- Author:
- Shelley Fong <sfon036@UoA.auckland.ac.nz>
- Date:
- 2022-07-13 15:51:00+12:00
- Desc:
- Moving channel initial moles to main environment from channel component
- Permanent Source URI:
- https://models.fieldml.org/workspace/87f/rawfile/9663cef135e064889113d2338e877c6a0f4244e0/BG_NBC.cellml
<?xml version='1.0' encoding='UTF-8'?>
<model name="individual_NBC" 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="fF" units_ref="fF"/>
<units name="fC" units_ref="fC"/>
<units name="per_second" units_ref="per_second"/>
<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="pL" units_ref="pL"/>
</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="481.46" name="q_Na_i" public_interface="out" units="fmol"/>
<variable initial_value="725.48" name="q_Na_o" public_interface="out" units="fmol"/>
<variable initial_value="509.2" name="q_HCO3_i" public_interface="out" units="fmol"/>
<variable initial_value="122.295" name="q_HCO3_o" public_interface="out" units="fmol"/>
<variable initial_value="1.666e-7" name="q_S1_NBC" public_interface="out" units="fmol"/>
<variable initial_value="1.666e-7" name="q_S2_NBC" public_interface="out" units="fmol"/>
<variable initial_value="1.666e-7" name="q_S3_NBC" public_interface="out" units="fmol"/>
<variable initial_value="1.666e-7" name="q_S4_NBC" public_interface="out" units="fmol"/>
<variable initial_value="1.666e-7" name="q_S5_NBC" public_interface="out" units="fmol"/>
<variable initial_value="1.666e-7" name="q_S6_NBC" public_interface="out" units="fmol"/>
<!-- From submodule-->
<variable name="v_R61_NBC" public_interface="in" units="fmol_per_sec"/>
<variable name="v_R12_NBC" public_interface="in" units="fmol_per_sec"/>
<variable name="v_R23_NBC" public_interface="in" units="fmol_per_sec"/>
<variable name="v_R34_NBC" public_interface="in" units="fmol_per_sec"/>
<variable name="v_R45_NBC" public_interface="in" units="fmol_per_sec"/>
<variable name="v_R56_NBC" 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_Na_i</ci>
</apply>
<ci>v_R56_NBC</ci>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>q_Na_o</ci>
</apply>
<apply>
<minus/>
<ci>v_R12_NBC</ci>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>q_HCO3_i</ci>
</apply>
<ci>v_R45_NBC</ci>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>q_HCO3_o</ci>
</apply>
<apply>
<minus/>
<ci>v_R23_NBC</ci>
</apply>
</apply>
</math>
</component>
<component name="NBC_parameters">
<variable initial_value="11.2463" name="kappa_R61_NBC" public_interface="out" units="fmol_per_sec"/>
<variable initial_value="57085.3" name="kappa_R12_NBC" public_interface="out" units="fmol_per_sec"/>
<variable initial_value="22295.6" name="kappa_R23_NBC" public_interface="out" units="fmol_per_sec"/>
<variable initial_value="23.7134" name="kappa_R34_NBC" public_interface="out" units="fmol_per_sec"/>
<variable initial_value="0.000390516" name="kappa_R45_NBC" public_interface="out" units="fmol_per_sec"/>
<variable initial_value="1011" name="kappa_R56_NBC" public_interface="out" units="fmol_per_sec"/>
<variable initial_value="0.293614" name="K_Na_i" public_interface="out" units="per_fmol"/>
<variable initial_value="0.00678889" name="K_Na_o" public_interface="out" units="per_fmol"/>
<variable initial_value="13.9895" name="K_HCO3_i" public_interface="out" units="per_fmol"/>
<variable initial_value="0.000101456" name="K_HCO3_o" public_interface="out" units="per_fmol"/>
<variable initial_value="0.131038" name="K_S1_NBC" public_interface="out" units="per_fmol"/>
<variable initial_value="22.4502" name="K_S2_NBC" public_interface="out" units="per_fmol"/>
<variable initial_value="9.46612e-05" name="K_S3_NBC" public_interface="out" units="per_fmol"/>
<variable initial_value="5404.45" name="K_S4_NBC" public_interface="out" units="per_fmol"/>
<variable initial_value="1267.63" name="K_S5_NBC" public_interface="out" units="per_fmol"/>
<variable initial_value="0.0233294" name="K_S6_NBC" public_interface="out" units="per_fmol"/>
</component>
<component name="NBC">
<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_R61_NBC" public_interface="in" units="fmol_per_sec"/>
<variable name="kappa_R12_NBC" public_interface="in" units="fmol_per_sec"/>
<variable name="kappa_R23_NBC" public_interface="in" units="fmol_per_sec"/>
<variable name="kappa_R34_NBC" public_interface="in" units="fmol_per_sec"/>
<variable name="kappa_R45_NBC" public_interface="in" units="fmol_per_sec"/>
