- Author:
- Shelley Fong <sfon036@UoA.auckland.ac.nz>
- Date:
- 2025-07-18 14:18:20+12:00
- Desc:
- Adding gating
- Permanent Source URI:
- https://staging.physiomeproject.org/workspace/d51/rawfile/71d08ea2728aa74072b1b874541eff4dad159272/BG_An01.cellml
<?xml version='1.0' encoding='UTF-8'?>
<model name="individual_An01" 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="units_and_constants/units.cellml">
<units name="mM" units_ref="mM"/>
<units name="mV" units_ref="mV"/>
<units name="fmol" units_ref="fmol"/>
<units name="per_fmol" units_ref="per_fmol"/>
<units name="J_per_mol" units_ref="J_per_mol"/>
<units name="fmol_per_sec" units_ref="fmol_per_s"/>
<units name="C_per_mol" units_ref="C_per_mol"/>
<units name="J_per_C" units_ref="J_per_C"/>
<units name="microm3" units_ref="microm3"/>
<units name="fF" units_ref="fF"/>
<units name="fC" units_ref="fC"/>
<units name="fA" units_ref="fA"/>
<units name="per_second" units_ref="per_second"/>
<units name="millivolt" units_ref="millivolt"/>
<units name="per_sec" units_ref="per_sec"/>
<units name="J_per_K_per_mol" units_ref="J_per_K_mol"/>
<units name="fmol_per_L" units_ref="fmol_per_L"/>
<units name="fmol_per_L_per_sec" units_ref="fmol_per_L_per_sec"/>
<units name="per_sec_per_fmol_per_L" units_ref="per_sec_per_fmol_per_L"/>
<units name="uM" units_ref="uM"/>
<units name="mM_per_sec" units_ref="mM_per_sec"/>
<units name="uM_per_sec" units_ref="uM_per_sec"/>
<units name="pL" units_ref="pL"/>
<units name="m_to_u" units_ref="m_to_u"/>
</import>
<import xlink:href="units_and_constants/constants.cellml">
<component component_ref="constants" name="constants"/>
</import>
<units name="msec">
<unit prefix="milli" units="second"/>
</units>
<units name="nS_per_pF">
<unit prefix="nano" units="siemens"/>
<unit exponent="-1" prefix="pico" units="farad"/>
</units>
<component name="environment">
<variable name="time" public_interface="out" units="second"/>
<!-- initial values-->
<variable initial_value="6.50E+03" name="q_Cl_i" public_interface="out" units="fmol"/>
<variable initial_value="18377.78" name="q_Cl_o" public_interface="out" units="fmol"/>
<variable initial_value="0.01642523" name="q_Ca_i" public_interface="out" units="fmol"/>
<variable initial_value="-53.90915441282156" name="V" public_interface="out" units="mV"/>
<variable initial_value="1.41E+02" name="vol_i" units="pL"/>
<variable name="vol_o" units="pL"/>
<variable name="cCa_i" public_interface="out" units="mM"/>
<variable name="cCl_i" public_interface="out" units="mM"/>
<variable name="cCl_o" public_interface="out" units="mM"/>
<!-- From submodule-->
<variable name="v_ReAn01" public_interface="in" units="fmol_per_sec"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>q_Cl_i</ci>
</apply>
<ci>v_ReAn01</ci>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>q_Cl_o</ci>
</apply>
<apply>
<minus/>
<ci>v_ReAn01</ci>
</apply>
</apply>
<!-- concentrations in mM-->
<apply>
<eq/>
<ci>vol_o</ci>
<apply>
<divide/>
<apply>
<times/>
<ci>vol_i</ci>
<cn cellml:units="pL">5.182</cn>
</apply>
<cn cellml:units="pL">34.4</cn>
</apply>
</apply>
<apply>
<eq/>
<ci>cCa_i</ci>
<apply>
<divide/>
<ci>q_Ca_i</ci>
<ci>vol_i</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>cCl_i</ci>
<apply>
<divide/>
<ci>q_Cl_i</ci>
<ci>vol_i</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>cCl_o</ci>
<apply>
