, 255, 255);">P55075</a></div></div></p></body>
</notes>
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#_79318bc6-a3a9-4935-b270-f8d1f109990c">
<dcterms:modified rdf:parseType="Resource">
<dcterms:W3CDTF>2015-11-15T17:58:42Z</dcterms:W3CDTF>
</dcterms:modified>
<bqbiol:isDescribedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:pubmed:15469978"/>
</rdf:Bag>
</bqbiol:isDescribedBy>
<bqbiol:isDescribedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:pubmed:16839542"/>
</rdf:Bag>
</bqbiol:isDescribedBy>
<bqbiol:isDescribedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:pubmed:18593560"/>
</rdf:Bag>
</bqbiol:isDescribedBy>
<bqbiol:isDescribedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:pubmed:23056457"/>
</rdf:Bag>
</bqbiol:isDescribedBy>
</rdf:Description>
</rdf:RDF>
</annotation>
</qual:qualitativeSpecies>
<qual:qualitativeSpecies metaid="b17c1189-e29b-4c9f-8077-7ad98d88efc2" qual:compartment="cytosol" qual:constant="false" qual:id="S_11" qual:initialLevel="0" qual:maxLevel="1" qual:name="exogen_BMP2_II">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>Exogenous BMP2</p></body>
</notes>
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#b17c1189-e29b-4c9f-8077-7ad98d88efc2">
<dcterms:modified rdf:parseType="Resource">
<dcterms:W3CDTF>2015-11-15T17:58:42Z</dcterms:W3CDTF>
</dcterms:modified>
<bqbiol:isDescribedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:pubmed:23056457"/>
</rdf:Bag>
</bqbiol:isDescribedBy>
</rdf:Description>
</rdf:RDF>
</annotation>
</qual:qualitativeSpecies>
<qual:qualitativeSpecies metaid="_44d05edd-3cfb-475b-9e0c-feec362b2741" qual:compartment="cytosol" qual:constant="false" qual:id="S_13" qual:initialLevel="0" qual:maxLevel="1" qual:name="Dkk1">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p><div>(Human)</div>Uniprot Accession ID:&nbsp;<a href="http://www.uniprot.org/uniprot/O94907" style="text-decoration: none; font-family: sans-serif; font-size: small; background-color: rgb(255, 255, 255);">O94907</a><div>(Mouse)</div><div>UniProt Accession ID:&nbsp;<a href="http://www.uniprot.org/uniprot/O54908" style="font-size: small; text-decoration: none; font-family: sans-serif; background-color: rgb(255, 255, 255);">O54908</a></div></p></body>
</notes>
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#_44d05edd-3cfb-475b-9e0c-feec362b2741">
<dcterms:modified rdf:parseType="Resource">
<dcterms:W3CDTF>2015-11-15T17:58:42Z</dcterms:W3CDTF>
</dcterms:modified>
<bqbiol:isDescribedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:pubmed:23056457"/>
</rdf:Bag>
</bqbiol:isDescribedBy>
<bqbiol:isDescribedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:pubmed:18297060"/>
</rdf:Bag>
</bqbiol:isDescribedBy>
<bqbiol:isDescribedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:pubmed:17522258"/>
</rdf:Bag>
</bqbiol:isDescribedBy>
</rdf:Description>
</rdf:RDF>
</annotation>
</qual:qualitativeSpecies>
<qual:qualitativeSpecies metaid="_99725dd2-0f20-477f-90ae-af015a841f4e" qual:compartment="cytosol" qual:constant="false" qual:id="S_14" qual:initialLevel="0" qual:maxLevel="1" qual:name="canWnt">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>Canonical Wnt signaling<div>Wnt-3a (mouse)</div><div>UniProt Accession ID:&nbsp;<a href="http://www.uniprot.org/uniprot/P27467" style="font-size: small; text-decoration: none; font-family: sans-serif; background-color: rgb(255, 255, 255);">P27467</a></div></p></body>
</notes>
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#_99725dd2-0f20-477f-90ae-af015a841f4e">
<dcterms:modified rdf:parseType="Resource">
<dcterms:W3CDTF>2017-05-15T14:35:46Z</dcterms:W3CDTF>
</dcterms:modified>
<bqbiol:isDescribedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:pubmed:23056457"/>
</rdf:Bag>
</bqbiol:isDescribedBy>
</rdf:Description>
</rdf:RDF>
</annotation>
</qual:qualitativeSpecies>
