Location: Model of Excitation-Contraction in a uterine SMC @ 5766fc294ca1 / Experiments / Vm_stim_experiment.cellml
- Author:
- WeiweiAi <wai484@aucklanduni.ac.nz>
- Date:
- 2021-09-30 13:14:32+13:00
- Desc:
- fix the typos and tables in doc
- Permanent Source URI:
- http://models.cellml.org/workspace/6bb/rawfile/5766fc294ca1fb80e47e776c78d754cad7f5fc7f/Experiments/Vm_stim_experiment.cellml
<?xml version='1.0' encoding='UTF-8'?>
<model name="Vm_stim_experiment" xmlns="http://www.cellml.org/cellml/1.1#" xmlns:cellml="http://www.cellml.org/cellml/1.1#" xmlns:xlink="http://www.w3.org/1999/xlink">
<import xlink:href="../cellLib/Components/units.cellml">
<units name="mV" units_ref="mV"/>
<units name="mM" units_ref="mM"/>
<units name="mM_per_s" units_ref="mM_per_s"/>
<units name="mV_per_s" units_ref="mV_per_s"/>
</import>
<import xlink:href="../Components/EC_uSMC.cellml">
<component component_ref="EC_uSMC" name="EC_uSMC"/>
</import>
<import xlink:href="../cellLib/Components/time.cellml">
<component component_ref="time_s" name="time_s"/>
</import>
<import xlink:href="../Components/default_values.cellml">
<component component_ref="model_para" name="model_para"/>
<component component_ref="initials" name="initials"/>
<component component_ref="constants" name="constants"/>
</import>
<!-- Connect the time source variable to the model and stimulus protocol -->
<component name="Vm">
<variable name="time" public_interface="in" units="second"/>
<variable name="V" public_interface="out" units="mV"/>
<variable name="p1" units="mV_per_s"/>
<variable name="p2" units="mV"/>
<variable name="t0" units="second"/>
<variable initial_value="0" name="tss" units="second"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>V</ci>
<apply>
<plus/>
<apply>
<times/>
<ci>p1</ci>
<apply>
<minus/>
<apply>
<minus/>
<ci>time</ci>
<ci>t0</ci>
</apply>
<ci>tss</ci>
</apply>
</apply>
<ci>p2</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>p1</ci>
<piecewise>
<piece>
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<apply>
<lt/>
<apply>
<minus/>
<ci>time</ci>
<ci>tss</ci>
</apply>
<cn cellml:units="second">0.4742</cn>
</apply>
</piece>
<piece>
<cn cellml:units="mV_per_s">0.2508</cn>
<apply>
<and/>
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<geq/>
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<minus/>
<ci>time</ci>
<ci>tss</ci>
</apply>
<cn cellml:units="second">0.4742</cn>
</apply>
<apply>
<lt/>
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<ci>tss</ci>
</apply>
<cn cellml:units="second">9.7684</cn>
</apply>
</apply>
</piece>
<piece>
<apply>
<minus/>
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</apply>
<apply>
<and/>
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<ci>tss</ci>
</apply>
<cn cellml:units="second">9.7684</cn>
</apply>
<apply>
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<cn cellml:units="second">10.8076</cn>
</apply>
</apply>
</piece>
<piece>
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</apply>
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</apply>
</apply>
</piece>
<piece>
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</apply>
<apply>
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</apply>
<cn cellml:units="second">18.3268</cn>
</apply>
</apply>
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<apply>
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</apply>
</apply>
</piece>
<piece>
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</apply>
<apply>
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</apply>
</apply>
</piece>
<piece>
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</apply>
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</apply>
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</piece>
<piece>
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<minus/>
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</apply>
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<and/>
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<minus/>
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<minus/>
<ci>time</ci>
<ci>tss</ci>
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<cn cellml:units="second">56.2152</cn>
</apply>
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</piece>
<piece>
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<minus/>
<cn cellml:units="mV_per_s">1.4456</cn>
</apply>
<apply>
<and/>
<apply>
<geq/>
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<minus/>
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<lt/>
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<ci>time</ci>
<ci>tss</ci>
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</apply>
</apply>
</piece>
<piece>
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<and/>
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</apply>
<apply>
<lt/>
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<minus/>
<ci>time</ci>
<ci>tss</ci>
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<cn cellml:units="second">82.4301</cn>
</apply>
</apply>
</piece>
<piece>
<apply>
<minus/>
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</apply>
<apply>
<and/>
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<minus/>
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<ci>tss</ci>
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</apply>
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<ci>time</ci>
<ci>tss</ci>
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</apply>
</apply>
</piece>
<otherwise>
