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EchoRLiuEchoRLiu
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add individual based age of infection model in the subfolder
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‎Benchmark-Models/Liu_IFACPapersOnLine2025/individual-based/conditions.tsv‎

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conditionId conditionName u_2 xi_i_k
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vvDD_1 vvDD_1 1000000000.0 xi_v_1
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vvDD_2 vvDD_2 1000000000.0 xi_v_2
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vvDD_3 vvDD_3 1000000000.0 xi_v_3
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vvDD_4 vvDD_4 1000000000.0 xi_v_4
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vvDD_5 vvDD_5 1000000000.0 xi_v_5
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vvDD_6 vvDD_6 1000000000.0 xi_v_6
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vvDD_7 vvDD_7 1000000000.0 xi_v_7
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vvDD_8 vvDD_8 1000000000.0 xi_v_8
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vvDD_9 vvDD_9 1000000000.0 xi_v_9
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vvDD_10 vvDD_10 1000000000.0 xi_v_10
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ctrl_1 ctrl_1 0.0 xi_c_1
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ctrl_2 ctrl_2 0.0 xi_c_2
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ctrl_3 ctrl_3 0.0 xi_c_3
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ctrl_4 ctrl_4 0.0 xi_c_4
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ctrl_5 ctrl_5 0.0 xi_c_5
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ctrl_6 ctrl_6 0.0 xi_c_6
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ctrl_7 ctrl_7 0.0 xi_c_7
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ctrl_8 ctrl_8 0.0 xi_c_8
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ctrl_9 ctrl_9 0.0 xi_c_9
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ctrl_10 ctrl_10 0.0 xi_c_10

‎Benchmark-Models/Liu_IFACPapersOnLine2025/individual-based/individual_based_age_of_infection_model.xml‎