<qual:qualitativeSpecies metaid="_60289ce2-75d8-4c81-9870-232b61a3a5f2" qual:compartment="cytosol" qual:constant="false" qual:id="S_15" qual:initialLevel="0" qual:maxLevel="1" qual:name="exogen_CanWnt_I">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>Exogenous canonical Wnt signaling</p></body>
</notes>
<annotation>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
<rdf:Description rdf:about="#_60289ce2-75d8-4c81-9870-232b61a3a5f2">
<dcterms:modified rdf:parseType="Resource">
<dcterms:W3CDTF>2015-11-15T17:58:42Z</dcterms:W3CDTF>
</dcterms:modified>
<bqbiol:isDescribedBy>
<rdf:Bag>
<rdf:li rdf:resource="urn:miriam:pubmed:23056457"/>
</rdf:Bag>
</bqbiol:isDescribedBy>
</rdf:Description>
</rdf:RDF>
</annotation>
</qual:qualitativeSpecies>
</qual:listOfQualitativeSpecies>
<qual:listOfTransitions xmlns:qual="http://www.sbml.org/sbml/level3/version1/qual/version1">
<qual:transition qual:id="tr_S_1">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>exong_canWnt_I positively regulates exogen_canWnt_II [1].</p></body>
</notes>
<qual:listOfInputs>
<qual:input qual:id="tr_S_1_in_S_15" qual:qualitativeSpecies="S_15" qual:sign="positive" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>exong_canWnt_I positively regulates exogen_canWnt_II {[1]}</p></body>
</notes>
</qual:input>
</qual:listOfInputs>
<qual:listOfOutputs>
<qual:output qual:qualitativeSpecies="S_1" qual:transitionEffect="assignmentLevel"/>
</qual:listOfOutputs>
<qual:listOfFunctionTerms>
<qual:defaultTerm qual:resultLevel="0">
</qual:defaultTerm>
<qual:functionTerm qual:resultLevel="1">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci> S_15 </ci>
<cn type="integer"> 1 </cn>
</apply>
</math>
</qual:functionTerm>
</qual:listOfFunctionTerms>
</qual:transition>
<qual:transition qual:id="tr_S_2">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>Nkx2_5, Mesp1, and Tbx5 all independently up regulate GATAs [1,2,3,4,5,6].</p></body>
</notes>
<qual:listOfInputs>
<qual:input qual:id="tr_S_2_in_S_3" qual:qualitativeSpecies="S_3" qual:sign="positive" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>Mesp1 positively regulates GATAs {[1][2][3][4]}</p></body>
</notes>
</qual:input>
<qual:input qual:id="tr_S_2_in_S_9" qual:qualitativeSpecies="S_9" qual:sign="positive" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>Tbx5 up regulates GATAs {[1][6]}</p></body>
</notes>
</qual:input>
<qual:input qual:id="tr_S_2_in_S_7" qual:qualitativeSpecies="S_7" qual:sign="positive" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>Nkx2_5 positively regulates GATAs {[1][5]}</p></body>
</notes>
</qual:input>
</qual:listOfInputs>
<qual:listOfOutputs>
<qual:output qual:qualitativeSpecies="S_2" qual:transitionEffect="assignmentLevel"/>
</qual:listOfOutputs>
<qual:listOfFunctionTerms>
<qual:defaultTerm qual:resultLevel="0">
</qual:defaultTerm>
<qual:functionTerm qual:resultLevel="1">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<or/>
<apply>
<or/>
<apply>
<eq/>
<ci> S_3 </ci>
<cn type="integer"> 1 </cn>
</apply>
<apply>
<eq/>
<ci> S_9 </ci>
<cn type="integer"> 1 </cn>
</apply>
</apply>
<apply>
<eq/>
<ci> S_7 </ci>
<cn type="integer"> 1 </cn>
</apply>
</apply>
</math>
</qual:functionTerm>
</qual:listOfFunctionTerms>
</qual:transition>
<qual:transition qual:id="tr_S_3">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>canWnt positively regulates Mesp1 [1,2]. exogen_BMP2_II negatively regulates Mesp1 [1].</p></body>
</notes>
<qual:listOfInputs>
<qual:input qual:id="tr_S_3_in_S_14" qual:qualitativeSpecies="S_14" qual:sign="positive" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>Early canonical Wnt is required for the cardiac specific activation of Mesp1 {[1][2]}</p></body>
</notes>
</qual:input>
