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Cho_Shin_LungCancer_GRN_ParametersSpecified.cps
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Cho_Shin_LungCancer_GRN_ParametersSpecified.cps
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<?xml version="1.0" encoding="UTF-8"?>
<!-- generated with COPASI 4.44 (Build 295) (http://www.copasi.org) at 2024-07-23T15:27:29Z -->
<?oxygen RNGSchema="http://www.copasi.org/static/schema/CopasiML.rng" type="xml"?>
<COPASI xmlns="http://www.copasi.org/static/schema" versionMajor="4" versionMinor="44" versionDevel="295" copasiSourcesModified="0">
<ListOfFunctions>
<Function key="Function_13" name="Mass action (irreversible)" type="MassAction" reversible="false">
<MiriamAnnotation>
<rdf:RDF xmlns:CopasiMT="http://www.copasi.org/RDF/MiriamTerms#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Function_13">
<CopasiMT:is rdf:resource="urn:miriam:obo.sbo:SBO:0000163" />
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
<Comment>
<body xmlns="http://www.w3.org/1999/xhtml">
<b>Mass action rate law for irreversible reactions</b>
<p>
Reaction scheme where the products are created from the reactants and the change of a product quantity is proportional to the product of reactant activities. The reaction scheme does not include any reverse process that creates the reactants from the products. The change of a product quantity is proportional to the quantity of one reactant.
</p>
</body>
</Comment>
<Expression>
k1*PRODUCT<substrate_i>
</Expression>
<ListOfParameterDescriptions>
<ParameterDescription key="FunctionParameter_80" name="k1" order="0" role="constant"/>
<ParameterDescription key="FunctionParameter_81" name="substrate" order="1" role="substrate"/>
</ListOfParameterDescriptions>
</Function>
<Function key="Function_41" name="Cho_Shin_Creation_HillFunction_OneSpecies" type="UserDefined" reversible="unspecified">
<MiriamAnnotation>
<rdf:RDF
xmlns:dcterms="http://purl.org/dc/terms/"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Function_41">
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
<Expression>
(G/FC)*(FC+((1-FC)/(1+(y/TH)^N)))
</Expression>
<ListOfParameterDescriptions>
<ParameterDescription key="FunctionParameter_275" name="G" order="0" role="constant"/>
<ParameterDescription key="FunctionParameter_274" name="FC" order="1" role="constant"/>
<ParameterDescription key="FunctionParameter_273" name="y" order="2" role="modifier"/>
<ParameterDescription key="FunctionParameter_272" name="TH" order="3" role="constant"/>
<ParameterDescription key="FunctionParameter_266" name="N" order="4" role="constant"/>
</ListOfParameterDescriptions>
</Function>
<Function key="Function_42" name="Cho_Shin_Creation_HillFunction_ThreeSpecies" type="UserDefined" reversible="unspecified">
<MiriamAnnotation>
<rdf:RDF
xmlns:dcterms="http://purl.org/dc/terms/"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Function_42">
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
<Expression>
(G/FC1)*(FC1+((1-FC1)/(1+(y1/TH1)^N1)))*(1/FC2)*(FC2+((1-FC2)/(1+(y2/TH2)^N2)))*(1/FC3)*(FC3+((1-FC3)/(1+(y3/TH3)^N3)))
</Expression>
<ListOfParameterDescriptions>
<ParameterDescription key="FunctionParameter_280" name="G" order="0" role="constant"/>
<ParameterDescription key="FunctionParameter_279" name="FC1" order="1" role="constant"/>
<ParameterDescription key="FunctionParameter_278" name="y1" order="2" role="modifier"/>
<ParameterDescription key="FunctionParameter_277" name="TH1" order="3" role="constant"/>
<ParameterDescription key="FunctionParameter_276" name="N1" order="4" role="constant"/>
<ParameterDescription key="FunctionParameter_281" name="FC2" order="5" role="constant"/>
<ParameterDescription key="FunctionParameter_282" name="y2" order="6" role="modifier"/>
<ParameterDescription key="FunctionParameter_283" name="TH2" order="7" role="constant"/>
<ParameterDescription key="FunctionParameter_284" name="N2" order="8" role="constant"/>
<ParameterDescription key="FunctionParameter_285" name="FC3" order="9" role="constant"/>
<ParameterDescription key="FunctionParameter_286" name="y3" order="10" role="modifier"/>
<ParameterDescription key="FunctionParameter_287" name="TH3" order="11" role="constant"/>
<ParameterDescription key="FunctionParameter_288" name="N3" order="12" role="constant"/>
</ListOfParameterDescriptions>
</Function>
</ListOfFunctions>
<Model key="Model_1" name="Cho_Shin_LungCancer_GRN" simulationType="time" timeUnit="s" volumeUnit="l" areaUnit="m²" lengthUnit="m" quantityUnit="mol" type="deterministic" avogadroConstant="6.0221407599999999e+23">
<MiriamAnnotation>
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xmlns:dcterms="http://purl.org/dc/terms/"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Model_1">
<dcterms:created>
<rdf:Description>
<dcterms:W3CDTF>2024-07-16T17:42:23Z</dcterms:W3CDTF>
</rdf:Description>
</dcterms:created>
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
<ListOfCompartments>
<Compartment key="Compartment_0" name="compartment" simulationType="fixed" dimensionality="3" addNoise="false">
<MiriamAnnotation>
<rdf:RDF xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Compartment_0">
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
</Compartment>
</ListOfCompartments>
<ListOfMetabolites>
<Metabolite key="Metabolite_0" name="Y1" simulationType="reactions" compartment="Compartment_0" addNoise="false">
<MiriamAnnotation>
<rdf:RDF xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Metabolite_0">
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
</Metabolite>
<Metabolite key="Metabolite_1" name="Y2" simulationType="reactions" compartment="Compartment_0" addNoise="false">
<MiriamAnnotation>
<rdf:RDF xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Metabolite_1">
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
</Metabolite>
<Metabolite key="Metabolite_2" name="Y3" simulationType="reactions" compartment="Compartment_0" addNoise="false">
