Location: semantic-annotation @ ba7d84022e93 / SEDML / weinstein_1995_7B.cellml
- Author:
- Dewan Sarwar <dsar941@UoA.auckland.ac.nz>
- Date:
- 2020-02-04 15:29:11+13:00
- Desc:
- updated annotations for the protocol5B
- Permanent Source URI:
- https://models.cellml.org/workspace/267/rawfile/ba7d84022e93980a45d131c4d474a5bf2846425a/SEDML/weinstein_1995_7B.cellml
<?xml version='1.0' encoding='UTF-8'?>
<!--
This CellML file was generated on 23/03/2009 at 10:26:53 at a.m. using:
COR (0.9.31.1197)
Copyright 2002-2009 Dr Alan Garny
http://COR.physiol.ox.ac.uk/ - COR@physiol.ox.ac.uk
CellML 1.0 was used to generate this model
http://www.CellML.org/
-->
<model cmeta:id="Proximal_Tubule_NHE3" name="Proximal_Tubule_NHE3" xmlns="http://www.cellml.org/cellml/1.0#" xmlns:cellml="http://www.cellml.org/cellml/1.0#" xmlns:cmeta="http://www.cellml.org/metadata/1.0#">
<units name="mmol">
<unit prefix="milli" units="mole"/>
</units>
<units name="umol">
<unit prefix="micro" units="mole"/>
</units>
<units name="nmol">
<unit prefix="nano" units="mole"/>
</units>
<units name="mM">
<unit prefix="milli" units="mole"/>
<unit exponent="-1" units="litre"/>
</units>
<units name="M">
<unit units="mole"/>
<unit exponent="-1" units="litre"/>
</units>
<units name="cm">
<unit prefix="centi" units="metre"/>
</units>
<units name="cm2">
<unit exponent="2" prefix="centi" units="metre"/>
</units>
<units name="mM_per_s">
<unit units="mM"/>
<unit exponent="-1" units="second"/>
</units>
<units name="per_s">
<unit exponent="-1" units="second"/>
</units>
<units name="mmol_per_s_per_cm2">
<unit units="mmol"/>
<unit exponent="-1" units="second"/>
<unit exponent="-1" units="cm2"/>
</units>
<units name="nmol_per_s_per_cm2">
<unit units="nmol"/>
<unit exponent="-1" units="second"/>
<unit exponent="-1" units="cm2"/>
</units>
<component name="environment">
<variable name="time" public_interface="out" units="second"/>
</component>
<component name="Concentrations">
<variable initial_value="140" name="C_ext_Na" public_interface="out" units="mM"/>
<variable initial_value="5.4954e-5" name="C_ext_H" public_interface="out" units="mM"/>
<variable initial_value="0.4" name="C_ext_NH4" public_interface="out" units="mM"/>
<variable initial_value="20" name="C_int_Na" public_interface="out" units="mM"/>
<variable name="C_int_H" public_interface="out" units="mM"/>
<variable initial_value="0.4" name="C_int_NH4" public_interface="out" units="mM"/>
<variable name="time" public_interface="in" units="second"/>
<variable initial_value="6" name="pH_int" units="dimensionless"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>pH_int</ci>
</apply>
<cn cellml:units="per_s">5</cn>
</apply>
<apply>
<eq/>
<ci>C_int_H</ci>
<apply>
<times/>
<cn cellml:units="mM" type="e-notation">1<sep/>3</cn>
<apply>
<power/>
<cn cellml:units="dimensionless">10</cn>
<apply>
<minus/>
<ci>pH_int</ci>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component name="NHE3_Parameters">
<variable initial_value="1.6e-3" name="XTxP0_NHE3_Na" public_interface="out" units="nmol_per_s_per_cm2"/>
<variable initial_value="0.48e-3" name="XTxP0_NHE3_H" public_interface="out" units="nmol_per_s_per_cm2"/>
<variable initial_value="1.6e-3" name="XTxP0_NHE3_NH4" public_interface="out" units="nmol_per_s_per_cm2"/>
<variable initial_value="30" name="K_NHE3_Na" public_interface="out" units="mM"/>
<variable initial_value="72e-6" name="K_NHE3_H" public_interface="out" units="mM"/>
<variable initial_value="0.027e3" name="K_NHE3_NH4" public_interface="out" units="mM"/>
</component>
<component name="NHE3">
<variable name="C_ext_Na" public_interface="in" units="mM"/>
<variable name="C_ext_H" public_interface="in" units="mM"/>
<variable name="C_ext_NH4" public_interface="in" units="mM"/>
<variable name="C_int_Na" public_interface="in" units="mM"/>
<variable name="C_int_H" public_interface="in" units="mM"/>
<variable name="C_int_NH4" public_interface="in" units="mM"/>
<variable name="XTxP0_NHE3_Na" public_interface="in" units="nmol_per_s_per_cm2"/>
<variable name="XTxP0_NHE3_H" public_interface="in" units="nmol_per_s_per_cm2"/>
<variable name="XTxP0_NHE3_NH4" public_interface="in" units="nmol_per_s_per_cm2"/>
<variable name="XTxP_NHE3_Na" units="nmol_per_s_per_cm2"/>
<variable name="XTxP_NHE3_H" units="nmol_per_s_per_cm2"/>
<variable name="XTxP_NHE3_NH4" units="nmol_per_s_per_cm2"/>
<variable name="K_NHE3_Na" public_interface="in" units="mM"/>
<variable name="K_NHE3_H" public_interface="in" units="mM"/>
<variable name="K_NHE3_NH4" public_interface="in" units="mM"/>
<variable name="alpha_ext_Na" units="dimensionless"/>