<qual:input qual:id="tr_S_3_in_S_11" qual:qualitativeSpecies="S_11" qual:sign="negative" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p><span style="color: rgb(79, 79, 79); font-family: Arial, sans-serif; font-size: 12px; line-height: 18px; orphans: 3; widows: 3; background-color: rgb(255, 255, 255);">exogen_BMP2_II negatively regulates Mesp1 {[1]}</span></p></body>
</notes>
</qual:input>
</qual:listOfInputs>
<qual:listOfOutputs>
<qual:output qual:qualitativeSpecies="S_3" qual:transitionEffect="assignmentLevel"/>
</qual:listOfOutputs>
<qual:listOfFunctionTerms>
<qual:defaultTerm qual:resultLevel="0">
</qual:defaultTerm>
<qual:functionTerm qual:resultLevel="1">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<and/>
<apply>
<eq/>
<ci> S_14 </ci>
<cn type="integer"> 1 </cn>
</apply>
<apply>
<not/>
<apply>
<eq/>
<ci> S_11 </ci>
<cn type="integer"> 1 </cn>
</apply>
</apply>
</apply>
</math>
</qual:functionTerm>
</qual:listOfFunctionTerms>
</qual:transition>
<qual:transition qual:id="tr_S_4">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>Foxc1_2 positively regulates Tbx1 [1,2,3].</p></body>
</notes>
<qual:listOfInputs>
<qual:input qual:id="tr_S_4_in_S_8" qual:qualitativeSpecies="S_8" qual:sign="positive" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>Foxc1_2 positively regulates Tbx1 {[1][2][3]}</p></body>
</notes>
</qual:input>
</qual:listOfInputs>
<qual:listOfOutputs>
<qual:output qual:qualitativeSpecies="S_4" qual:transitionEffect="assignmentLevel"/>
</qual:listOfOutputs>
<qual:listOfFunctionTerms>
<qual:defaultTerm qual:resultLevel="0">
</qual:defaultTerm>
<qual:functionTerm qual:resultLevel="1">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci> S_8 </ci>
<cn type="integer"> 1 </cn>
</apply>
</math>
</qual:functionTerm>
</qual:listOfFunctionTerms>
</qual:transition>
<qual:transition qual:id="tr_S_5">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>CanWnt in conjunction with exogen_canWnt_II up regulates Isl1 [1,2,3]. Fgf8 positively regulates Isl1 [1,4]. Mesp1 positively regulates Isl1 [1,5,6]. Tbx1 positively regulates Isl1 [1,7].</p></body>
</notes>
<qual:listOfInputs>
<qual:input qual:id="tr_S_5_in_S_14" qual:qualitativeSpecies="S_14" qual:sign="positive" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>canWnt in conjunction with exogen_canWnt_II up regulates Isl1 {[1][2][3]}</p></body>
</notes>
</qual:input>
<qual:input qual:id="tr_S_5_in_S_3" qual:qualitativeSpecies="S_3" qual:sign="positive" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p><span style="color: rgb(79, 79, 79); font-family: Arial, sans-serif; font-size: 12px; line-height: 18px; orphans: 3; widows: 3; background-color: rgb(255, 255, 255);">Mesp1 positively regulates Isl1 {[1][5][6]}</span></p></body>
</notes>
</qual:input>
<qual:input qual:id="tr_S_5_in_S_1" qual:qualitativeSpecies="S_1" qual:sign="positive" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>canWnt in conjunction with exogen_canWnt_II up regulates Isl1 {[1][2][3]}</p></body>
</notes>
</qual:input>
<qual:input qual:id="tr_S_5_in_S_10" qual:qualitativeSpecies="S_10" qual:sign="positive" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p><span style="color: rgb(79, 79, 79); font-family: Arial, sans-serif; font-size: 12px; line-height: 18px; orphans: 3; widows: 3; background-color: rgb(255, 255, 255);">Fgf8 positively regulates Isl1 {[1][4]}</span></p></body>
</notes>
</qual:input>
<qual:input qual:id="tr_S_5_in_S_4" qual:qualitativeSpecies="S_4" qual:sign="positive" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p><span style="color: rgb(79, 79, 79); font-family: Arial, sans-serif; font-size: 12px; line-height: 18px; orphans: 3; widows: 3; background-color: rgb(255, 255, 255);">Tbx1 positively regulates Isl1 {[1][7]}</span></p></body>
</notes>
</qual:input>
</qual:listOfInputs>
<qual:listOfOutputs>
<qual:output qual:qualitativeSpecies="S_5" qual:transitionEffect="assignmentLevel"/>