<MiriamAnnotation>
<rdf:RDF xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Metabolite_2">
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
</Metabolite>
<Metabolite key="Metabolite_3" name="Y4" simulationType="reactions" compartment="Compartment_0" addNoise="false">
<MiriamAnnotation>
<rdf:RDF xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Metabolite_3">
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
</Metabolite>
<Metabolite key="Metabolite_4" name="Y5" simulationType="reactions" compartment="Compartment_0" addNoise="false">
<MiriamAnnotation>
<rdf:RDF xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Metabolite_4">
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
</Metabolite>
<Metabolite key="Metabolite_5" name="Y6" simulationType="reactions" compartment="Compartment_0" addNoise="false">
<MiriamAnnotation>
<rdf:RDF xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Metabolite_5">
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
</Metabolite>
<Metabolite key="Metabolite_6" name="Y7" simulationType="reactions" compartment="Compartment_0" addNoise="false">
<MiriamAnnotation>
<rdf:RDF xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Metabolite_6">
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
</Metabolite>
<Metabolite key="Metabolite_7" name="Y8" simulationType="reactions" compartment="Compartment_0" addNoise="false">
<MiriamAnnotation>
<rdf:RDF xmlns:dcterms="http://purl.org/dc/terms/" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Metabolite_7">
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
</Metabolite>
</ListOfMetabolites>
<ListOfReactions>
<Reaction key="Reaction_0" name="Y1 destruction" reversible="false" fast="false" addNoise="false">
<ListOfSubstrates>
<Substrate metabolite="Metabolite_0" stoichiometry="1"/>
</ListOfSubstrates>
<ListOfConstants>
<Constant key="Parameter_4675" name="k1" value="4.0293"/>
</ListOfConstants>
<KineticLaw function="Function_13" unitType="Default" scalingCompartment="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment]">
<ListOfCallParameters>
<CallParameter functionParameter="FunctionParameter_80">
<SourceParameter reference="Parameter_4675"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_81">
<SourceParameter reference="Metabolite_0"/>
</CallParameter>
</ListOfCallParameters>
</KineticLaw>
</Reaction>
<Reaction key="Reaction_1" name="Y1 creation" reversible="false" fast="false" addNoise="false">
<ListOfProducts>
<Product metabolite="Metabolite_0" stoichiometry="1"/>
</ListOfProducts>
<ListOfModifiers>
<Modifier metabolite="Metabolite_1" stoichiometry="1"/>
</ListOfModifiers>
<ListOfConstants>
<Constant key="Parameter_4670" name="G" value="36.437"/>
<Constant key="Parameter_4674" name="FC" value="50.764"/>
<Constant key="Parameter_4673" name="TH" value="3.7388"/>
<Constant key="Parameter_6919" name="N" value="2"/>
</ListOfConstants>
<KineticLaw function="Function_41" unitType="Default" scalingCompartment="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment]">
<ListOfCallParameters>
<CallParameter functionParameter="FunctionParameter_275">
<SourceParameter reference="Parameter_4670"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_274">
<SourceParameter reference="Parameter_4674"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_273">
<SourceParameter reference="Metabolite_1"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_272">
<SourceParameter reference="Parameter_4673"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_266">
<SourceParameter reference="Parameter_6919"/>
</CallParameter>
</ListOfCallParameters>
</KineticLaw>
</Reaction>
<Reaction key="Reaction_2" name="Y2 destruction" reversible="false" fast="false" addNoise="false">
<MiriamAnnotation>
<rdf:RDF
xmlns:dcterms="http://purl.org/dc/terms/"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Reaction_2">
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
<ListOfSubstrates>
<Substrate metabolite="Metabolite_1" stoichiometry="1"/>
</ListOfSubstrates>
<ListOfConstants>
<Constant key="Parameter_6920" name="k1" value="0.73339"/>
</ListOfConstants>
<KineticLaw function="Function_13" unitType="Default" scalingCompartment="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment]">
<ListOfCallParameters>
<CallParameter functionParameter="FunctionParameter_80">
<SourceParameter reference="Parameter_6920"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_81">
<SourceParameter reference="Metabolite_1"/>
</CallParameter>
</ListOfCallParameters>
</KineticLaw>
</Reaction>
<Reaction key="Reaction_3" name="Y2 creation" reversible="false" fast="false" addNoise="false">
<MiriamAnnotation>
<rdf:RDF
xmlns:dcterms="http://purl.org/dc/terms/"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Reaction_3">
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
<ListOfProducts>
<Product metabolite="Metabolite_1" stoichiometry="1"/>
</ListOfProducts>
<ListOfModifiers>
<Modifier metabolite="Metabolite_0" stoichiometry="1"/>
<Modifier metabolite="Metabolite_2" stoichiometry="1"/>
<Modifier metabolite="Metabolite_6" stoichiometry="1"/>
</ListOfModifiers>
<ListOfConstants>
<Constant key="Parameter_6923" name="G" value="94.764"/>
<Constant key="Parameter_6918" name="FC1" value="48.834"/>
<Constant key="Parameter_6922" name="TH1" value="29.777"/>
<Constant key="Parameter_6921" name="N1" value="5"/>
<Constant key="Parameter_4643" name="FC2" value="92.651"/>
<Constant key="Parameter_4644" name="TH2" value="6.0194"/>
<Constant key="Parameter_4650" name="N2" value="3"/>
<Constant key="Parameter_4642" name="FC3" value="36.102"/>
<Constant key="Parameter_4649" name="TH3" value="67.22"/>
<Constant key="Parameter_4647" name="N3" value="4"/>
</ListOfConstants>
<KineticLaw function="Function_42" unitType="Default" scalingCompartment="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment]">