<variable name="beta_ext_H" units="dimensionless"/>
<variable name="gamma_ext_NH4" units="dimensionless"/>
<variable name="alpha_int_Na" units="dimensionless"/>
<variable name="beta_int_H" units="dimensionless"/>
<variable name="gamma_int_NH4" units="dimensionless"/>
<variable name="sum_NHE3" units="nmol_per_s_per_cm2"/>
<variable name="J_NHE3_Na" public_interface="out" units="nmol_per_s_per_cm2"/>
<variable name="J_NHE3_H" public_interface="out" units="nmol_per_s_per_cm2"/>
<variable name="J_NHE3_NH4" public_interface="out" units="nmol_per_s_per_cm2"/>
<variable name="J_NHE3_Na_Max" units="nmol_per_s_per_cm2"/>
<variable name="plot" units="dimensionless"/>
<variable name="J_NHE3_Na2" public_interface="out" units="nmol_per_s_per_cm2"/>
<variable name="J_NHE3_H2" public_interface="out" units="nmol_per_s_per_cm2"/>
<variable name="J_NHE3_NH42" public_interface="out" units="nmol_per_s_per_cm2"/>
<variable name="sum0_NHE3" units="nmol_per_s_per_cm2"/>
<variable name="plot2" units="dimensionless"/>
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<divide/>
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<ci>K_NHE3_Na</ci>
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</apply>
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<eq/>
<ci>beta_ext_H</ci>
<apply>
<divide/>
<ci>C_ext_H</ci>
<ci>K_NHE3_H</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>gamma_ext_NH4</ci>
<apply>
<divide/>
<ci>C_ext_NH4</ci>
<ci>K_NHE3_NH4</ci>
</apply>
</apply>
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<eq/>
<ci>alpha_int_Na</ci>
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<divide/>
<ci>C_int_Na</ci>
<ci>K_NHE3_Na</ci>
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</apply>
<apply>
<eq/>
<ci>beta_int_H</ci>
<apply>
<divide/>
<ci>C_int_H</ci>
<ci>K_NHE3_H</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>gamma_int_NH4</ci>
<apply>
<divide/>
<ci>C_int_NH4</ci>
<ci>K_NHE3_NH4</ci>
</apply>
</apply>
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<eq/>
<ci>XTxP_NHE3_Na</ci>
<apply>
<divide/>
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<times/>
<ci>XTxP0_NHE3_Na</ci>
<cn cellml:units="dimensionless">2</cn>
<ci>C_int_H</ci>
</apply>
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<plus/>
<ci>C_int_H</ci>
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</apply>
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</apply>
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<divide/>
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<times/>
<ci>XTxP0_NHE3_H</ci>
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<ci>C_int_H</ci>
</apply>
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<plus/>
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<divide/>
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<times/>
<ci>XTxP0_NHE3_NH4</ci>
<cn cellml:units="dimensionless">2</cn>
<ci>C_int_H</ci>
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<plus/>
<ci>C_int_H</ci>
<cn cellml:units="mM" type="e-notation">1<sep/>-3</cn>
</apply>
</apply>
</apply>
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<eq/>
<ci>sum_NHE3</ci>
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<plus/>
<apply>
<times/>
<apply>
<plus/>
<cn cellml:units="dimensionless">1</cn>
<ci>alpha_ext_Na</ci>
<ci>beta_ext_H</ci>
<ci>gamma_ext_NH4</ci>
</apply>
<apply>
<plus/>
<apply>
<times/>
<ci>XTxP_NHE3_Na</ci>
<ci>alpha_int_Na</ci>
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<apply>
<times/>
<ci>XTxP_NHE3_H</ci>
<ci>beta_int_H</ci>
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<apply>
<times/>
<ci>XTxP_NHE3_NH4</ci>
<ci>gamma_int_NH4</ci>
</apply>
</apply>
</apply>
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<times/>
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<plus/>
<cn cellml:units="dimensionless">1</cn>
<ci>alpha_int_Na</ci>
<ci>beta_int_H</ci>
<ci>gamma_int_NH4</ci>
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<plus/>
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<times/>
<ci>XTxP_NHE3_Na</ci>
<ci>alpha_ext_Na</ci>
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<times/>
<ci>XTxP_NHE3_H</ci>
<ci>beta_ext_H</ci>
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<apply>
<times/>
<ci>XTxP_NHE3_NH4</ci>
<ci>gamma_ext_NH4</ci>
</apply>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>J_NHE3_Na</ci>
<apply>
<plus/>
<apply>
<times/>
<apply>
<divide/>
<apply>
<times/>
<ci>XTxP_NHE3_Na</ci>
<ci>XTxP_NHE3_H</ci>
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<ci>sum_NHE3</ci>
</apply>