<variable name="kappa_R56_NBC" public_interface="in" units="fmol_per_sec"/>
<variable name="K_Na_i" public_interface="in" units="per_fmol"/>
<variable name="K_Na_o" public_interface="in" units="per_fmol"/>
<variable name="K_HCO3_i" public_interface="in" units="per_fmol"/>
<variable name="K_HCO3_o" public_interface="in" units="per_fmol"/>
<variable name="K_S1_NBC" public_interface="in" units="per_fmol"/>
<variable name="K_S2_NBC" public_interface="in" units="per_fmol"/>
<variable name="K_S3_NBC" public_interface="in" units="per_fmol"/>
<variable name="K_S4_NBC" public_interface="in" units="per_fmol"/>
<variable name="K_S5_NBC" public_interface="in" units="per_fmol"/>
<variable name="K_S6_NBC" public_interface="in" units="per_fmol"/>
<!-- Input from global environment-->
<variable name="q_Na_i" public_interface="in" units="fmol"/>
<variable name="q_Na_o" public_interface="in" units="fmol"/>
<variable name="q_HCO3_i" public_interface="in" units="fmol"/>
<variable name="q_HCO3_o" public_interface="in" units="fmol"/>
<variable name="q_S1_NBC" public_interface="in" units="fmol"/>
<variable name="q_S2_NBC" public_interface="in" units="fmol"/>
<variable name="q_S3_NBC" public_interface="in" units="fmol"/>
<variable name="q_S4_NBC" public_interface="in" units="fmol"/>
<variable name="q_S5_NBC" public_interface="in" units="fmol"/>
<variable name="q_S6_NBC" public_interface="in" units="fmol"/>
<!-- Constitutive parameters-->
<variable name="mu_Na_i" units="J_per_mol"/>
<variable name="mu_Na_o" units="J_per_mol"/>
<variable name="mu_HCO3_i" units="J_per_mol"/>
<variable name="mu_HCO3_o" units="J_per_mol"/>
<variable name="mu_S1_NBC" units="J_per_mol"/>
<variable name="mu_S2_NBC" units="J_per_mol"/>
<variable name="mu_S3_NBC" units="J_per_mol"/>
<variable name="mu_S4_NBC" units="J_per_mol"/>
<variable name="mu_S5_NBC" units="J_per_mol"/>
<variable name="mu_S6_NBC" units="J_per_mol"/>
<variable name="v_R61_NBC" public_interface="out" units="fmol_per_sec"/>
<variable name="v_R12_NBC" public_interface="out" units="fmol_per_sec"/>
<variable name="v_R23_NBC" public_interface="out" units="fmol_per_sec"/>
<variable name="v_R34_NBC" public_interface="out" units="fmol_per_sec"/>
<variable name="v_R45_NBC" public_interface="out" units="fmol_per_sec"/>
<variable name="v_R56_NBC" public_interface="out" units="fmol_per_sec"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>mu_Na_i</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
<apply>
<ln/>
<apply>
<times/>
<ci>K_Na_i</ci>
<ci>q_Na_i</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>mu_Na_o</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
<apply>
<ln/>
<apply>
<times/>
<ci>K_Na_o</ci>
<ci>q_Na_o</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>mu_HCO3_i</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
<apply>
<ln/>
<apply>
<times/>
<ci>K_HCO3_i</ci>
<ci>q_HCO3_i</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>mu_HCO3_o</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
<apply>
<ln/>
<apply>
<times/>
<ci>K_HCO3_o</ci>
<ci>q_HCO3_o</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>mu_S1_NBC</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
<apply>
<ln/>
<apply>
<times/>
<ci>K_S1_NBC</ci>
<ci>q_S1_NBC</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>mu_S2_NBC</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
<apply>
<ln/>
<apply>
<times/>
<ci>K_S2_NBC</ci>
<ci>q_S2_NBC</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>mu_S3_NBC</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
<apply>
<ln/>
<apply>
<times/>
<ci>K_S3_NBC</ci>
<ci>q_S3_NBC</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>mu_S4_NBC</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
<apply>
<ln/>
<apply>
<times/>
<ci>K_S4_NBC</ci>
<ci>q_S4_NBC</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>mu_S5_NBC</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
<apply>
<ln/>
<apply>
<times/>
<ci>K_S5_NBC</ci>
<ci>q_S5_NBC</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>mu_S6_NBC</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
<apply>
<ln/>
<apply>
<times/>
<ci>K_S6_NBC</ci>
<ci>q_S6_NBC</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>v_R61_NBC</ci>
<apply>
<times/>
<ci>kappa_R61_NBC</ci>
<apply>
<minus/>
<apply>
<exp/>
<apply>
<divide/>
<ci>mu_S6_NBC</ci>
<apply>
<times/>
<ci>R</ci>
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</apply>