<ListOfCallParameters>
<CallParameter functionParameter="FunctionParameter_280">
<SourceParameter reference="Parameter_6923"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_279">
<SourceParameter reference="Parameter_6918"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_278">
<SourceParameter reference="Metabolite_0"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_277">
<SourceParameter reference="Parameter_6922"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_276">
<SourceParameter reference="Parameter_6921"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_281">
<SourceParameter reference="Parameter_4643"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_282">
<SourceParameter reference="Metabolite_2"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_283">
<SourceParameter reference="Parameter_4644"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_284">
<SourceParameter reference="Parameter_4650"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_285">
<SourceParameter reference="Parameter_4642"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_286">
<SourceParameter reference="Metabolite_6"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_287">
<SourceParameter reference="Parameter_4649"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_288">
<SourceParameter reference="Parameter_4647"/>
</CallParameter>
</ListOfCallParameters>
</KineticLaw>
</Reaction>
<Reaction key="Reaction_4" name="Y3 destruction" reversible="false" fast="false" addNoise="false">
<MiriamAnnotation>
<rdf:RDF
xmlns:dcterms="http://purl.org/dc/terms/"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Reaction_4">
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
<ListOfSubstrates>
<Substrate metabolite="Metabolite_2" stoichiometry="1"/>
</ListOfSubstrates>
<ListOfConstants>
<Constant key="Parameter_4646" name="k1" value="0.63639"/>
</ListOfConstants>
<KineticLaw function="Function_13" unitType="Default" scalingCompartment="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment]">
<ListOfCallParameters>
<CallParameter functionParameter="FunctionParameter_80">
<SourceParameter reference="Parameter_4646"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_81">
<SourceParameter reference="Metabolite_2"/>
</CallParameter>
</ListOfCallParameters>
</KineticLaw>
</Reaction>
<Reaction key="Reaction_5" name="Y3 creation" reversible="false" fast="false" addNoise="false">
<MiriamAnnotation>
<rdf:RDF
xmlns:dcterms="http://purl.org/dc/terms/"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Reaction_5">
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
<ListOfProducts>
<Product metabolite="Metabolite_2" stoichiometry="1"/>
</ListOfProducts>
<ListOfModifiers>
<Modifier metabolite="Metabolite_1" stoichiometry="1"/>
</ListOfModifiers>
<ListOfConstants>
<Constant key="Parameter_4648" name="G" value="58.436"/>
<Constant key="Parameter_4645" name="FC" value="38.165"/>
<Constant key="Parameter_7503" name="TH" value="2.5773"/>
<Constant key="Parameter_7504" name="N" value="5"/>
</ListOfConstants>
<KineticLaw function="Function_41" unitType="Default" scalingCompartment="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment]">
<ListOfCallParameters>
<CallParameter functionParameter="FunctionParameter_275">
<SourceParameter reference="Parameter_4648"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_274">
<SourceParameter reference="Parameter_4645"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_273">
<SourceParameter reference="Metabolite_1"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_272">
<SourceParameter reference="Parameter_7503"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_266">
<SourceParameter reference="Parameter_7504"/>
</CallParameter>
</ListOfCallParameters>
</KineticLaw>
</Reaction>
<Reaction key="Reaction_6" name="Y4 destruction" reversible="false" fast="false" addNoise="false">
<MiriamAnnotation>
<rdf:RDF
xmlns:dcterms="http://purl.org/dc/terms/"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Reaction_6">
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
<ListOfSubstrates>
<Substrate metabolite="Metabolite_3" stoichiometry="1"/>
</ListOfSubstrates>
<ListOfConstants>
<Constant key="Parameter_7507" name="k1" value="0.01638"/>
</ListOfConstants>
<KineticLaw function="Function_13" unitType="Default" scalingCompartment="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment]">
<ListOfCallParameters>
<CallParameter functionParameter="FunctionParameter_80">
<SourceParameter reference="Parameter_7507"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_81">
<SourceParameter reference="Metabolite_3"/>
</CallParameter>
</ListOfCallParameters>
</KineticLaw>
</Reaction>
<Reaction key="Reaction_7" name="Y4 creation" reversible="false" fast="false" addNoise="false">
<MiriamAnnotation>
<rdf:RDF
xmlns:dcterms="http://purl.org/dc/terms/"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Reaction_7">
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
<ListOfProducts>
<Product metabolite="Metabolite_3" stoichiometry="1"/>
</ListOfProducts>
<ListOfModifiers>
<Modifier metabolite="Metabolite_2" stoichiometry="1"/>
</ListOfModifiers>
<ListOfConstants>
<Constant key="Parameter_7502" name="G" value="73.576"/>
<Constant key="Parameter_7506" name="FC" value="11.695"/>
<Constant key="Parameter_7505" name="TH" value="9.6368"/>
<Constant key="Parameter_6022" name="N" value="2"/>
</ListOfConstants>
<KineticLaw function="Function_41" unitType="Default" scalingCompartment="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment]">
<ListOfCallParameters>
<CallParameter functionParameter="FunctionParameter_275">
<SourceParameter reference="Parameter_7502"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_274">
<SourceParameter reference="Parameter_7506"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_273">
<SourceParameter reference="Metabolite_2"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_272">
