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Cho_Shin_LungCancer_GRN_ParametersSpecified_logarithm.cps
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Cho_Shin_LungCancer_GRN_ParametersSpecified_logarithm.cps
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<?xml version="1.0" encoding="UTF-8"?>
<!-- generated with COPASI 4.44 (Build 295) (http://www.copasi.org) at 2024-07-29T19:12:38Z -->
<?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">
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<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">
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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>
<Comment>
ODE model of lung cancer cells at the critical transition point, taken from Cho and Shin's manuscript "Critical transition and reversion of tumorigenesis". Used the exact parameter parameter set specified by Cho and Shin. Ranges for initial network conditions likewise ranged from 1e-6 to 1e+6, sampled logarithmically. Sampled 20000 random initial states.
</Comment>
<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">
<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_0">
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
<ListOfSubstrates>
<Substrate metabolite="Metabolite_0" stoichiometry="1"/>
</ListOfSubstrates>
<ListOfConstants>
<Constant key="Parameter_5506" 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_5506"/>
</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">
<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_1">
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
<ListOfProducts>
<Product metabolite="Metabolite_0" stoichiometry="1"/>
</ListOfProducts>
<ListOfModifiers>
<Modifier metabolite="Metabolite_1" stoichiometry="1"/>
</ListOfModifiers>
<ListOfConstants>
<Constant key="Parameter_5509" name="G" value="36.437"/>
<Constant key="Parameter_4675" name="FC" value="50.764"/>
<Constant key="Parameter_4676" name="TH" value="3.7388"/>
<Constant key="Parameter_4679" 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_5509"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_274">
<SourceParameter reference="Parameter_4675"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_273">
<SourceParameter reference="Metabolite_1"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_272">
<SourceParameter reference="Parameter_4676"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_266">
<SourceParameter reference="Parameter_4679"/>
</CallParameter>
</ListOfCallParameters>
</KineticLaw>
</Reaction>
<Reaction key="Reaction_2" name="Y2 destruction" reversible="false" fast="false" addNoise="false">
<MiriamAnnotation>
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<rdf:Description rdf:about="#Reaction_2">
</rdf:Description>
</rdf:RDF>
</MiriamAnnotation>
<ListOfSubstrates>
<Substrate metabolite="Metabolite_1" stoichiometry="1"/>
</ListOfSubstrates>
<ListOfConstants>
<Constant key="Parameter_4674" 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_4674"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_81">
<SourceParameter reference="Metabolite_1"/>
</CallParameter>
</ListOfCallParameters>
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</Reaction>
<Reaction key="Reaction_3" name="Y2 creation" reversible="false" fast="false" addNoise="false">
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<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_4678" name="G" value="94.764"/>
<Constant key="Parameter_4677" name="FC1" value="48.834"/>
<Constant key="Parameter_6923" name="TH1" value="29.777"/>
<Constant key="Parameter_6924" name="N1" value="5"/>
<Constant key="Parameter_6927" name="FC2" value="92.651"/>
<Constant key="Parameter_6922" name="TH2" value="6.0194"/>
<Constant key="Parameter_6926" name="N2" value="3"/>
<Constant key="Parameter_6925" name="FC3" value="36.102"/>
<Constant key="Parameter_4647" name="TH3" value="67.22"/>
<Constant key="Parameter_4648" 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_4678"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_279">
<SourceParameter reference="Parameter_4677"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_278">
<SourceParameter reference="Metabolite_0"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_277">
<SourceParameter reference="Parameter_6923"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_276">
<SourceParameter reference="Parameter_6924"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_281">
<SourceParameter reference="Parameter_6927"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_282">
<SourceParameter reference="Metabolite_2"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_283">
<SourceParameter reference="Parameter_6922"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_284">
<SourceParameter reference="Parameter_6926"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_285">
<SourceParameter reference="Parameter_6925"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_286">
<SourceParameter reference="Metabolite_6"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_287">
<SourceParameter reference="Parameter_4647"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_288">
<SourceParameter reference="Parameter_4648"/>
</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_4654" 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_4654"/>
</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_4646" name="G" value="58.436"/>
<Constant key="Parameter_4650" name="FC" value="38.165"/>
<Constant key="Parameter_4653" name="TH" value="2.5773"/>
<Constant key="Parameter_4652" 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_4646"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_274">
<SourceParameter reference="Parameter_4650"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_273">
<SourceParameter reference="Metabolite_1"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_272">
<SourceParameter reference="Parameter_4653"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_266">
<SourceParameter reference="Parameter_4652"/>
</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_4651" 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_4651"/>
</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_4649" name="G" value="73.576"/>
<Constant key="Parameter_7507" name="FC" value="11.695"/>
<Constant key="Parameter_7508" name="TH" value="9.6368"/>
<Constant key="Parameter_7511" 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_4649"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_274">
<SourceParameter reference="Parameter_7507"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_273">
<SourceParameter reference="Metabolite_2"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_272">
<SourceParameter reference="Parameter_7508"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_266">
