- Author:
- Michael Cooling <mcoo001@UoA.auckland.ac.nz>
- Date:
- 2016-04-11 12:26:19+12:00
- Desc:
- Adding .zip file of complete model
- Permanent Source URI:
- https://models.physiomeproject.org/workspace/2c5/rawfile/cce6374c21a60771321701b2f88857175ca5c31e/ICaL_to_Cai.cellml
<?xml version="1.0" encoding="utf-8"?>
<model xmlns:xlink="http://www.w3.org/1999/xlink" name="ICaL_to_Cai" cmeta:id="ICaL_to_Cai"
xmlns="http://www.cellml.org/cellml/1.1#" xmlns:cellml="http://www.cellml.org/cellml/1.1#"
xmlns:cmeta="http://www.cellml.org/metadata/1.0#">
<import xlink:href="Principled_Base/Units_Cellular_Systems.cellml">
<units name="per_mm" units_ref="per_mm" />
<units name="uF_per_mm2" units_ref="uF_per_mm2" />
<units name="mM_per_ms" units_ref="mM_per_ms" />
<units name="per_ms" units_ref="per_ms" />
<units name="ms" units_ref="ms" />
<units name="mM_per_s" units_ref="mM_per_s" />
</import>
<import xmlns="http://www.cellml.org/cellml/1.1#" xlink:href="Principled_Base/Time.cellml">
<component name="Time" component_ref="Time"/>
</import>
<component name="ICaL_to_Cai_Parameters">
<variable name="Am" units="per_mm" initial_value="200" public_interface="out"/>
<variable name="vC" units="dimensionless" initial_value="0.49" public_interface="out"/>
<variable name="Cm" initial_value="0.01" units="uF_per_mm2" public_interface="out"/>
<variable name="I_V_MinusExternal" initial_value="0" public_interface="out" units="uA_per_mm2" />
<variable name="J_Cai_External" initial_value="0" public_interface="out" units="mM_per_s" />
</component>
<import xmlns="http://www.cellml.org/cellml/1.1#" xlink:href="ICaL_pHSensitive.cellml">
<component name="ICaL_pHSensitive_Parameters" component_ref="ICaL_pHSensitive_Parameters"/>
</import>
<import xlink:href="Principled_Base/mohr_taylor_newell_2008_subset.cellml">
<units name="J_per_mole_per_K" units_ref="J_per_mole_per_K" />
<units name="C_per_mole" units_ref="C_per_mole" />
<component name="codata_2006_physicochemical" component_ref="codata_2006_physicochemical_subset" />
</import>
<connection>
<map_components component_1="ICaL_to_Cai" component_2="codata_2006_physicochemical"/>
<map_variables variable_1="R" variable_2="molar_gas_constant" />
<map_variables variable_1="F" variable_2="Faraday_constant" />
</connection>
<connection>
<map_components component_1="ICaL_to_Cai" component_2="ICaL_pHSensitive_Parameters"/>
<map_variables variable_1="H_i" variable_2="H_i" />
<map_variables variable_1="k_half_pHi" variable_2="k_half_pHi" />
<map_variables variable_1="H_o" variable_2="H_o" />
<map_variables variable_1="k_half_pHo" variable_2="k_half_pHo" />
<map_variables variable_1="ATP_i" variable_2="ATP_i" />
<map_variables variable_1="k_half_ATPi" variable_2="k_half_ATPi" />
<map_variables variable_1="H_ATPi" variable_2="H_ATPi" />
<map_variables variable_1="g_CaL" variable_2="g_CaL" />
<map_variables variable_1="V_init" variable_2="V" />
<map_variables variable_1="Cai_init" variable_2="Cai" />
<map_variables variable_1="Cao" variable_2="Cao" />
<map_variables variable_1="T" variable_2="T" />
<map_variables variable_1="d_init" variable_2="d_init" />
<map_variables variable_1="f_init" variable_2="f_init" />
<map_variables variable_1="fCa_init" variable_2="fCa_init" />
</connection>
<group>
<relationship_ref relationship="encapsulation"/>
<component_ref component="ICaL_to_Cai">
<component_ref component="membraneV"/>
<component_ref component="membraneV_delta"/>
<component_ref component="ICaL_pHSensitive"/>
<component_ref component="Cai"/>
<component_ref component="Cai_delta"/>
<component_ref component="Cai_ICaLflux_converter"/>
</component_ref>
</group>
<component name="ICaL_to_Cai">
<variable name="time" units="second" public_interface="in" private_interface="out"/>
<variable name="Cm" units="uF_per_mm2" public_interface="in" private_interface="out"/>
<variable name="V_init" units="mV" public_interface="in" private_interface="out"/>
<variable name="Am" units="per_mm" public_interface="in" private_interface="out"/>
<variable name="vC" units="dimensionless" public_interface="in" private_interface="out"/>
<variable name="H_i" units="mM" public_interface="in" private_interface="out"/>