</qual:listOfOutputs>
<qual:listOfFunctionTerms>
<qual:defaultTerm qual:resultLevel="0">
</qual:defaultTerm>
<qual:functionTerm qual:resultLevel="1">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<or/>
<apply>
<or/>
<apply>
<or/>
<apply>
<eq/>
<ci> S_4 </ci>
<cn type="integer"> 1 </cn>
</apply>
<apply>
<and/>
<apply>
<eq/>
<ci> S_14 </ci>
<cn type="integer"> 1 </cn>
</apply>
<apply>
<eq/>
<ci> S_1 </ci>
<cn type="integer"> 1 </cn>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci> S_3 </ci>
<cn type="integer"> 1 </cn>
</apply>
</apply>
<apply>
<eq/>
<ci> S_10 </ci>
<cn type="integer"> 1 </cn>
</apply>
</apply>
</math>
</qual:functionTerm>
</qual:listOfFunctionTerms>
</qual:transition>
<qual:transition qual:id="tr_S_6">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>Bmp2 is negatively regulated by canWnt [1,2]. Bmp2 is positively regulated by exogen_BMP2_II [1].</p></body>
</notes>
<qual:listOfInputs>
<qual:input qual:id="tr_S_6_in_S_14" qual:qualitativeSpecies="S_14" qual:sign="negative" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p><span style="color: rgb(79, 79, 79); font-family: Arial, sans-serif; font-size: 12px; line-height: 18px; orphans: 3; widows: 3; background-color: rgb(255, 255, 255);">Bmp2 is negatively regulated by canWnt {[1][2]}</span></p></body>
</notes>
</qual:input>
<qual:input qual:id="tr_S_6_in_S_11" qual:qualitativeSpecies="S_11" qual:sign="positive" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p><span style="color: rgb(79, 79, 79); font-family: Arial, sans-serif; font-size: 12px; line-height: 18px; orphans: 3; widows: 3; background-color: rgb(255, 255, 255);">Bmp2 is positively regulated by exogen_BMP2_II [1]</span></p></body>
</notes>
</qual:input>
</qual:listOfInputs>
<qual:listOfOutputs>
<qual:output qual:qualitativeSpecies="S_6" qual:transitionEffect="assignmentLevel"/>
</qual:listOfOutputs>
<qual:listOfFunctionTerms>
<qual:defaultTerm qual:resultLevel="0">
</qual:defaultTerm>
<qual:functionTerm qual:resultLevel="1">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<and/>
<apply>
<eq/>
<ci> S_11 </ci>
<cn type="integer"> 1 </cn>
</apply>
<apply>
<not/>
<apply>
<eq/>
<ci> S_14 </ci>
<cn type="integer"> 1 </cn>
</apply>
</apply>
</apply>
</math>
</qual:functionTerm>
</qual:listOfFunctionTerms>
</qual:transition>
<qual:transition qual:id="tr_S_7">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>GATAs in conjunction with either Isl1 or Bmp2 up regulate Nkx2_5 [1,2,3,4].&nbsp;&nbsp;Mesp1 and Dkk1 in conjunction positively regulates Nkx2_5 [1,5,6,7].&nbsp;Tbx1 positively regulates Nkx2_5 [1,2].&nbsp;Tbx5 positively regulates Nkx2_5 [1,2,8].&nbsp;</p></body>
</notes>
<qual:listOfInputs>
<qual:input qual:id="tr_S_7_in_S_3" qual:qualitativeSpecies="S_3" qual:sign="positive" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p><span style="color: rgb(79, 79, 79); font-family: Arial, sans-serif; font-size: 12px; line-height: 18px; orphans: 3; widows: 3; background-color: rgb(255, 255, 255);">Mesp1 and Dkk1 in conjunction positively regulate Nkx2_5 {[1][5][6][7]}</span></p></body>
</notes>
</qual:input>
<qual:input qual:id="tr_S_7_in_S_5" qual:qualitativeSpecies="S_5" qual:sign="positive" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p><span style="color: rgb(79, 79, 79); font-family: Arial, sans-serif; font-size: 12px; line-height: 18px; orphans: 3; widows: 3; background-color: rgb(255, 255, 255);">Isl1 and GATAs in conjunction up-regulate Nkx2_5 {[1][2][3]}</span></p></body>
</notes>
</qual:input>
<qual:input qual:id="tr_S_7_in_S_9" qual:qualitativeSpecies="S_9" qual:sign="positive" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p><span style="color: rgb(79, 79, 79); font-family: Arial, sans-serif; font-size: 12px; line-height: 18px; orphans: 3; widows: 3; background-color: rgb(255, 255, 255);">Tbx5 positively regulates Nkx2_5 {[1][2][8]}</span></p></body>
