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Copy pathantibiotic_model.xml
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antibiotic_model.xml
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<?xml version="1.0" encoding="UTF-8"?>
<sbml xmlns="http://www.sbml.org/sbml/level3/version2/core" level="3" version="2">
<model id="adaptive_antibiotic_model" timeUnits="hour">
<listOfUnitDefinitions>
<unitDefinition id="per_hour">
<listOfUnits>
<unit kind="second" exponent="-1" scale="0" multiplier="3600"/>
</listOfUnits>
</unitDefinition>
<unitDefinition id="hour">
<listOfUnits>
<unit kind="second" exponent="1" scale="0" multiplier="3600"/>
</listOfUnits>
</unitDefinition>
<unitDefinition id="mg_per_kg">
<listOfUnits>
<unit kind="gram" exponent="1" scale="-3" multiplier="1"/>
<unit kind="gram" exponent="-1" scale="3" multiplier="1"/>
</listOfUnits>
</unitDefinition>
<unitDefinition id="ml_per_h_ug">
<listOfUnits>
<unit kind="litre" exponent="1" scale="-3" multiplier="1"/>
<unit kind="second" exponent="-1" scale="0" multiplier="3600"/>
<unit kind="gram" exponent="-1" scale="-6" multiplier="1"/>
</listOfUnits>
</unitDefinition>
</listOfUnitDefinitions>
<listOfParameters>
<parameter id="KNetgrowth" value="2.3" constant="false" units="per_hour"/>
<parameter id="tvbmax" value="1e9" constant="true" units="dimensionless"/>
<parameter id="Kmax" value="3.2" constant="false" units="per_hour"/>
<parameter id="EC50k" value="0.5" constant="false" units="mg_per_kg"/>
<parameter id="gamma" value="3.8" constant="false" units="dimensionless"/>
<parameter id="beta" value="44" constant="false" units="dimensionless"/>
<parameter id="tau" value="0.002" constant="false" units="ml_per_h_ug"/>
<parameter id="alpha" value="3.1" constant="false" units="per_hour"/>
<parameter id="Kdeath" value="0.3" constant="false" units="per_hour"/>
<parameter id="Ksr_max" value="2.8" constant="false" units="per_hour"/>
<parameter id="Drug_concentration" value="10" constant="false" units="mg_per_kg"/>
</listOfParameters>
<listOfCompartments>
<compartment constant="false" id="P1" size="1" units="dimensionless"/>
<compartment constant="false" id="P2" size="1" units="dimensionless"/>
<compartment constant="false" id="Ptotal" size="1" units="dimensionless"/>
<compartment constant="false" id="t" size="1" units="dimensionless"/>
</listOfCompartments>
<listOfRules>
<rateRule variable="P1">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<minus/>
<apply>
<times/>
<ci> KNetgrowth </ci>
<ci> P1 </ci>
<apply>
<minus/>
<cn> 1 </cn>
<apply>
<divide/>
<apply>
<plus/>
<ci> P1 </ci>
<ci> P2 </ci>
</apply>
<ci> tvbmax </ci>
</apply>
</apply>
</apply>
<apply>
<plus/>
<apply>
<times/>
<apply>
<times/>
<apply>
<divide/>
<ci> Ksr_max </ci>
<ci> tvbmax </ci>
</apply>
<apply>
<plus/>
<ci> P1 </ci>
<ci> P2 </ci>
</apply>
</apply>
<ci> P1 </ci>
</apply>
<apply>
<divide/>
<apply>
<times/>
<ci> Kmax </ci>
<ci> P1 </ci>
<apply>
<minus/>
<cn> 1 </cn>
<apply>
<exp/>
<apply>
<times/>
<apply>
<minus/>
<cn> 0 </cn>
<cn> t </cn>
</apply>
<ci> alpha </ci>
</apply>
</apply>
</apply>
<apply>
<power/>
<ci> Drug_concentration </ci>
<ci> gamma </ci>
</apply>
</apply>
<apply>
<times/>
<apply>
<plus/>
<apply>
<power/>
<apply>
<times/>
<ci> EC50k </ci>
<apply>
<plus/>
<cn> 1 </cn>
<apply>
<times/>
<ci> beta </ci>
<apply>
<minus/>
<cn> 1 </cn>
<apply>
<exp/>
<apply>
<times/>
<apply>
<minus/>
<cn> 0 </cn>
<ci> Drug_concentration </ci>
</apply>
<ci> tau </ci>
<cn> t </cn>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
<ci> gamma </ci>
</apply>
<apply>
<power/>
<ci> Drug_concentration </ci>
<ci> gamma </ci>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
</math>
</rateRule>
<rateRule variable = "P2">
<math xmlns="http://www.w3.org/1998/Math/MathML" >
<apply>
<minus/>
<apply>
<times/>
<apply>
<times/>
<apply>
<divide/>
<ci> Ksr_max </ci>
<ci> tvbmax </ci>
</apply>
<apply>
<plus/>
<ci> P1 </ci>
<ci> P2 </ci>
</apply>
</apply>
<ci> P1 </ci>
</apply>
<apply>
<times/>
<ci> Kdeath </ci>
<ci> P2 </ci>
</apply>
</apply>
</math>
</rateRule>
</rateRule>
<rateRule variable = "t">
<math xmlns="http://www.w3.org/1998/Math/MathML" >
<cn> 1 </cn>
</math>
</rateRule>
<assignmentRule variable = "Ptotal">
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<plus/>
<ci> P1 </ci>
<ci> P2 </ci>
</apply>
</math>
</assignmentRule>
</listOfRules>
</model>
</sbml>