<variable name="k_half_pHi" units="mM" public_interface="in" private_interface="out"/>
<variable name="H_o" units="mM" public_interface="in" private_interface="out"/>
<variable name="k_half_pHo" units="mM" public_interface="in" private_interface="out"/>
<variable name="ATP_i" units="mM" public_interface="in" private_interface="out"/>
<variable name="k_half_ATPi" units="mM" public_interface="in" private_interface="out"/>
<variable name="H_ATPi" units="dimensionless" public_interface="in" private_interface="out"/>
<variable name="g_CaL" public_interface="in" private_interface="out" units="mm_per_ms"/>
<variable name="Cai_init" public_interface="in" private_interface="out" units="mM"/>
<variable name="Cao" public_interface="in" private_interface="out" units="mM"/>
<variable name="T" public_interface="in" private_interface="out" units="K"/>
<variable name="R" public_interface="in" private_interface="out" units="J_per_mole_per_K"/>
<variable name="F" public_interface="in" private_interface="out" units="C_per_mole"/>
<variable name="d_init" public_interface="in" private_interface="out" units="dimensionless" />
<variable name="f_init" public_interface="in" private_interface="out" units="dimensionless" />
<variable name="fCa_init" public_interface="in" private_interface="out" units="dimensionless" />
<variable name="J_Cai_External" public_interface="in" private_interface="out" units="mM_per_s" />
<variable name="I_V_MinusExternal" public_interface="in" private_interface="out" units="uA_per_mm2" />
<variable name="V" public_interface="out" private_interface="in" units="mV"/>
<variable name="I_V_Minus" public_interface="out" private_interface="in" units="uA_per_mm2" />
<variable name="Cai" public_interface="out" private_interface="in" units="mM"/>
<variable name="J_Cai" public_interface="out" private_interface="in" units="mM_per_s"/>
</component>
<connection>
<map_components component_1="ICaL_to_Cai" component_2="Time"/>
<map_variables variable_1="time" variable_2="time"/>
</connection>
<connection>
<map_components component_1="ICaL_to_Cai" component_2="ICaL_to_Cai_Parameters"/>
<map_variables variable_1="Am" variable_2="Am"/>
<map_variables variable_1="vC" variable_2="vC"/>
<map_variables variable_1="Cm" variable_2="Cm"/>
<map_variables variable_1="I_V_MinusExternal" variable_2="I_V_MinusExternal"/>
<map_variables variable_1="J_Cai_External" variable_2="J_Cai_External" />
</connection>
<component name="membraneV_delta">
<variable name="ICaL" public_interface="in" units="uA_per_mm2"/>
<variable name="IMinusExternal" public_interface="in" units="uA_per_mm2"/>
<variable name="INetMinus" units="uA_per_mm2" public_interface="out" />
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply><eq/>
<ci>INetMinus</ci>
<apply>
<minus/>
<apply>
<plus/>
<ci>ICaL</ci>
<ci>IMinusExternal</ci>
</apply>
</apply>
</apply>
</math>
</component>
<connection>
<map_components component_1="ICaL_to_Cai" component_2="membraneV_delta"/>
<map_variables variable_1="I_V_MinusExternal" variable_2="IMinusExternal"/>
<map_variables variable_1="I_V_Minus" variable_2="INetMinus"/>
</connection>
<connection>
<map_components component_1="ICaL_pHSensitive" component_2="membraneV_delta"/>
<map_variables variable_1="ICaL" variable_2="ICaL"/>
</connection>
<component name="membraneV">
<variable name="V_init" public_interface="in" units="mV"/>
<variable name="time" public_interface="in" units="ms"/>
<variable name="INetMinus" public_interface="in" units="uA_per_mm2" />
<variable name="Cm" units="uF_per_mm2" public_interface="in" />
<variable name="V" initial_value="V_init" public_interface="out" units="mV"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply><eq/>
<apply><diff/>
<bvar><ci>time</ci></bvar>
<ci>V</ci>
</apply>
<apply><divide/>
<apply><minus/>
<ci>INetMinus</ci>
</apply>
<ci>Cm</ci>
</apply>
</apply>
</math>
</component>
<connection>
<map_components component_1="ICaL_to_Cai" component_2="membraneV"/>
<map_variables variable_1="V_init" variable_2="V_init"/>
<map_variables variable_1="Cm" variable_2="Cm"/>
<map_variables variable_1="time" variable_2="time"/>
<map_variables variable_1="V" variable_2="V"/>
</connection>
<connection>