</notes>
</qual:input>
<qual:input qual:id="tr_S_7_in_S_2" qual:qualitativeSpecies="S_2" qual:sign="positive" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p><span style="color: rgb(79, 79, 79); font-family: Arial, sans-serif; font-size: 12px; line-height: 18px; orphans: 3; widows: 3; background-color: rgb(255, 255, 255);">Bmp2 and GATAs in conjunction positively regulate Nkx2_5 {[1][3][4]}</span><div><span style="color: rgb(79, 79, 79); font-family: Arial, sans-serif; font-size: 12px; line-height: 18px; orphans: 3; widows: 3; background-color: rgb(255, 255, 255);">Isl1 and GATAs in conjunction up-regulate Nkx2_5 {[1][2][3]}</span></div></p></body>
</notes>
</qual:input>
<qual:input qual:id="tr_S_7_in_S_6" qual:qualitativeSpecies="S_6" qual:sign="positive" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p><span style="color: rgb(79, 79, 79); font-family: Arial, sans-serif; font-size: 12px; line-height: 18px; orphans: 3; widows: 3; background-color: rgb(255, 255, 255);">Bmp2 and GATAs in conjunction positively regulate Nkx2_5 {[1][3][4]}</span></p></body>
</notes>
</qual:input>
<qual:input qual:id="tr_S_7_in_S_4" qual:qualitativeSpecies="S_4" qual:sign="positive" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p><span style="color: rgb(79, 79, 79); font-family: Arial, sans-serif; font-size: 12px; line-height: 18px; orphans: 3; widows: 3; background-color: rgb(255, 255, 255);">Tbx1 positively regulates Nkx2_5 {[1][2][8]}</span></p></body>
</notes>
</qual:input>
<qual:input qual:id="tr_S_7_in_S_13" qual:qualitativeSpecies="S_13" qual:sign="positive" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p><span style="color: rgb(79, 79, 79); font-family: Arial, sans-serif; font-size: 12px; line-height: 18px; orphans: 3; widows: 3; background-color: rgb(255, 255, 255);">Mesp1 and Dkk1 in conjunction positively regulate Nkx2_5 {[1][5][6][7]}</span></p></body>
</notes>
</qual:input>
</qual:listOfInputs>
<qual:listOfOutputs>
<qual:output qual:qualitativeSpecies="S_7" qual:transitionEffect="assignmentLevel"/>
</qual:listOfOutputs>
<qual:listOfFunctionTerms>
<qual:defaultTerm qual:resultLevel="0">
</qual:defaultTerm>
<qual:functionTerm qual:resultLevel="1">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<or/>
<apply>
<or/>
<apply>
<or/>
<apply>
<or/>
<apply>
<and/>
<apply>
<eq/>
<ci> S_3 </ci>
<cn type="integer"> 1 </cn>
</apply>
<apply>
<eq/>
<ci> S_13 </ci>
<cn type="integer"> 1 </cn>
</apply>
</apply>
<apply>
<and/>
<apply>
<eq/>
<ci> S_6 </ci>
<cn type="integer"> 1 </cn>
</apply>
<apply>
<eq/>
<ci> S_2 </ci>
<cn type="integer"> 1 </cn>
</apply>
</apply>
</apply>
<apply>
<and/>
<apply>
<eq/>
<ci> S_5 </ci>
<cn type="integer"> 1 </cn>
</apply>
<apply>
<eq/>
<ci> S_2 </ci>
<cn type="integer"> 1 </cn>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci> S_9 </ci>
<cn type="integer"> 1 </cn>
</apply>
</apply>
<apply>
<eq/>
<ci> S_4 </ci>
<cn type="integer"> 1 </cn>
</apply>
</apply>
</math>
</qual:functionTerm>
</qual:listOfFunctionTerms>
</qual:transition>
<qual:transition qual:id="tr_S_8">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>canWnt and exogen_canWnt_II independently positively regulate Foxc1_2 [1,2,3].</p></body>
</notes>
<qual:listOfInputs>
<qual:input qual:id="tr_S_8_in_S_14" qual:qualitativeSpecies="S_14" qual:sign="positive" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>canWnt positively regulates Foxc1_2 {[1][2][3]}</p></body>
</notes>
</qual:input>
<qual:input qual:id="tr_S_8_in_S_1" qual:qualitativeSpecies="S_1" qual:sign="positive" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>exogen_canWnt_II independently positively regulates Foxc1_2 {[1]}</p></body>
</notes>
</qual:input>
</qual:listOfInputs>
<qual:listOfOutputs>
<qual:output qual:qualitativeSpecies="S_8" qual:transitionEffect="assignmentLevel"/>