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<?xml version="1.0" encoding="UTF-8"?>
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<sbml xmlns="http://www.sbml.org/sbml/level3/version2/core" level="3" version="2">
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<model metaid="individual_based_age_of_infection_model" id="individual_based_age_of_infection_model">
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<listOfParameters>
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<parameter id="U" constant="false"/>
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<parameter id="rho" value="0.01" constant="true"/>
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<parameter id="I_1" value="0" constant="false"/>
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<parameter id="I_2" value="0" constant="false"/>
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<parameter id="I_3" value="0" constant="false"/>
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<parameter id="I_4" value="0" constant="false"/>
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<parameter id="I_5" value="0" constant="false"/>
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<parameter id="kappa" value="0.01" constant="true"/>
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<parameter id="psi" value="0.01" constant="true"/>
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<parameter id="V" constant="false"/>
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<parameter id="phi" value="0.01" constant="true"/>
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<parameter id="alpha" value="0.01" constant="true"/>
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<parameter id="beta" value="0.01" constant="true"/>
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<parameter id="delta" value="0.01" constant="true"/>
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<parameter id="xi_i_k" value="1" constant="true"/>
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<parameter id="u_2" constant="true"/>
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</listOfParameters>
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<listOfInitialAssignments>
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<initialAssignment symbol="U">
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<math xmlns="http://www.w3.org/1998/Math/MathML">
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<apply>
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<divide/>
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<ci> kappa </ci>
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<apply>
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<plus/>
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<cn type="integer"> 1 </cn>
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<apply>
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<times/>
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<apply>
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<minus/>
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<apply>
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<divide/>
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<ci> kappa </ci>
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<apply>
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<times/>
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<cn type="integer"> 400 </cn>
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<ci> xi_i_k </ci>
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</apply>
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</apply>
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<cn type="integer"> 1 </cn>
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</apply>
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<apply>
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<exp/>
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<apply>
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<minus/>
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<ci> rho </ci>
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</apply>
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</apply>
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</apply>
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</apply>
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</apply>
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</math>
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</initialAssignment>
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<initialAssignment symbol="V">
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<math xmlns="http://www.w3.org/1998/Math/MathML">
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<ci> u_2 </ci>
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</math>
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</initialAssignment>
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<initialAssignment symbol="u_2">
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<math xmlns="http://www.w3.org/1998/Math/MathML">
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<apply>
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<times/>
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<cn type="integer"> 1 </cn>
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<cn type="integer"> 1000000000 </cn>
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</apply>
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</math>
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</initialAssignment>
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</listOfInitialAssignments>
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<listOfRules>
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<rateRule variable="U">
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<math xmlns="http://www.w3.org/1998/Math/MathML">
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<apply>
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<minus/>
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<apply>
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<times/>
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<ci> rho </ci>
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<ci> U </ci>
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<apply>
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<minus/>
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<cn type="integer"> 1 </cn>
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<apply>
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<divide/>
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<apply>
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<plus/>
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<ci> U </ci>
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<ci> I_1 </ci>
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<ci> I_2 </ci>
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<ci> I_3 </ci>
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<ci> I_4 </ci>
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<ci> I_5 </ci>
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</apply>
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<ci> kappa </ci>
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</apply>
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</apply>
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</apply>
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<apply>
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<times/>
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<ci> psi </ci>
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<ci> V </ci>
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<ci> U </ci>
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</apply>
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</apply>
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</math>
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</rateRule>
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<rateRule variable="I_1">
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<math xmlns="http://www.w3.org/1998/Math/MathML">
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<apply>
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<minus/>
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<apply>
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<plus/>
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<apply>
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<times/>
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<ci> rho </ci>
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<ci> I_1 </ci>
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<apply>
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<minus/>
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<cn type="integer"> 1 </cn>
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<apply>
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<divide/>
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<apply>
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<plus/>
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<ci> U </ci>
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<ci> I_1 </ci>
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<ci> I_2 </ci>
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<ci> I_3 </ci>
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<ci> I_4 </ci>
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<ci> I_5 </ci>
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</apply>
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<ci> kappa </ci>
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</apply>
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</apply>
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</apply>
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<apply>
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<times/>
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<ci> psi </ci>
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<ci> V </ci>
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<ci> U </ci>
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</apply>
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</apply>
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<apply>
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<times/>
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<ci> phi </ci>
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<ci> I_1 </ci>
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</apply>
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</apply>
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</math>
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</rateRule>
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<rateRule variable="I_2">
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<math xmlns="http://www.w3.org/1998/Math/MathML">
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<apply>
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<minus/>
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<apply>
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<plus/>
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<apply>
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<times/>
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<ci> rho </ci>
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<ci> I_2 </ci>
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<apply>
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<minus/>
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<cn type="integer"> 1 </cn>
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<apply>
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<divide/>
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<apply>
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<plus/>
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<ci> U </ci>
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<ci> I_1 </ci>
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<ci> I_2 </ci>
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<ci> I_3 </ci>
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<ci> I_4 </ci>
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<ci> I_5 </ci>
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</apply>
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<ci> kappa </ci>
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</apply>
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</apply>
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</apply>
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<apply>
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<times/>
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<ci> phi </ci>
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<ci> I_1 </ci>
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</apply>
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</apply>
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<apply>
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<times/>
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<ci> phi </ci>
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<ci> I_2 </ci>
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</apply>
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</apply>
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</math>
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</rateRule>
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<rateRule variable="I_3">
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<math xmlns="http://www.w3.org/1998/Math/MathML">
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<apply>
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<minus/>
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<apply>
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<plus/>
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<apply>
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<times/>
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<ci> rho </ci>
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<ci> I_3 </ci>
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<apply>
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<minus/>
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<cn type="integer"> 1 </cn>
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<apply>
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<divide/>
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<apply>
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<plus/>
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<ci> U </ci>
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<ci> I_1 </ci>
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<ci> I_2 </ci>
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<ci> I_3 </ci>
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<ci> I_4 </ci>
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<ci> I_5 </ci>
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</apply>
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<ci> kappa </ci>
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</apply>
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</apply>
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</apply>
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<apply>
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<times/>
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<ci> phi </ci>
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<ci> I_2 </ci>
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</apply>
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</apply>
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<apply>
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<times/>
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<ci> phi </ci>
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<ci> I_3 </ci>
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</apply>
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</apply>
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</math>
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</rateRule>
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<rateRule variable="I_4">
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<math xmlns="http://www.w3.org/1998/Math/MathML">
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<apply>
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<minus/>
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<apply>
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<plus/>
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<apply>
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<times/>
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<ci> rho </ci>
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<ci> I_4 </ci>
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<apply>
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<minus/>
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<cn type="integer"> 1 </cn>
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<apply>
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<divide/>
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<apply>
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<plus/>
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<ci> U </ci>
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<ci> I_1 </ci>
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<ci> I_2 </ci>
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<ci> I_3 </ci>
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<ci> I_4 </ci>
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<ci> I_5 </ci>
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</apply>
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<ci> kappa </ci>
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</apply>
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</apply>
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</apply>
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<apply>
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<times/>
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<ci> phi </ci>
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<ci> I_3 </ci>
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</apply>
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</apply>
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<apply>
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<times/>
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<ci> phi </ci>
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<ci> I_4 </ci>
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</apply>
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</apply>
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</math>
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</rateRule>
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<rateRule variable="I_5">
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<math xmlns="http://www.w3.org/1998/Math/MathML">
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<apply>
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<minus/>
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<apply>
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<plus/>
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<apply>
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<times/>
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<ci> rho </ci>
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<ci> I_5 </ci>
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<apply>
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<minus/>
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<cn type="integer"> 1 </cn>
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<apply>
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<divide/>
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<apply>
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<plus/>
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<ci> U </ci>
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<ci> I_1 </ci>
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<ci> I_2 </ci>
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<ci> I_3 </ci>
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<ci> I_4 </ci>
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<ci> I_5 </ci>
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</apply>
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<ci> kappa </ci>
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</apply>
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</apply>
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</apply>
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<apply>
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<times/>
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<ci> phi </ci>
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<ci> I_4 </ci>
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</apply>
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</apply>
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<apply>
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<times/>
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<ci> alpha </ci>
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<ci> I_5 </ci>
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</apply>
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</apply>
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</math>
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</rateRule>
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<rateRule variable="V">
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<math xmlns="http://www.w3.org/1998/Math/MathML">
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<apply>
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<minus/>
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<apply>
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<minus/>
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<apply>
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<times/>
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<ci> beta </ci>
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<ci> alpha </ci>
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<ci> I_5 </ci>
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</apply>
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<apply>
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<times/>
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<ci> psi </ci>
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<ci> V </ci>
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<ci> U </ci>
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</apply>
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</apply>
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<apply>
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<times/>
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<ci> delta </ci>
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<ci> V </ci>
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</apply>
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</apply>
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</math>
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</rateRule>
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</listOfRules>
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<listOfEvents>
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<event id="_E0" useValuesFromTriggerTime="true">
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<trigger initialValue="true" persistent="true">
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<math xmlns="http://www.w3.org/1998/Math/MathML">
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<apply>
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<lt/>
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<ci> U </ci>
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<cn type="e-notation"> 1 <sep/> -8 </cn>
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</apply>
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</math>
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</trigger>
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<listOfEventAssignments>
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<eventAssignment variable="U">
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<math xmlns="http://www.w3.org/1998/Math/MathML">
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<cn type="integer"> 0 </cn>
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</math>
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</eventAssignment>
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</listOfEventAssignments>
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</event>
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</listOfEvents>
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</model>
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</sbml>

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