<map_components component_1="membraneV_delta" component_2="membraneV"/>
<map_variables variable_1="INetMinus" variable_2="INetMinus"/>
</connection>
<import xlink:href="Principled_Base/Template_Species_uM.cellml">
<component name="Cai" component_ref="Template_Species_uM"/>
</import>
<connection>
<map_components component_1="Cai" component_2="ICaL_to_Cai"/>
<map_variables variable_1="concentrationInitialValue" variable_2="Cai_init"/>
<map_variables variable_1="concentration" variable_2="Cai"/>
<map_variables variable_1="time" variable_2="time"/>
</connection>
<connection>
<map_components component_1="Cai_delta" component_2="Cai"/>
<map_variables variable_1="JNet" variable_2="JGain"/>
</connection>
<component name="Cai_delta">
<variable name="JPlusICaL" units="mM_per_s" public_interface="in" />
<variable name="JNet" units="mM_per_s" public_interface="out" />
<variable name="JExternal" units="mM_per_s" public_interface="in" />
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>JNet</ci>
<apply>
<plus/>
<ci>JPlusICaL</ci>
<ci>JExternal</ci>
</apply>
</apply>
</math>
</component>
<connection>
<map_components component_1="Cai_delta" component_2="Cai_ICaLflux_converter"/>
<map_variables variable_1="JPlusICaL" variable_2="J_Cai"/>
</connection>
<connection>
<map_components component_1="Cai_delta" component_2="ICaL_to_Cai"/>
<map_variables variable_1="JNet" variable_2="J_Cai"/>
<map_variables variable_1="JExternal" variable_2="J_Cai_External"/>
</connection>
<component name="Cai_ICaLflux_converter">
<variable name="vC" units="dimensionless" public_interface="in" />
<variable name="Am" units="per_mm" public_interface="in"/>
<variable name="F" units="C_per_mole" public_interface="in"/>
<variable name="ICaL" units="uA_per_mm2" public_interface="in"/>
<variable name="J_Cai" units="mM_per_ms" public_interface="out" />
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>J_Cai</ci>
<apply>
<times/>
<apply>
<divide/>
<ci>Am</ci>
<apply>
<times/>
<cn cellml:units="dimensionless">2</cn>
<ci>vC</ci>
<ci>F</ci>
</apply>
</apply>
<apply>
<minus/>
<ci>ICaL</ci>
</apply>
</apply>
</apply>
</math>
</component>
<connection>
<map_components component_1="Cai_ICaLflux_converter" component_2="ICaL_to_Cai"/>
<map_variables variable_1="Am" variable_2="Am"/>
<map_variables variable_1="vC" variable_2="vC"/>
<map_variables variable_1="F" variable_2="F"/>
</connection>
<connection>
<map_components component_1="ICaL_pHSensitive" component_2="Cai_ICaLflux_converter"/>
<map_variables variable_1="ICaL" variable_2="ICaL"/>
</connection>
<import xlink:href="ICaL_pHSensitive.cellml">
<units name="mM" units_ref="mM" />
<units name="mm_per_ms" units_ref="mm_per_ms" />
<units name="mV" units_ref="mV" />
<units name="K" units_ref="K" />
<units name="uA_per_mm2" units_ref="uA_per_mm2" />
<component name="ICaL_pHSensitive" component_ref="ICaL_pHSensitive"/>
</import>
<connection>
<map_components component_1="Cai" component_2="ICaL_pHSensitive"/>
<map_variables variable_1="concentration" variable_2="Cai"/>
</connection>
<connection>
<map_components component_1="ICaL_pHSensitive" component_2="ICaL_to_Cai"/>
<map_variables variable_1="H_i" variable_2="H_i" />
<map_variables variable_1="k_half_pHi" variable_2="k_half_pHi" />
<map_variables variable_1="H_o" variable_2="H_o" />
<map_variables variable_1="k_half_pHo" variable_2="k_half_pHo" />
<map_variables variable_1="ATP_i" variable_2="ATP_i" />
<map_variables variable_1="k_half_ATPi" variable_2="k_half_ATPi" />
<map_variables variable_1="H_ATPi" variable_2="H_ATPi" />
<map_variables variable_1="g_CaL" variable_2="g_CaL" />
<map_variables variable_1="Cao" variable_2="Cao" />
<map_variables variable_1="T" variable_2="T" />
<map_variables variable_1="d_init" variable_2="d_init" />
<map_variables variable_1="f_init" variable_2="f_init" />
<map_variables variable_1="fCa_init" variable_2="fCa_init" />
<map_variables variable_1="time" variable_2="time" />
<map_variables variable_1="F" variable_2="F" />
<map_variables variable_1="R" variable_2="R" />
</connection>
<connection>
<map_components component_1="ICaL_pHSensitive" component_2="membraneV"/>
<map_variables variable_1="V" variable_2="V" />
</connection>
</model>