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</otherwise>
</piecewise>
</apply>
<apply>
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<ci>tss</ci>
</apply>
<cn cellml:units="second">9.7684</cn>
</apply>
</apply>
</piece>
<piece>
<apply>
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</apply>
<apply>
<and/>
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<minus/>
<ci>time</ci>
<ci>tss</ci>
</apply>
<cn cellml:units="second">9.7684</cn>
</apply>
<apply>
<lt/>
<apply>
<minus/>
<ci>time</ci>
<ci>tss</ci>
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</apply>
</apply>
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<piece>
<apply>
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</apply>
<apply>
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<piece>
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<minus/>
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<apply>
<eq/>
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<otherwise>
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</math>
</component>
<connection>
<map_components component_1="time_s" component_2="Vm"/>
<map_variables variable_1="time" variable_2="time"/>
</connection>
<connection>
<map_components component_1="time_s" component_2="EC_uSMC"/>
<map_variables variable_1="time" variable_2="time"/>
</connection>
<component name="control_para">
<variable initial_value="2.9836" name="Nai" public_interface="out" units="mM"/>
<variable initial_value="1" name="inhPump" public_interface="out" units="dimensionless"/>
<variable initial_value="11" name="K_Cahalf" public_interface="out" units="mV"/>
</component>
<connection>
<map_components component_1="control_para" component_2="EC_uSMC"/>
<map_variables variable_1="Nai" variable_2="Nai"/>
<map_variables variable_1="inhPump" variable_2="inhPump"/>
<map_variables variable_1="K_Cahalf" variable_2="K_Cahalf"/>
</connection>
<!-- and connect the actual stimulus current to the model -->
<connection>
<map_components component_1="Vm" component_2="EC_uSMC"/>
<map_variables variable_1="V" variable_2="V"/>
</connection>
<!-- SED-ML (and CSim simulation description above) is only able to address variables at the top level of the model hierarchy, so we need to define the variables we want SED-ML to be able to address here. -->
<component name="outputs">
<variable name="time" public_interface="in" units="second"/>
<variable name="V" public_interface="in" units="mV"/>
<variable name="Cai" public_interface="in" units="mM"/>
<variable name="J_VOCC" public_interface="in" units="mM_per_s"/>
<variable name="J_CaPump" public_interface="in" units="mM_per_s"/>
<variable name="J_NaCa" public_interface="in" units="mM_per_s"/>
<variable name="stress" public_interface="in" units="dimensionless"/>
<variable name="phosphorylation" public_interface="in" units="dimensionless"/>
</component>
<!-- and connect the output variable definitions to their actual source in the model -->
<connection>
<map_components component_1="EC_uSMC" component_2="outputs"/>
<map_variables variable_1="Cai" variable_2="Cai"/>
<map_variables variable_1="J_VOCC" variable_2="J_VOCC"/>
<map_variables variable_1="J_CaPump" variable_2="J_CaPump"/>
<map_variables variable_1="J_NaCa" variable_2="J_NaCa"/>
<map_variables variable_1="stress" variable_2="stress"/>
<map_variables variable_1="phosphorylation" variable_2="phosphorylation"/>
</connection>
<connection>
<map_components component_1="outputs" component_2="time_s"/>
<map_variables variable_1="time" variable_2="time"/>
</connection>
<!-- and connect the time output to the source time variable -->
<connection>
<map_components component_1="Vm" component_2="outputs"/>
<map_variables variable_1="V" variable_2="V"/>
</connection>
<!-- We connect the default parameters through to the model-->
<connection>
<map_components component_1="model_para" component_2="EC_uSMC"/>
<map_variables variable_1="T" variable_2="T"/>
<map_variables variable_1="Nao" variable_2="Nao"/>
<map_variables variable_1="Cao" variable_2="Cao"/>
<map_variables variable_1="V_cell" variable_2="V_cell"/>
<map_variables variable_1="V_Cahalf" variable_2="V_Cahalf"/>
<map_variables variable_1="g_mCa" variable_2="g_mCa"/>
<map_variables variable_1="V_pmax" variable_2="V_pmax"/>
<map_variables variable_1="n" variable_2="n"/>
<map_variables variable_1="K_ph" variable_2="K_ph"/>
<map_variables variable_1="K_NaCa" variable_2="K_NaCa"/>
<map_variables variable_1="G_NaCa" variable_2="G_NaCa"/>
<map_variables variable_1="n_M" variable_2="n_M"/>
<map_variables variable_1="Ca_halfMLCK" variable_2="Ca_halfMLCK"/>
<map_variables variable_1="K_7" variable_2="K_7"/>
<map_variables variable_1="K_2" variable_2="K_2"/>
<map_variables variable_1="K_3" variable_2="K_3"/>
<map_variables variable_1="K_4" variable_2="K_4"/>
<map_variables variable_1="K_5" variable_2="K_5"/>
</connection>
<connection>
<map_components component_1="constants" component_2="EC_uSMC"/>
<map_variables variable_1="R" variable_2="R"/>
<map_variables variable_1="F" variable_2="F"/>
</connection>
<!-- We connect the initial conditions through to the model-->
<connection>
<map_components component_1="initials" component_2="EC_uSMC"/>
<map_variables variable_1="M_init" variable_2="M_init"/>
<map_variables variable_1="Mp_init" variable_2="Mp_init"/>
<map_variables variable_1="AM_init" variable_2="AM_init"/>
<map_variables variable_1="AMp_init" variable_2="AMp_init"/>
<map_variables variable_1="Cai_init" variable_2="Cai_init"/>
</connection>
</model>