<divide/>
<ci>q_Cl_o</ci>
<ci>vol_o</ci>
</apply>
</apply>
</math>
</component>
<component name="An01_parameters">
<variable initial_value="0.00110404" name="kappa_ReAn01" public_interface="out" units="fmol_per_sec"/>
<variable initial_value="0.000235653" name="K_Cl_i" public_interface="out" units="per_fmol"/>
<variable initial_value="0.00156435" name="K_Cl_o" public_interface="out" units="per_fmol"/>
</component>
<component name="An01">
<variable name="time" public_interface="in" units="second"/>
<variable name="R" public_interface="in" units="J_per_K_per_mol"/>
<variable name="T" public_interface="in" units="kelvin"/>
<!-- parameters-->
<variable name="kappa_ReAn01" public_interface="in" units="fmol_per_sec"/>
<variable name="K_Cl_i" public_interface="in" units="per_fmol"/>
<variable name="K_Cl_o" public_interface="in" units="per_fmol"/>
<!-- Input from global environment-->
<variable name="q_Cl_i" public_interface="in" units="fmol"/>
<variable name="q_Cl_o" public_interface="in" units="fmol"/>
<!-- Constitutive parameters-->
<variable name="mu_Cl_i" units="J_per_mol"/>
<variable name="mu_Cl_o" units="J_per_mol"/>
<variable name="v_ReAn01" public_interface="out" units="fmol_per_sec"/>
<variable name="c" public_interface="in" units="dimensionless"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>mu_Cl_i</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
<apply>
<ln/>
<apply>
<times/>
<ci>K_Cl_i</ci>
<ci>q_Cl_i</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>mu_Cl_o</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
<apply>
<ln/>
<apply>
<times/>
<ci>K_Cl_o</ci>
<ci>q_Cl_o</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>v_ReAn01</ci>
<apply>
<times/>
<ci>c</ci>
<ci>kappa_ReAn01</ci>
<apply>
<minus/>
<apply>
<exp/>
<apply>
<divide/>
<ci>mu_Cl_o</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
</apply>
</apply>
</apply>
<apply>
<exp/>
<apply>
<divide/>
<ci>mu_Cl_i</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component name="An01_gating">
<!-- HH model, not in BG form-->
<variable name="css" units="dimensionless"/>
<variable name="ctc" units="msec"/>
<variable name="K1cl" units="mM"/>
<variable name="K2cl" units="dimensionless"/>
<variable initial_value="0.0003764413740731269" name="c" public_interface="out" units="dimensionless"/>
<variable name="time" public_interface="in" units="second"/>
<variable name="V" public_interface="in" units="mV"/>
<variable name="cCa_i" public_interface="in" units="mM"/>
<variable name="cCl_i" public_interface="in" units="mM"/>
<variable name="cCl_o" public_interface="in" units="mM"/>
<variable name="R" public_interface="in" units="J_per_K_per_mol"/>
<variable name="T" public_interface="in" units="kelvin"/>
<variable name="F" public_interface="in" units="C_per_mol"/>
<variable name="ECl" units="mV"/>
<variable initial_value="0.1875" name="gcl" units="nS_per_pF"/>
<variable name="vFRT" units="dimensionless"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>ECl</ci>
<apply>
<times/>
<apply>
<divide/>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
</apply>
<ci>F</ci>
</apply>
<apply>
<ln/>
<apply>
<divide/>
<ci>cCl_i</ci>
<ci>cCl_o</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>vFRT</ci>
<apply>
<divide/>
<apply>
<times/>
<ci>V</ci>
<ci>F</ci>
</apply>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>K1cl</ci>