<SourceParameter reference="Parameter_7505"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_266">
<SourceParameter reference="Parameter_6022"/>
</CallParameter>
</ListOfCallParameters>
</KineticLaw>
</Reaction>
<Reaction key="Reaction_8" name="Y5 destruction" reversible="false" fast="false" addNoise="false">
<MiriamAnnotation>
<rdf:RDF
xmlns:dcterms="http://purl.org/dc/terms/"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Reaction_8">
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
<ListOfSubstrates>
<Substrate metabolite="Metabolite_4" stoichiometry="1"/>
</ListOfSubstrates>
<ListOfConstants>
<Constant key="Parameter_6023" name="k1" value="0.32857"/>
</ListOfConstants>
<KineticLaw function="Function_13" unitType="Default" scalingCompartment="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment]">
<ListOfCallParameters>
<CallParameter functionParameter="FunctionParameter_80">
<SourceParameter reference="Parameter_6023"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_81">
<SourceParameter reference="Metabolite_4"/>
</CallParameter>
</ListOfCallParameters>
</KineticLaw>
</Reaction>
<Reaction key="Reaction_9" name="Y5 creation" reversible="false" fast="false" addNoise="false">
<MiriamAnnotation>
<rdf:RDF
xmlns:dcterms="http://purl.org/dc/terms/"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Reaction_9">
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
<ListOfProducts>
<Product metabolite="Metabolite_4" stoichiometry="1"/>
</ListOfProducts>
<ListOfModifiers>
<Modifier metabolite="Metabolite_2" stoichiometry="1"/>
</ListOfModifiers>
<ListOfConstants>
<Constant key="Parameter_6025" name="G" value="52.016"/>
<Constant key="Parameter_6021" name="FC" value="76.83"/>
<Constant key="Parameter_6024" name="TH" value="4.79"/>
<Constant key="Parameter_6506" name="N" value="5"/>
</ListOfConstants>
<KineticLaw function="Function_41" unitType="Default" scalingCompartment="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment]">
<ListOfCallParameters>
<CallParameter functionParameter="FunctionParameter_275">
<SourceParameter reference="Parameter_6025"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_274">
<SourceParameter reference="Parameter_6021"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_273">
<SourceParameter reference="Metabolite_2"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_272">
<SourceParameter reference="Parameter_6024"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_266">
<SourceParameter reference="Parameter_6506"/>
</CallParameter>
</ListOfCallParameters>
</KineticLaw>
</Reaction>
<Reaction key="Reaction_10" name="Y6 destruction" reversible="false" fast="false" addNoise="false">
<MiriamAnnotation>
<rdf:RDF
xmlns:dcterms="http://purl.org/dc/terms/"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Reaction_10">
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
<ListOfSubstrates>
<Substrate metabolite="Metabolite_5" stoichiometry="1"/>
</ListOfSubstrates>
<ListOfConstants>
<Constant key="Parameter_6507" name="k1" value="0.32384"/>
</ListOfConstants>
<KineticLaw function="Function_13" unitType="Default" scalingCompartment="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment]">
<ListOfCallParameters>
<CallParameter functionParameter="FunctionParameter_80">
<SourceParameter reference="Parameter_6507"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_81">
<SourceParameter reference="Metabolite_5"/>
</CallParameter>
</ListOfCallParameters>
</KineticLaw>
</Reaction>
<Reaction key="Reaction_11" name="Y6 creation" reversible="false" fast="false" addNoise="false">
<MiriamAnnotation>
<rdf:RDF
xmlns:dcterms="http://purl.org/dc/terms/"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Reaction_11">
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
<ListOfProducts>
<Product metabolite="Metabolite_5" stoichiometry="1"/>
</ListOfProducts>
<ListOfModifiers>
<Modifier metabolite="Metabolite_4" stoichiometry="1"/>
</ListOfModifiers>
<ListOfConstants>
<Constant key="Parameter_6509" name="G" value="31.963"/>
<Constant key="Parameter_6505" name="FC" value="58.55"/>
<Constant key="Parameter_6508" name="TH" value="78.959"/>
<Constant key="Parameter_7341" name="N" value="2"/>
</ListOfConstants>
<KineticLaw function="Function_41" unitType="Default" scalingCompartment="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment]">
<ListOfCallParameters>
<CallParameter functionParameter="FunctionParameter_275">
<SourceParameter reference="Parameter_6509"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_274">
<SourceParameter reference="Parameter_6505"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_273">
<SourceParameter reference="Metabolite_4"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_272">
<SourceParameter reference="Parameter_6508"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_266">
<SourceParameter reference="Parameter_7341"/>
</CallParameter>
</ListOfCallParameters>
</KineticLaw>
</Reaction>
<Reaction key="Reaction_12" name="Y7 destruction" reversible="false" fast="false" addNoise="false">
<MiriamAnnotation>
<rdf:RDF
xmlns:dcterms="http://purl.org/dc/terms/"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Reaction_12">
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
<ListOfSubstrates>
<Substrate metabolite="Metabolite_6" stoichiometry="1"/>
</ListOfSubstrates>
<ListOfConstants>
<Constant key="Parameter_7342" name="k1" value="0.35657"/>
</ListOfConstants>
<KineticLaw function="Function_13" unitType="Default" scalingCompartment="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment]">
<ListOfCallParameters>
<CallParameter functionParameter="FunctionParameter_80">
<SourceParameter reference="Parameter_7342"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_81">
<SourceParameter reference="Metabolite_6"/>
</CallParameter>
</ListOfCallParameters>
</KineticLaw>
</Reaction>