<SourceParameter reference="Parameter_7511"/>
</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_7506" 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_7506"/>
</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_7510" name="G" value="52.016"/>
<Constant key="Parameter_7509" name="FC" value="76.83"/>
<Constant key="Parameter_6026" name="TH" value="4.79"/>
<Constant key="Parameter_6027" 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_7510"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_274">
<SourceParameter reference="Parameter_7509"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_273">
<SourceParameter reference="Metabolite_2"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_272">
<SourceParameter reference="Parameter_6026"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_266">
<SourceParameter reference="Parameter_6027"/>
</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_6029" 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_6029"/>
</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_6025" name="G" value="31.963"/>
<Constant key="Parameter_6028" name="FC" value="58.55"/>
<Constant key="Parameter_6510" name="TH" value="78.959"/>
<Constant key="Parameter_6511" 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_6025"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_274">
<SourceParameter reference="Parameter_6028"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_273">
<SourceParameter reference="Metabolite_4"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_272">
<SourceParameter reference="Parameter_6510"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_266">
<SourceParameter reference="Parameter_6511"/>
</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_6513" 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_6513"/>
</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_6509" name="G" value="7.6353"/>
<Constant key="Parameter_6512" name="FC" value="78.563"/>
<Constant key="Parameter_7345" name="TH" value="43.133"/>
<Constant key="Parameter_7346" 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_6509"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_274">
<SourceParameter reference="Parameter_6512"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_273">
<SourceParameter reference="Metabolite_5"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_272">
<SourceParameter reference="Parameter_7345"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_266">
<SourceParameter reference="Parameter_7346"/>
</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_7348" 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_7348"/>
</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_7344" name="G" value="39.92"/>
<Constant key="Parameter_7347" name="FC1" value="85.693"/>
<Constant key="Parameter_4926" name="TH1" value="4.0907"/>
<Constant key="Parameter_4927" name="N1" value="4"/>
<Constant key="Parameter_4929" name="FC2" value="93.561"/>
<Constant key="Parameter_4925" name="TH2" value="8.1658"/>
<Constant key="Parameter_4928" name="N2" value="2"/>
<Constant key="Parameter_6777" name="FC3" value="92.464"/>
<Constant key="Parameter_6778" name="TH3" value="59.781"/>
<Constant key="Parameter_6780" 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_7344"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_279">
<SourceParameter reference="Parameter_7347"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_278">
<SourceParameter reference="Metabolite_0"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_277">
<SourceParameter reference="Parameter_4926"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_276">
<SourceParameter reference="Parameter_4927"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_281">
<SourceParameter reference="Parameter_4929"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_282">
<SourceParameter reference="Metabolite_1"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_283">
<SourceParameter reference="Parameter_4925"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_284">
<SourceParameter reference="Parameter_4928"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_285">
<SourceParameter reference="Parameter_6777"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_286">
<SourceParameter reference="Metabolite_3"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_287">
<SourceParameter reference="Parameter_6778"/>
</CallParameter>
<CallParameter functionParameter="FunctionParameter_288">
<SourceParameter reference="Parameter_6780"/>
</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/"
xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<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"/>
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<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">
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</ModelParameterGroup>
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</ModelParameterGroup>
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<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y6 creation],ParameterGroup=Parameters,Parameter=FC" value="58.549999999999997" type="ReactionParameter" simulationType="fixed"/>
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<ModelParameter cn="CN=Root,Model=Cho_Shin_LungCancer_GRN,Vector=Reactions[Y6 creation],ParameterGroup=Parameters,Parameter=N" value="2" type="ReactionParameter" simulationType="fixed"/>
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</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[Y8 creation],ParameterGroup=Parameters,Parameter=FC2" value="93.561000000000007" type="ReactionParameter" simulationType="fixed"/>
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</ModelParameterGroup>
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<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"/>
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<Report reference="Report_11" target="" append="1" confirmOverwrite="1"/>
<Problem>
<Parameter name="JacobianRequested" type="bool" value="1"/>
<Parameter name="StabilityAnalysisRequested" type="bool" value="1"/>
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<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">
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<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=""/>
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<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_14.txt" append="0" confirmOverwrite="1"/>
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<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="9.9999999999999995e-07"/>
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<Parameter name="Minimum" type="float" value="9.9999999999999995e-07"/>
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<Parameter name="Subtask Output" type="string" value="none"/>