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<minus/>
<apply>
<times/>
<ci>alpha_ext_Na</ci>
<ci>beta_int_H</ci>
</apply>
<apply>
<times/>
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<ci>beta_ext_H</ci>
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</apply>
<apply>
<times/>
<apply>
<divide/>
<apply>
<times/>
<ci>XTxP_NHE3_Na</ci>
<ci>XTxP_NHE3_NH4</ci>
</apply>
<ci>sum_NHE3</ci>
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<apply>
<minus/>
<apply>
<times/>
<ci>alpha_ext_Na</ci>
<ci>gamma_int_NH4</ci>
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<apply>
<times/>
<ci>alpha_int_Na</ci>
<ci>gamma_ext_NH4</ci>
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</apply>
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<eq/>
<ci>J_NHE3_H</ci>
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<plus/>
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<times/>
<apply>
<divide/>
<apply>
<times/>
<ci>XTxP_NHE3_Na</ci>
<ci>XTxP_NHE3_H</ci>
</apply>
<ci>sum_NHE3</ci>
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<minus/>
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<times/>
<ci>alpha_int_Na</ci>
<ci>beta_ext_H</ci>
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<times/>
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<ci>beta_int_H</ci>
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<apply>
<times/>
<apply>
<divide/>
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<times/>
<ci>XTxP_NHE3_H</ci>
<ci>XTxP_NHE3_NH4</ci>
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<ci>sum_NHE3</ci>
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<apply>
<minus/>
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<times/>
<ci>beta_ext_H</ci>
<ci>gamma_int_NH4</ci>
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<apply>
<times/>
<ci>beta_int_H</ci>
<ci>gamma_ext_NH4</ci>
</apply>
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</apply>
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<eq/>
<ci>J_NHE3_NH4</ci>
<apply>
<plus/>
<apply>
<times/>
<apply>
<divide/>
<apply>
<times/>
<ci>XTxP_NHE3_Na</ci>
<ci>XTxP_NHE3_NH4</ci>
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<ci>sum_NHE3</ci>
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<minus/>
<apply>
<times/>
<ci>alpha_int_Na</ci>
<ci>gamma_ext_NH4</ci>
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<apply>
<times/>
<ci>alpha_ext_Na</ci>
<ci>gamma_int_NH4</ci>
</apply>
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<times/>
<apply>
<divide/>
<apply>
<times/>
<ci>XTxP_NHE3_H</ci>
<ci>XTxP_NHE3_NH4</ci>
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<ci>sum_NHE3</ci>
</apply>
<apply>
<minus/>
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<times/>
<ci>gamma_ext_NH4</ci>
<ci>beta_int_H</ci>
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<apply>
<times/>
<ci>beta_ext_H</ci>
<ci>gamma_int_NH4</ci>
</apply>
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</apply>
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<apply>
<eq/>
<ci>J_NHE3_Na_Max</ci>
<apply>
<divide/>
<apply>
<times/>
<ci>XTxP0_NHE3_Na</ci>
<ci>XTxP0_NHE3_H</ci>
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<plus/>
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<ci>XTxP0_NHE3_H</ci>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>plot</ci>
<apply>
<divide/>
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<ci>J_NHE3_Na_Max</ci>
</apply>
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<apply>
<eq/>
<ci>sum0_NHE3</ci>
<apply>
<plus/>
<apply>
<times/>
<apply>
<plus/>
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<ci>alpha_ext_Na</ci>
<ci>beta_ext_H</ci>
<ci>gamma_ext_NH4</ci>
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<plus/>
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<times/>
<ci>XTxP0_NHE3_Na</ci>
<ci>alpha_int_Na</ci>
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<times/>
<ci>XTxP0_NHE3_H</ci>
<ci>beta_int_H</ci>
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<apply>
<times/>
<ci>XTxP0_NHE3_NH4</ci>
<ci>gamma_int_NH4</ci>
</apply>
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<apply>
<times/>
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<plus/>
<cn cellml:units="dimensionless">1</cn>
<ci>alpha_int_Na</ci>
<ci>beta_int_H</ci>
<ci>gamma_int_NH4</ci>
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<times/>
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<ci>alpha_ext_Na</ci>
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<ci>XTxP0_NHE3_H</ci>