<Reaction key="Reaction_13" name="Y7 creation" reversible="false" fast="false" addNoise="false">
<MiriamAnnotation>
<rdf:RDF
xmlns:dcterms="http://purl.org/dc/terms/"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Reaction_13">
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
<ListOfProducts>
<Product metabolite="Metabolite_6" stoichiometry="1"/>
</ListOfProducts>
<ListOfModifiers>
<Modifier metabolite="Metabolite_5" stoichiometry="1"/>
</ListOfModifiers>
<ListOfConstants>
<Constant key="Parameter_7344" name="G" value="7.6353"/>
<Constant key="Parameter_7340" name="FC" value="78.563"/>
<Constant key="Parameter_7343" name="TH" value="43.133"/>
<Constant key="Parameter_4922" name="N" value="1"/>
</ListOfConstants>
<KineticLaw function="Function_41" unitType="Default" scalingCompartment="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment]">
<ListOfCallParameters>
<CallParameter functionParameter="FunctionParameter_275">
<SourceParameter reference="Parameter_7344"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_274">
<SourceParameter reference="Parameter_7340"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_273">
<SourceParameter reference="Metabolite_5"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_272">
<SourceParameter reference="Parameter_7343"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_266">
<SourceParameter reference="Parameter_4922"/>
</CallParameter>
</ListOfCallParameters>
</KineticLaw>
</Reaction>
<Reaction key="Reaction_14" name="Y8 destruction" reversible="false" fast="false" addNoise="false">
<MiriamAnnotation>
<rdf:RDF
xmlns:dcterms="http://purl.org/dc/terms/"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Reaction_14">
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
<ListOfSubstrates>
<Substrate metabolite="Metabolite_7" stoichiometry="1"/>
</ListOfSubstrates>
<ListOfConstants>
<Constant key="Parameter_4923" name="k1" value="0.53837"/>
</ListOfConstants>
<KineticLaw function="Function_13" unitType="Default" scalingCompartment="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment]">
<ListOfCallParameters>
<CallParameter functionParameter="FunctionParameter_80">
<SourceParameter reference="Parameter_4923"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_81">
<SourceParameter reference="Metabolite_7"/>
</CallParameter>
</ListOfCallParameters>
</KineticLaw>
</Reaction>
<Reaction key="Reaction_15" name="Y8 creation" reversible="false" fast="false" addNoise="false">
<MiriamAnnotation>
<rdf:RDF
xmlns:dcterms="http://purl.org/dc/terms/"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Description rdf:about="#Reaction_15">
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
<ListOfProducts>
<Product metabolite="Metabolite_7" stoichiometry="1"/>
</ListOfProducts>
<ListOfModifiers>
<Modifier metabolite="Metabolite_0" stoichiometry="1"/>
<Modifier metabolite="Metabolite_1" stoichiometry="1"/>
<Modifier metabolite="Metabolite_3" stoichiometry="1"/>
</ListOfModifiers>
<ListOfConstants>
<Constant key="Parameter_4925" name="G" value="39.92"/>
<Constant key="Parameter_4921" name="FC1" value="85.693"/>
<Constant key="Parameter_4924" name="TH1" value="4.0907"/>
<Constant key="Parameter_6773" name="N1" value="4"/>
<Constant key="Parameter_6774" name="FC2" value="93.561"/>
<Constant key="Parameter_6776" name="TH2" value="8.1658"/>
<Constant key="Parameter_6772" name="N2" value="2"/>
<Constant key="Parameter_6775" name="FC3" value="92.464"/>
<Constant key="Parameter_8028" name="TH3" value="59.781"/>
<Constant key="Parameter_8029" name="N3" value="1"/>
</ListOfConstants>
<KineticLaw function="Function_42" unitType="Default" scalingCompartment="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment]">
<ListOfCallParameters>
<CallParameter functionParameter="FunctionParameter_280">
<SourceParameter reference="Parameter_4925"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_279">
<SourceParameter reference="Parameter_4921"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_278">
<SourceParameter reference="Metabolite_0"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_277">
<SourceParameter reference="Parameter_4924"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_276">
<SourceParameter reference="Parameter_6773"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_281">
<SourceParameter reference="Parameter_6774"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_282">
<SourceParameter reference="Metabolite_1"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_283">
<SourceParameter reference="Parameter_6776"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_284">
<SourceParameter reference="Parameter_6772"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_285">
<SourceParameter reference="Parameter_6775"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_286">
<SourceParameter reference="Metabolite_3"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_287">
<SourceParameter reference="Parameter_8028"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_288">
<SourceParameter reference="Parameter_8029"/>
</CallParameter>
</ListOfCallParameters>
</KineticLaw>
</Reaction>
</ListOfReactions>
<ListOfModelParameterSets activeSet="ModelParameterSet_1">
<ModelParameterSet key="ModelParameterSet_1" name="Initial State">
<MiriamAnnotation>
<rdf:RDF
xmlns:dcterms="http://purl.org/dc/terms/"
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<rdf:Description rdf:about="#ModelParameterSet_1">
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
<ModelParameterGroup cn="String=Initial Time" type="Group">
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN" value="0" type="Model" simulationType="time"/>
</ModelParameterGroup>
<ModelParameterGroup cn="String=Initial Compartment Sizes" type="Group">
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment]" value="1" type="Compartment" simulationType="fixed"/>