<apply>
<times/>
<cn cellml:units="mM">0.0006</cn>
<apply>
<exp/>
<apply>
<times/>
<cn cellml:units="dimensionless">2.53</cn>
<ci>vFRT</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>K2cl</ci>
<apply>
<times/>
<cn cellml:units="dimensionless">0.1</cn>
<apply>
<exp/>
<apply>
<times/>
<apply>
<minus/>
<cn cellml:units="dimensionless">5.0</cn>
</apply>
<ci>vFRT</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>css</ci>
<apply>
<divide/>
<cn cellml:units="dimensionless">1.0</cn>
<apply>
<plus/>
<cn cellml:units="dimensionless">1.0</cn>
<apply>
<times/>
<ci>K2cl</ci>
<apply>
<plus/>
<apply>
<power/>
<apply>
<divide/>
<ci>K1cl</ci>
<ci>cCa_i</ci>
</apply>
<cn cellml:units="dimensionless">2</cn>
</apply>
<apply>
<divide/>
<ci>K1cl</ci>
<ci>cCa_i</ci>
</apply>
<cn cellml:units="dimensionless">1.0</cn>
</apply>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>ctc</ci>
<apply>
<plus/>
<apply>
<minus/>
<cn cellml:units="second">0.160</cn>
</apply>
<apply>
<divide/>
<cn cellml:units="second">0.210</cn>
<apply>
<plus/>
<cn cellml:units="dimensionless">1.0</cn>
<apply>
<exp/>
<apply>
<divide/>
<apply>
<plus/>
<ci>V</ci>
<cn cellml:units="mV">4.56</cn>
</apply>
<cn cellml:units="mV">11.62</cn>
</apply>
</apply>
</apply>
</apply>
<apply>
<divide/>
<cn cellml:units="second">0.170</cn>
<apply>
<plus/>
<cn cellml:units="dimensionless">1.0</cn>
<apply>
<exp/>
<apply>
<divide/>
<apply>
<minus/>
<apply>
<plus/>
<ci>V</ci>
<cn cellml:units="mV">25.5</cn>
</apply>
</apply>
<cn cellml:units="mV">11.62</cn>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>c</ci>
</apply>
<apply>
<divide/>
<apply>
<times/>
<cn cellml:units="dimensionless" type="e-notation">1<sep/>-3</cn>
<apply>
<minus/>
<ci>css</ci>
<ci>c</ci>
</apply>
</apply>
<ci>ctc</ci>
</apply>
</apply>
</math>
</component>
<connection>
<map_components component_1="environment" component_2="An01"/>
<map_variables variable_1="time" variable_2="time"/>
<map_variables variable_1="q_Cl_i" variable_2="q_Cl_i"/>
<map_variables variable_1="q_Cl_o" variable_2="q_Cl_o"/>
<map_variables variable_1="v_ReAn01" variable_2="v_ReAn01"/>
</connection>
<connection>
<map_components component_1="An01" component_2="An01_parameters"/>
<map_variables variable_1="kappa_ReAn01" variable_2="kappa_ReAn01"/>
<map_variables variable_1="K_Cl_i" variable_2="K_Cl_i"/>
<map_variables variable_1="K_Cl_o" variable_2="K_Cl_o"/>
</connection>
<connection>
<map_components component_1="constants" component_2="An01"/>
<map_variables variable_1="R" variable_2="R"/>
<map_variables variable_1="T" variable_2="T"/>
</connection>
<connection>
<map_components component_1="constants" component_2="An01_gating"/>
<map_variables variable_1="R" variable_2="R"/>
<map_variables variable_1="T" variable_2="T"/>
<map_variables variable_1="F" variable_2="F"/>
</connection>
<connection>
<map_components component_1="environment" component_2="An01_gating"/>
<map_variables variable_1="time" variable_2="time"/>
<map_variables variable_1="V" variable_2="V"/>
<map_variables variable_1="cCa_i" variable_2="cCa_i"/>
<map_variables variable_1="cCl_i" variable_2="cCl_i"/>
<map_variables variable_1="cCl_o" variable_2="cCl_o"/>
</connection>
<connection>
<map_components component_1="An01" component_2="An01_gating"/>
<map_variables variable_1="c" variable_2="c"/>
</connection>
</model>