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<times/>
<ci>XTxP0_NHE3_NH4</ci>
<ci>gamma_ext_NH4</ci>
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</apply>
</apply>
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<ci>J_NHE3_Na2</ci>
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<plus/>
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<times/>
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<divide/>
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<times/>
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<ci>XTxP0_NHE3_H</ci>
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<ci>sum0_NHE3</ci>
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<ci>beta_int_H</ci>
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<ci>beta_ext_H</ci>
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<divide/>
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<ci>XTxP0_NHE3_NH4</ci>
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<ci>sum_NHE3</ci>
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<apply>
<minus/>
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<times/>
<ci>alpha_ext_Na</ci>
<ci>gamma_int_NH4</ci>
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<apply>
<times/>
<ci>alpha_int_Na</ci>
<ci>gamma_ext_NH4</ci>
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<ci>J_NHE3_H2</ci>
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<plus/>
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<times/>
<apply>
<divide/>
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<ci>XTxP0_NHE3_Na</ci>
<ci>XTxP0_NHE3_H</ci>
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<ci>sum0_NHE3</ci>
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<apply>
<times/>
<ci>alpha_int_Na</ci>
<ci>beta_ext_H</ci>
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<ci>alpha_ext_Na</ci>
<ci>beta_int_H</ci>
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<divide/>
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<times/>
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<ci>XTxP0_NHE3_NH4</ci>
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<ci>sum_NHE3</ci>
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<minus/>
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<times/>
<ci>beta_ext_H</ci>
<ci>gamma_int_NH4</ci>
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<apply>
<times/>
<ci>beta_int_H</ci>
<ci>gamma_ext_NH4</ci>
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</apply>
</apply>
</apply>
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<eq/>
<ci>J_NHE3_NH42</ci>
<apply>
<plus/>
<apply>
<times/>
<apply>
<divide/>
<apply>
<times/>
<ci>XTxP0_NHE3_Na</ci>
<ci>XTxP0_NHE3_NH4</ci>
</apply>
<ci>sum0_NHE3</ci>
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<apply>
<minus/>
<apply>
<times/>
<ci>alpha_int_Na</ci>
<ci>gamma_ext_NH4</ci>
</apply>
<apply>
<times/>
<ci>alpha_ext_Na</ci>
<ci>gamma_int_NH4</ci>
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<times/>
<apply>
<divide/>
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<times/>
<ci>XTxP0_NHE3_H</ci>
<ci>XTxP0_NHE3_NH4</ci>
</apply>
<ci>sum_NHE3</ci>
</apply>
<apply>
<minus/>
<apply>
<times/>
<ci>gamma_ext_NH4</ci>
<ci>beta_int_H</ci>
</apply>
<apply>
<times/>
<ci>beta_ext_H</ci>
<ci>gamma_int_NH4</ci>
</apply>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>plot2</ci>
<apply>
<divide/>
<ci>J_NHE3_Na2</ci>
<ci>J_NHE3_Na_Max</ci>
</apply>
</apply>
</math>
</component>
<connection>
<map_components component_1="NHE3_Parameters" component_2="NHE3"/>
<map_variables variable_1="K_NHE3_Na" variable_2="K_NHE3_Na"/>
<map_variables variable_1="K_NHE3_H" variable_2="K_NHE3_H"/>
<map_variables variable_1="K_NHE3_NH4" variable_2="K_NHE3_NH4"/>
<map_variables variable_1="XTxP0_NHE3_Na" variable_2="XTxP0_NHE3_Na"/>
<map_variables variable_1="XTxP0_NHE3_H" variable_2="XTxP0_NHE3_H"/>
<map_variables variable_1="XTxP0_NHE3_NH4" variable_2="XTxP0_NHE3_NH4"/>
</connection>
<connection>
<map_components component_1="Concentrations" component_2="NHE3"/>
<map_variables variable_1="C_ext_Na" variable_2="C_ext_Na"/>
<map_variables variable_1="C_ext_H" variable_2="C_ext_H"/>
<map_variables variable_1="C_ext_NH4" variable_2="C_ext_NH4"/>
<map_variables variable_1="C_int_Na" variable_2="C_int_Na"/>
<map_variables variable_1="C_int_H" variable_2="C_int_H"/>
<map_variables variable_1="C_int_NH4" variable_2="C_int_NH4"/>
</connection>
<connection>
<map_components component_1="Concentrations" component_2="environment"/>
<map_variables variable_1="time" variable_2="time"/>
</connection>
</model>