</ModelParameterGroup>
<ModelParameterGroup cn="String=Initial Species Values" type="Group">
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment],Vector=Metabolites[Y1]" value="6.0221407599999636e+23" type="Species" simulationType="reactions"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment],Vector=Metabolites[Y2]" value="6.022140759999967e+23" type="Species" simulationType="reactions"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment],Vector=Metabolites[Y3]" value="6.0221407599999717e+23" type="Species" simulationType="reactions"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment],Vector=Metabolites[Y4]" value="6.0221407599999744e+23" type="Species" simulationType="reactions"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment],Vector=Metabolites[Y5]" value="6.0221407599999771e+23" type="Species" simulationType="reactions"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment],Vector=Metabolites[Y6]" value="6.0221407599999804e+23" type="Species" simulationType="reactions"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment],Vector=Metabolites[Y7]" value="6.0221407599999831e+23" type="Species" simulationType="reactions"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment],Vector=Metabolites[Y8]" value="6.0221407599999864e+23" type="Species" simulationType="reactions"/>
</ModelParameterGroup>
<ModelParameterGroup cn="String=Initial Global Quantities" type="Group">
</ModelParameterGroup>
<ModelParameterGroup cn="String=Kinetic Parameters" type="Group">
<ModelParameterGroup cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y1 destruction]" type="Reaction">
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y1 destruction],ParameterGroup=Parameters,Parameter=k1" value="4.0293000000000001" type="ReactionParameter" simulationType="fixed"/>
</ModelParameterGroup>
<ModelParameterGroup cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y1 creation]" type="Reaction">
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y1 creation],ParameterGroup=Parameters,Parameter=G" value="36.436999999999998" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y1 creation],ParameterGroup=Parameters,Parameter=FC" value="50.764000000000003" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y1 creation],ParameterGroup=Parameters,Parameter=TH" value="3.7387999999999999" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y1 creation],ParameterGroup=Parameters,Parameter=N" value="2" type="ReactionParameter" simulationType="fixed"/>
</ModelParameterGroup>
<ModelParameterGroup cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y2 destruction]" type="Reaction">
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y2 destruction],ParameterGroup=Parameters,Parameter=k1" value="0.73338999999999999" type="ReactionParameter" simulationType="fixed"/>
</ModelParameterGroup>
<ModelParameterGroup cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y2 creation]" type="Reaction">
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y2 creation],ParameterGroup=Parameters,Parameter=G" value="94.763999999999996" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y2 creation],ParameterGroup=Parameters,Parameter=FC1" value="48.834000000000003" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y2 creation],ParameterGroup=Parameters,Parameter=TH1" value="29.777000000000001" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y2 creation],ParameterGroup=Parameters,Parameter=N1" value="5" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y2 creation],ParameterGroup=Parameters,Parameter=FC2" value="92.650999999999996" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y2 creation],ParameterGroup=Parameters,Parameter=TH2" value="6.0194000000000001" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y2 creation],ParameterGroup=Parameters,Parameter=N2" value="3" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y2 creation],ParameterGroup=Parameters,Parameter=FC3" value="36.101999999999997" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y2 creation],ParameterGroup=Parameters,Parameter=TH3" value="67.219999999999999" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y2 creation],ParameterGroup=Parameters,Parameter=N3" value="4" type="ReactionParameter" simulationType="fixed"/>
</ModelParameterGroup>
<ModelParameterGroup cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y3 destruction]" type="Reaction">
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y3 destruction],ParameterGroup=Parameters,Parameter=k1" value="0.63639000000000001" type="ReactionParameter" simulationType="fixed"/>
</ModelParameterGroup>
<ModelParameterGroup cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y3 creation]" type="Reaction">
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y3 creation],ParameterGroup=Parameters,Parameter=G" value="58.436" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y3 creation],ParameterGroup=Parameters,Parameter=FC" value="38.164999999999999" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y3 creation],ParameterGroup=Parameters,Parameter=TH" value="2.5773000000000001" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y3 creation],ParameterGroup=Parameters,Parameter=N" value="5" type="ReactionParameter" simulationType="fixed"/>
</ModelParameterGroup>
<ModelParameterGroup cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y4 destruction]" type="Reaction">
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y4 destruction],ParameterGroup=Parameters,Parameter=k1" value="0.016379999999999999" type="ReactionParameter" simulationType="fixed"/>
</ModelParameterGroup>
<ModelParameterGroup cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y4 creation]" type="Reaction">