</qual:listOfOutputs>
<qual:listOfFunctionTerms>
<qual:defaultTerm qual:resultLevel="0">
</qual:defaultTerm>
<qual:functionTerm qual:resultLevel="1">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<and/>
<apply>
<eq/>
<ci> S_14 </ci>
<cn type="integer"> 1 </cn>
</apply>
<apply>
<eq/>
<ci> S_1 </ci>
<cn type="integer"> 1 </cn>
</apply>
</apply>
</math>
</qual:functionTerm>
</qual:listOfFunctionTerms>
</qual:transition>
<qual:transition qual:id="tr_S_9">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>Mesp1 activates Tbx5. Dkk1 inhibits Tbx5 when Mesp1 and Tbx5 are inactive. Tbx1 inhibits Tbx5. Tbx5 activates Tbx5. canWnt inhibits Tbx5. Nkx2_5 activates Tbx5.</p></body>
</notes>
<qual:listOfInputs>
<qual:input qual:id="tr_S_9_in_S_3" qual:qualitativeSpecies="S_3" qual:sign="dual" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>Mesp1 upregulates Tbx5 expression.</p></body>
</notes>
</qual:input>
<qual:input qual:id="tr_S_9_in_S_14" qual:qualitativeSpecies="S_14" qual:sign="negative" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>canWnt downregulates Tbx5.</p></body>
</notes>
</qual:input>
<qual:input qual:id="tr_S_9_in_S_7" qual:qualitativeSpecies="S_7" qual:sign="positive" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>Nkx2_5 upregulates Tbx5 expression.</p></body>
</notes>
</qual:input>
<qual:input qual:id="tr_S_9_in_S_9" qual:qualitativeSpecies="S_9" qual:sign="dual" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>Tbx5 upregulates Tbx5 expression.</p></body>
</notes>
</qual:input>
<qual:input qual:id="tr_S_9_in_S_4" qual:qualitativeSpecies="S_4" qual:sign="negative" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>Tbx1 downregulates Tbx5 expression.</p></body>
</notes>
</qual:input>
<qual:input qual:id="tr_S_9_in_S_13" qual:qualitativeSpecies="S_13" qual:sign="negative" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>Dkk1 downregulates Tbx5 expression.</p></body>
</notes>
</qual:input>
</qual:listOfInputs>
<qual:listOfOutputs>
<qual:output qual:qualitativeSpecies="S_9" qual:transitionEffect="assignmentLevel"/>
</qual:listOfOutputs>
<qual:listOfFunctionTerms>
<qual:defaultTerm qual:resultLevel="0">
</qual:defaultTerm>
<qual:functionTerm qual:resultLevel="1">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<or/>
<apply>
<or/>
<apply>
<and/>
<apply>
<eq/>
<ci> S_9 </ci>
<cn type="integer"> 1 </cn>
</apply>
<apply>
<not/>
<apply>
<or/>
<apply>
<or/>
<apply>
<eq/>
<ci> S_4 </ci>
<cn type="integer"> 1 </cn>
</apply>
<apply>
<eq/>
<ci> S_14 </ci>
<cn type="integer"> 1 </cn>
</apply>
</apply>
<apply>
<and/>
<apply>
<eq/>
<ci> S_13 </ci>
<cn type="integer"> 1 </cn>
</apply>
<apply>
<and/>
<apply>
<not/>
<apply>
<eq/>
<ci> S_3 </ci>
<cn type="integer"> 1 </cn>
</apply>
</apply>
<apply>
<not/>
<apply>
<eq/>
<ci> S_9 </ci>
<cn type="integer"> 1 </cn>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
<apply>
<and/>
<apply>
<eq/>
<ci> S_3 </ci>
<cn type="integer"> 1 </cn>
</apply>
<apply>
<not/>
<apply>
<or/>
<apply>
<or/>
<apply>
<eq/>
<ci> S_4 </ci>
<cn type="integer"> 1 </cn>
</apply>
<apply>
<eq/>
<ci> S_14 </ci>
<cn type="integer"> 1 </cn>
</apply>
</apply>
<apply>
<and/>
<apply>
<eq/>
<ci> S_13 </ci>
<cn type="integer"> 1 </cn>
</apply>
<apply>
<and/>
<apply>
<not/>
<apply>
<eq/>
<ci> S_3 </ci>
<cn type="integer"> 1 </cn>
</apply>
</apply>
<apply>
<not/>
<apply>
<eq/>
<ci> S_9 </ci>
<cn type="integer"> 1 </cn>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
<apply>
<and/>
<apply>
<eq/>
<ci> S_7 </ci>
<cn type="integer"> 1 </cn>
</apply>
<apply>
<not/>
<apply>
<or/>
<apply>
<or/>
<apply>
<eq/>
<ci> S_4 </ci>
<cn type="integer"> 1 </cn>
</apply>
<apply>
<eq/>
<ci> S_14 </ci>
<cn type="integer"> 1 </cn>
</apply>
</apply>
<apply>
<and/>
<apply>
<eq/>
<ci> S_13 </ci>
<cn type="integer"> 1 </cn>
</apply>
<apply>
<and/>
<apply>