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<exp/>
<apply>
<divide/>
<ci>mu_S1_NBC</ci>
<apply>
<times/>
<ci>R</ci>
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<apply>
<eq/>
<ci>v_R12_NBC</ci>
<apply>
<times/>
<ci>kappa_R12_NBC</ci>
<apply>
<minus/>
<apply>
<exp/>
<apply>
<divide/>
<apply>
<plus/>
<ci>mu_Na_o</ci>
<ci>mu_S1_NBC</ci>
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<times/>
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<apply>
<eq/>
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<apply>
<times/>
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<apply>
<minus/>
<apply>
<exp/>
<apply>
<divide/>
<apply>
<plus/>
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<ci>mu_S2_NBC</ci>
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<times/>
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</apply>
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<exp/>
<apply>
<divide/>
<ci>mu_S3_NBC</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
</apply>
</apply>
</apply>
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<eq/>
<ci>v_R34_NBC</ci>
<apply>
<times/>
<ci>kappa_R34_NBC</ci>
<apply>
<minus/>
<apply>
<exp/>
<apply>
<divide/>
<ci>mu_S3_NBC</ci>
<apply>
<times/>
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<ci>T</ci>
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<apply>
<divide/>
<ci>mu_S4_NBC</ci>
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<apply>
<eq/>
<ci>v_R45_NBC</ci>
<apply>
<times/>
<ci>kappa_R45_NBC</ci>
<apply>
<minus/>
<apply>
<exp/>
<apply>
<divide/>
<ci>mu_S4_NBC</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
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<apply>
<exp/>
<apply>
<divide/>
<apply>
<plus/>
<ci>mu_S5_NBC</ci>
<ci>mu_HCO3_i</ci>
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<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
</apply>
</apply>
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<apply>
<eq/>
<ci>v_R56_NBC</ci>
<apply>
<times/>
<ci>kappa_R56_NBC</ci>
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<minus/>
<apply>
<exp/>
<apply>
<divide/>
<ci>mu_S5_NBC</ci>
<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
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<apply>
<exp/>
<apply>
<divide/>
<apply>
<plus/>
<ci>mu_S6_NBC</ci>
<ci>mu_Na_i</ci>
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<apply>
<times/>
<ci>R</ci>
<ci>T</ci>
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<eq/>
<apply>
<diff/>
<bvar>
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<ci>q_S1_NBC</ci>
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<minus/>
<ci>v_R61_NBC</ci>
<ci>v_R12_NBC</ci>
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<apply>
<eq/>
<apply>
<diff/>
<bvar>
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<ci>q_S2_NBC</ci>
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<minus/>
<ci>v_R12_NBC</ci>
<ci>v_R23_NBC</ci>
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<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
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<ci>q_S3_NBC</ci>
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<apply>
<minus/>
<ci>v_R23_NBC</ci>
<ci>v_R34_NBC</ci>
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<apply>
<eq/>
<apply>
<diff/>
<bvar>
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<ci>q_S4_NBC</ci>
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<apply>
<minus/>
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<apply>
<eq/>
<apply>
<diff/>
<bvar>
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<apply>
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<ci>v_R61_NBC</ci>
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</apply>
</math>
<!-- check conservation -->
<variable name="B_tot" units="fmol"/>
<variable name="S_tot" units="fmol"/>
<variable name="Na_tot" units="fmol"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>B_tot</ci>
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<plus/>
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<ci>q_S3_NBC</ci>
<ci>q_S4_NBC</ci>
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<plus/>
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<ci>q_S6_NBC</ci>
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<ci>q_S1_NBC</ci>
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</math>
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