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y4 creation],ParameterGroup=Parameters,Parameter=G" value="73.575999999999993" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y4 creation],ParameterGroup=Parameters,Parameter=FC" value="11.695" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y4 creation],ParameterGroup=Parameters,Parameter=TH" value="9.6367999999999991" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y4 creation],ParameterGroup=Parameters,Parameter=N" value="2" type="ReactionParameter" simulationType="fixed"/>
</ModelParameterGroup>
<ModelParameterGroup cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y5 destruction]" type="Reaction">
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y5 destruction],ParameterGroup=Parameters,Parameter=k1" value="0.32856999999999997" type="ReactionParameter" simulationType="fixed"/>
</ModelParameterGroup>
<ModelParameterGroup cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y5 creation]" type="Reaction">
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y5 creation],ParameterGroup=Parameters,Parameter=G" value="52.015999999999998" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y5 creation],ParameterGroup=Parameters,Parameter=FC" value="76.829999999999998" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y5 creation],ParameterGroup=Parameters,Parameter=TH" value="4.79" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y5 creation],ParameterGroup=Parameters,Parameter=N" value="5" type="ReactionParameter" simulationType="fixed"/>
</ModelParameterGroup>
<ModelParameterGroup cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y6 destruction]" type="Reaction">
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y6 destruction],ParameterGroup=Parameters,Parameter=k1" value="0.32384000000000002" type="ReactionParameter" simulationType="fixed"/>
</ModelParameterGroup>
<ModelParameterGroup cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y6 creation]" type="Reaction">
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y6 creation],ParameterGroup=Parameters,Parameter=G" value="31.963000000000001" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y6 creation],ParameterGroup=Parameters,Parameter=FC" value="58.549999999999997" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y6 creation],ParameterGroup=Parameters,Parameter=TH" value="78.959000000000003" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y6 creation],ParameterGroup=Parameters,Parameter=N" value="2" type="ReactionParameter" simulationType="fixed"/>
</ModelParameterGroup>
<ModelParameterGroup cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y7 destruction]" type="Reaction">
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y7 destruction],ParameterGroup=Parameters,Parameter=k1" value="0.35657" type="ReactionParameter" simulationType="fixed"/>
</ModelParameterGroup>
<ModelParameterGroup cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y7 creation]" type="Reaction">
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<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y7 creation],ParameterGroup=Parameters,Parameter=FC" value="78.563000000000002" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y7 creation],ParameterGroup=Parameters,Parameter=TH" value="43.133000000000003" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y7 creation],ParameterGroup=Parameters,Parameter=N" value="1" type="ReactionParameter" simulationType="fixed"/>
</ModelParameterGroup>
<ModelParameterGroup cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y8 destruction]" type="Reaction">
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y8 destruction],ParameterGroup=Parameters,Parameter=k1" value="0.53837000000000002" type="ReactionParameter" simulationType="fixed"/>
</ModelParameterGroup>
<ModelParameterGroup cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y8 creation]" type="Reaction">
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y8 creation],ParameterGroup=Parameters,Parameter=G" value="39.920000000000002" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y8 creation],ParameterGroup=Parameters,Parameter=FC1" value="85.692999999999998" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y8 creation],ParameterGroup=Parameters,Parameter=TH1" value="4.0907" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y8 creation],ParameterGroup=Parameters,Parameter=N1" value="4" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y8 creation],ParameterGroup=Parameters,Parameter=FC2" value="93.561000000000007" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y8 creation],ParameterGroup=Parameters,Parameter=TH2" value="8.1658000000000008" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y8 creation],ParameterGroup=Parameters,Parameter=N2" value="2" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y8 creation],ParameterGroup=Parameters,Parameter=FC3" value="92.463999999999999" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y8 creation],ParameterGroup=Parameters,Parameter=TH3" value="59.780999999999999" type="ReactionParameter" simulationType="fixed"/>
<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y8 creation],ParameterGroup=Parameters,Parameter=N3" value="1" type="ReactionParameter" simulationType="fixed"/>
</ModelParameterGroup>
</ModelParameterGroup>
</ModelParameterSet>
</ListOfModelParameterSets>
<StateTemplate>
<StateTemplateVariable objectReference="Model_1"/>
<StateTemplateVariable objectReference="Metabolite_0"/>
<StateTemplateVariable objectReference="Metabolite_1"/>
<StateTemplateVariable objectReference="Metabolite_2"/>
<StateTemplateVariable objectReference="Metabolite_3"/>
<StateTemplateVariable objectReference="Metabolite_4"/>
<StateTemplateVariable objectReference="Metabolite_5"/>
<StateTemplateVariable objectReference="Metabolite_6"/>
<StateTemplateVariable objectReference="Metabolite_7"/>
<StateTemplateVariable objectReference="Compartment_0"/>
</StateTemplate>
<InitialState type="initialState">
0 6.0221407599999636e+23 6.022140759999967e+23 6.0221407599999717e+23 6.0221407599999744e+23 6.0221407599999771e+23 6.0221407599999804e+23 6.0221407599999831e+23 6.0221407599999864e+23 1