<not/>
<apply>
<eq/>
<ci> S_3 </ci>
<cn type="integer"> 1 </cn>
</apply>
</apply>
<apply>
<not/>
<apply>
<eq/>
<ci> S_9 </ci>
<cn type="integer"> 1 </cn>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
</math>
</qual:functionTerm>
</qual:listOfFunctionTerms>
</qual:transition>
<qual:transition qual:id="tr_S_10">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>Foxc1_2 or Tbx1 positively regulate Fgf8 [1,2,3]. Mesp1 negatively regulates Fgf8 [1,4].</p></body>
</notes>
<qual:listOfInputs>
<qual:input qual:id="tr_S_10_in_S_3" qual:qualitativeSpecies="S_3" qual:sign="negative" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p><span style="color: rgb(79, 79, 79); font-family: Arial, sans-serif; font-size: 12px; line-height: 18px; orphans: 3; widows: 3; background-color: rgb(255, 255, 255);">Mesp1 negatively regulates Fgf8 {[1][4]}</span></p></body>
</notes>
</qual:input>
<qual:input qual:id="tr_S_10_in_S_8" qual:qualitativeSpecies="S_8" qual:sign="positive" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p><span style="color: rgb(79, 79, 79); font-family: Arial, sans-serif; font-size: 12px; line-height: 18px; orphans: 3; widows: 3; background-color: rgb(255, 255, 255);">Foxc1_2 &nbsp;positively regulates Fgf8 {[1][2]}</span></p></body>
</notes>
</qual:input>
<qual:input qual:id="tr_S_10_in_S_4" qual:qualitativeSpecies="S_4" qual:sign="positive" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p><span style="color: rgb(79, 79, 79); font-family: Arial, sans-serif; font-size: 12px; line-height: 18px; orphans: 3; widows: 3; background-color: rgb(255, 255, 255);">Tbx1 positively regulates Fgf8 {[1][3]}</span></p></body>
</notes>
</qual:input>
</qual:listOfInputs>
<qual:listOfOutputs>
<qual:output qual:qualitativeSpecies="S_10" qual:transitionEffect="assignmentLevel"/>
</qual:listOfOutputs>
<qual:listOfFunctionTerms>
<qual:defaultTerm qual:resultLevel="0">
</qual:defaultTerm>
<qual:functionTerm qual:resultLevel="1">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<or/>
<apply>
<and/>
<apply>
<eq/>
<ci> S_4 </ci>
<cn type="integer"> 1 </cn>
</apply>
<apply>
<not/>
<apply>
<eq/>
<ci> S_3 </ci>
<cn type="integer"> 1 </cn>
</apply>
</apply>
</apply>
<apply>
<and/>
<apply>
<eq/>
<ci> S_8 </ci>
<cn type="integer"> 1 </cn>
</apply>
<apply>
<not/>
<apply>
<eq/>
<ci> S_3 </ci>
<cn type="integer"> 1 </cn>
</apply>
</apply>
</apply>
</apply>
</math>
</qual:functionTerm>
</qual:listOfFunctionTerms>
</qual:transition>
<qual:transition qual:id="tr_S_11">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>exogen_BMP2_I positively regulates exogen_BMP2_II [1].</p></body>
</notes>
<qual:listOfInputs>
<qual:input qual:id="tr_S_11_in_S_12" qual:qualitativeSpecies="S_12" qual:sign="positive" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>exogen_BMP2_I positively regulates exogen_BMP2_II {[1]}</p></body>
</notes>
</qual:input>
</qual:listOfInputs>
<qual:listOfOutputs>
<qual:output qual:qualitativeSpecies="S_11" qual:transitionEffect="assignmentLevel"/>
</qual:listOfOutputs>
<qual:listOfFunctionTerms>
<qual:defaultTerm qual:resultLevel="0">
</qual:defaultTerm>
<qual:functionTerm qual:resultLevel="1">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci> S_12 </ci>
<cn type="integer"> 1 </cn>
</apply>
</math>
</qual:functionTerm>
</qual:listOfFunctionTerms>
</qual:transition>
<qual:transition qual:id="tr_S_13">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>Mesp1 positively regulates Dkk1 [1,3]. canWnt and not exogen_BMP2_II in conjunction regulate Dkk1 [1,2].</p></body>
</notes>
<qual:listOfInputs>
