- Author:
- Shelley Fong <sfon036@UoA.auckland.ac.nz>
- Date:
- 2022-05-23 16:08:37+12:00
- Desc:
- Init
- Permanent Source URI:
- https://models.physiomeproject.org/workspace/884/rawfile/2ea38166333321d67a97018ff595156fbfc50d37/BG_pH_B2.cellml
<?xml version='1.0' encoding='UTF-8'?>
<model name="individual_pH_B2" 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_BG.cellml">
<units name="mM" units_ref="mM"/>
<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_sec"/>
<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_per_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_BG.cellml">
<component component_ref="constants" name="constants"/>
</import>
<component name="environment">
<variable name="time" public_interface="out" units="second"/>
<!-- initial values-->
<variable initial_value="2.69019E-06" name="q_H_i" public_interface="out" units="fmol"/>
<variable initial_value="1117.2" name="q_B2" public_interface="out" units="fmol"/>
<variable initial_value="1e-18" name="q_HB2" public_interface="out" units="fmol"/>
<!-- From submodule-->
<variable name="v_Re_B2" 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_H_i</ci>
</apply>
<apply>
<minus/>
<ci>v_Re_B2</ci>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>q_B2</ci>
</apply>
<apply>
<minus/>
<ci>v_Re_B2</ci>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>q_HB2</ci>
</apply>
<ci>v_Re_B2</ci>
</apply>
</math>
<variable name="pH_i" units="dimensionless"/>
<variable name="cH_i" units="mM"/>
<variable initial_value="38" name="w_i" units="pL"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>cH_i</ci>
<apply>
<divide/>
<ci>q_H_i</ci>
<ci>w_i</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>pH_i</ci>
<apply>
<minus/>
<apply>
<log/>
<ci>cH_i</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="pH_B2_parameters">
<variable initial_value="3.7325" name="kappa_Re_B2" public_interface="out" units="fmol_per_sec"/>
<variable initial_value="13.6212" name="K_H_i" public_interface="out" units="per_fmol"/>
<variable initial_value="13.6212" name="K_B2" public_interface="out" units="per_fmol"/>
<variable initial_value="0.000189765" name="K_HB2" public_interface="out" units="per_fmol"/>
</component>
<component name="pH_B2">
<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_Re_B2" public_interface="in" units="fmol_per_sec"/>
<variable name="K_H_i" public_interface="in" units="per_fmol"/>
<variable name="K_B2" public_interface="in" units="per_fmol"/>
<variable name="K_HB2" public_interface="in" units="per_fmol"/>
<!-- Input from global environment-->
<variable name="q_H_i" public_interface="in" units="fmol"/>
<variable name="q_B2" public_interface="in" units="fmol"/>
<variable name="q_HB2" public_interface="in" units="fmol"/>
<!-- Constitutive parameters-->
<variable name="mu_H_i" units="J_per_mol"/>
<variable name="mu_B2" units="J_per_mol"/>
<variable name="mu_HB2" units="J_per_mol"/>
<variable name="v_Re_B2" public_interface="out" units="fmol_per_sec"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>mu_H_i</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
<apply>
<ln/>
<apply>
<times/>
<ci>K_H_i</ci>
<ci>q_H_i</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>mu_B2</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
<apply>
<ln/>
<apply>
<times/>
<ci>K_B2</ci>
<ci>q_B2</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>mu_HB2</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
<apply>
<ln/>
<apply>
<times/>
<ci>K_HB2</ci>
<ci>q_HB2</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>v_Re_B2</ci>
<apply>
<times/>
<ci>kappa_Re_B2</ci>
<apply>
<minus/>
<apply>
<exp/>
<apply>
<divide/>
<apply>
<plus/>
<ci>mu_H_i</ci>
<ci>mu_B2</ci>
</apply>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
</apply>
</apply>
</apply>
<apply>
<exp/>
<apply>
<divide/>
<ci>mu_HB2</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<connection>
<map_components component_1="environment" component_2="pH_B2"/>
<map_variables variable_1="time" variable_2="time"/>
<map_variables variable_1="q_H_i" variable_2="q_H_i"/>
<map_variables variable_1="q_B2" variable_2="q_B2"/>
<map_variables variable_1="q_HB2" variable_2="q_HB2"/>
<map_variables variable_1="v_Re_B2" variable_2="v_Re_B2"/>
</connection>
<connection>
<map_components component_1="pH_B2" component_2="pH_B2_parameters"/>
<map_variables variable_1="kappa_Re_B2" variable_2="kappa_Re_B2"/>
<map_variables variable_1="K_H_i" variable_2="K_H_i"/>
<map_variables variable_1="K_B2" variable_2="K_B2"/>
<map_variables variable_1="K_HB2" variable_2="K_HB2"/>
</connection>
<connection>
<map_components component_1="constants" component_2="pH_B2"/>
<map_variables variable_1="R" variable_2="R"/>
<map_variables variable_1="T" variable_2="T"/>
</connection>
</model>