</InitialState>
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<Task key="Task_17" name="Steady-State" type="steadyState" scheduled="false" updateModel="false">
<Report reference="Report_11" target="" append="1" confirmOverwrite="1"/>
<Problem>
<Parameter name="JacobianRequested" type="bool" value="1"/>
<Parameter name="StabilityAnalysisRequested" type="bool" value="1"/>
</Problem>
<Method name="Enhanced Newton" type="EnhancedNewton">
<Parameter name="Resolution" type="unsignedFloat" value="1.0000000000000001e-09"/>
<Parameter name="Derivation Factor" type="unsignedFloat" value="0.001"/>
<Parameter name="Use Newton" type="bool" value="0"/>
<Parameter name="Use Integration" type="bool" value="1"/>
<Parameter name="Use Back Integration" type="bool" value="0"/>
<Parameter name="Accept Negative Concentrations" type="bool" value="0"/>
<Parameter name="Iteration Limit" type="unsignedInteger" value="50"/>
<Parameter name="Maximum duration for forward integration" type="unsignedFloat" value="1000000000"/>
<Parameter name="Maximum duration for backward integration" type="unsignedFloat" value="1000000"/>
<Parameter name="Target Criterion" type="string" value="Distance and Rate"/>
</Method>
</Task>
<Task key="Task_18" name="Time-Course" type="timeCourse" scheduled="false" updateModel="false">
<Report reference="Report_12" target="" append="1" confirmOverwrite="1"/>
<Problem>
<Parameter name="AutomaticStepSize" type="bool" value="0"/>
<Parameter name="StepNumber" type="unsignedInteger" value="100"/>
<Parameter name="StepSize" type="float" value="0.01"/>
<Parameter name="Duration" type="float" value="1"/>
<Parameter name="TimeSeriesRequested" type="bool" value="1"/>
<Parameter name="OutputStartTime" type="float" value="0"/>
<Parameter name="Output Event" type="bool" value="0"/>
<Parameter name="Start in Steady State" type="bool" value="0"/>
<Parameter name="Use Values" type="bool" value="0"/>
<Parameter name="Values" type="string" value=""/>
</Problem>
<Method name="Deterministic (LSODA)" type="Deterministic(LSODA)">
<Parameter name="Integrate Reduced Model" type="bool" value="0"/>
<Parameter name="Relative Tolerance" type="unsignedFloat" value="9.9999999999999995e-07"/>
<Parameter name="Absolute Tolerance" type="unsignedFloat" value="9.9999999999999998e-13"/>
<Parameter name="Max Internal Steps" type="unsignedInteger" value="100000"/>
<Parameter name="Max Internal Step Size" type="unsignedFloat" value="0"/>
</Method>
</Task>
<Task key="Task_19" name="Scan" type="scan" scheduled="false" updateModel="false">
<Report reference="Report_22" target="Cho_Shin_LungCancer_GRN_7.txt" append="0" confirmOverwrite="1"/>
<Problem>
<Parameter name="Subtask" type="unsignedInteger" value="0"/>
<ParameterGroup name="ScanItems">
<ParameterGroup name="ScanItem">
<Parameter name="Number of steps" type="unsignedInteger" value="5000"/>
<Parameter name="Type" type="unsignedInteger" value="0"/>
<Parameter name="Object" type="cn" value=""/>
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<ParameterGroup name="ScanItem">
<Parameter name="Number of steps" type="unsignedInteger" value="5"/>
<Parameter name="Type" type="unsignedInteger" value="2"/>
<Parameter name="Object" type="cn" value="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment],Vector=Metabolites[Y1],Reference=InitialConcentration"/>
<Parameter name="Minimum" type="float" value="0"/>
<Parameter name="Maximum" type="float" value="100000000"/>
<Parameter name="log" type="bool" value="0"/>
<Parameter name="Distribution type" type="unsignedInteger" value="0"/>
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<Parameter name="Type" type="unsignedInteger" value="2"/>
<Parameter name="Object" type="cn" value="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment],Vector=Metabolites[Y2],Reference=InitialConcentration"/>
<Parameter name="Minimum" type="float" value="0"/>
<Parameter name="Maximum" type="float" value="100000000"/>
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<Parameter name="Distribution type" type="unsignedInteger" value="0"/>
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<Parameter name="Type" type="unsignedInteger" value="2"/>
<Parameter name="Object" type="cn" value="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment],Vector=Metabolites[Y3],Reference=InitialConcentration"/>
<Parameter name="Minimum" type="float" value="0"/>
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<Parameter name="Object" type="cn" value="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment],Vector=Metabolites[Y4],Reference=InitialConcentration"/>
<Parameter name="Minimum" type="float" value="0"/>
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<Parameter name="Distribution type" type="unsignedInteger" value="0"/>
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<Parameter name="Object" type="cn" value="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment],Vector=Metabolites[Y5],Reference=InitialConcentration"/>
<Parameter name="Minimum" type="float" value="0"/>
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<ParameterGroup name="ScanItem">
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<Parameter name="Object" type="cn" value="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment],Vector=Metabolites[Y6],Reference=InitialConcentration"/>
<Parameter name="Minimum" type="float" value="0"/>
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<Parameter name="Distribution type" type="unsignedInteger" value="0"/>
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<Parameter name="Object" type="cn" value="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Compartments[compartment],Vector=Metabolites[Y7],Reference=InitialConcentration"/>
<Parameter name="Minimum" type="float" value="0"/>
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