<qual:input qual:id="tr_S_13_in_S_14" qual:qualitativeSpecies="S_14" qual:sign="positive" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p><span style="color: rgb(51, 51, 51); font-family: arial, sans-serif; line-height: 18px; background-color: rgb(255, 255, 255);">*Following an active canonical Wnt signaling Mesp1 and Dkk1 are expressed [1,2].</span><div><span style="color: rgb(79, 79, 79); font-family: Arial, sans-serif; font-size: 12px; line-height: 18px; orphans: 3; widows: 3; background-color: rgb(255, 255, 255);">*canWnt and not exogen_BMP2_II in conjunction regulate Dkk1 [1,2].</span></div></p></body>
</notes>
</qual:input>
<qual:input qual:id="tr_S_13_in_S_3" qual:qualitativeSpecies="S_3" qual:sign="positive" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p><span style="color: rgb(51, 51, 51); font-family: arial, sans-serif; line-height: 18px; background-color: rgb(255, 255, 255);">Following an active canonical Wnt signaling Mesp1 and Dkk1 are expressed[1,3].</span></p></body>
</notes>
</qual:input>
<qual:input qual:id="tr_S_13_in_S_11" qual:qualitativeSpecies="S_11" qual:sign="negative" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p><span style="color: rgb(79, 79, 79); font-family: Arial, sans-serif; font-size: 12px; line-height: 18px; orphans: 3; widows: 3; background-color: rgb(255, 255, 255);">canWnt and not exogen_BMP2_II in conjunction regulate Dkk1 [1,2].</span></p></body>
</notes>
</qual:input>
</qual:listOfInputs>
<qual:listOfOutputs>
<qual:output qual:qualitativeSpecies="S_13" qual:transitionEffect="assignmentLevel"/>
</qual:listOfOutputs>
<qual:listOfFunctionTerms>
<qual:defaultTerm qual:resultLevel="0">
</qual:defaultTerm>
<qual:functionTerm qual:resultLevel="1">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<or/>
<apply>
<and/>
<apply>
<eq/>
<ci> S_14 </ci>
<cn type="integer"> 1 </cn>
</apply>
<apply>
<not/>
<apply>
<eq/>
<ci> S_11 </ci>
<cn type="integer"> 1 </cn>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci> S_3 </ci>
<cn type="integer"> 1 </cn>
</apply>
</apply>
</math>
</qual:functionTerm>
</qual:listOfFunctionTerms>
</qual:transition>
<qual:transition qual:id="tr_S_14">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>exogen_canWnt_II positively regulates canWnt [1].</p></body>
</notes>
<qual:listOfInputs>
<qual:input qual:id="tr_S_14_in_S_1" qual:qualitativeSpecies="S_1" qual:sign="positive" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>exogen_canWnt_II positively regulates canWnt [1]</p></body>
</notes>
</qual:input>
</qual:listOfInputs>
<qual:listOfOutputs>
<qual:output qual:qualitativeSpecies="S_14" qual:transitionEffect="assignmentLevel"/>
</qual:listOfOutputs>
<qual:listOfFunctionTerms>
<qual:defaultTerm qual:resultLevel="0">
</qual:defaultTerm>
<qual:functionTerm qual:resultLevel="1">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci> S_1 </ci>
<cn type="integer"> 1 </cn>
</apply>
</math>
</qual:functionTerm>
</qual:listOfFunctionTerms>
</qual:transition>
<qual:transition qual:id="tr_S_15">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>exogen_CanWnt_I is regulated by iteself [1].</p></body>
</notes>
<qual:listOfInputs>
<qual:input qual:id="tr_S_15_in_S_15" qual:qualitativeSpecies="S_15" qual:sign="positive" qual:thresholdLevel="1" qual:transitionEffect="none">
<notes>
<body xmlns="http://www.w3.org/1999/xhtml">
<p>exogen_CanWnt_I is regulated by iteself {[1]}</p></body>
</notes>
</qual:input>
</qual:listOfInputs>
<qual:listOfOutputs>
<qual:output qual:qualitativeSpecies="S_15" qual:transitionEffect="assignmentLevel"/>
</qual:listOfOutputs>
<qual:listOfFunctionTerms>
<qual:defaultTerm qual:resultLevel="0">
</qual:defaultTerm>
<qual:functionTerm qual:resultLevel="1">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci> S_15 </ci>
<cn type="integer"> 1 </cn>
</apply>
</math>
</qual:functionTerm>
</qual:listOfFunctionTerms>
</qual:transition>
</qual:listOfTransitions>
<listOfCompartments>
<compartment constant="true" id="extracellular" name="extracellular"/>
<compartment constant="true" id="cytosol" name="cytosol"/>
</listOfCompartments>
</model>
</sbml>