Location: Practical application of CellML 1.1: The integration of new mechanisms into a human ventricular myocyte model @ d6328d18c94e / TNNP-extended / components / Ki.xml

Author:

David Nickerson <nickerso@users.sourceforge.net>

Date:

2013-05-04 07:40:04+12:00

Desc:

adding initial TODO list to keep track of what I need to do to get things working with more recent tools than my original CellMLSimulator that I used in this paper

Permanent Source URI:

https://staging.physiomeproject.org/w/andre/nickerson-2008/rawfile/d6328d18c94e9dad70f4d0e4b250e89429773b62/TNNP-extended/components/Ki.xml

<?xml version="1.0" encoding="iso-8859-1"?>

<model
    name="ten_tusscher_model_2004_Ki"
    cmeta:id="ten_tusscher_model_2004_Ki"
    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#"
    xmlns:xlink="http://www.w3.org/1999/xlink">
  <rdf:RDF
      xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
      xmlns:cmeta="http://www.cellml.org/metadata/1.0#"
      xmlns:bqs="http://www.cellml.org/bqs/1.0#"
      xmlns:dc="http://purl.org/dc/elements/1.1/"
      xmlns:dcterms="http://purl.org/dc/terms/"
      xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">
    <rdf:Description rdf:about="">
      <dc:creator rdf:parseType="Resource">
        <vCard:N rdf:parseType="Resource">
          <vCard:Family>Nickerson</vCard:Family>
          <vCard:Given>David</vCard:Given>
        </vCard:N>
        <vCard:EMAIL rdf:parseType="Resource">
          <rdf:value>david.nickerson@nus.edu.sg</rdf:value>
          <rdf:type rdf:resource="http://imc.org/vCard/3.0#internet"/>
        </vCard:EMAIL>
        <vCard:ORG rdf:parseType="Resource">
          <vCard:Orgname>National University of Singapore</vCard:Orgname>
          <vCard:Orgunit>Division of Bioengineering</vCard:Orgunit>
        </vCard:ORG>
      </dc:creator>
      <dcterms:created rdf:parseType="Resource">
        <dcterms:W3CDTF>2006-10-16</dcterms:W3CDTF>
      </dcterms:created>
      <dc:publisher>
        Division of Bioengineering, National University of Singapore
      </dc:publisher>
    </rdf:Description>
    <rdf:Description rdf:about="#ten_tusscher_model_2004_Ki">
      <dc:title>
        The intracellular potassium dynamics from the ten Tusscher et al. 
        2004 human ventricular AP model. Including the K_ATP channel.
      </dc:title>
    </rdf:Description>
  </rdf:RDF>
  
  <import xlink:href="../../../../cellml/models/common/units.xml">
    <units name="ms" units_ref="ms"/>
    <units name="mV" units_ref="mV"/>
    <units name="mM" units_ref="mM"/>
    <units name="uA_per_mmsq" units_ref="uA_per_mmsq"/>
    <units name="mM_per_ms" units_ref="mM_per_ms"/>
    <units name="per_mm" units_ref="per_mm"/>
    <units name="uF_per_mmsq" units_ref="uF_per_mmsq"/>
    <units name="mmcu" units_ref="mmcu"/>
    <units name="mS_per_mmsq" units_ref="mS_per_mmsq"/>
    <units name="K" units_ref="K"/>
    <units name="per_ms" units_ref="per_ms"/>
    <units name="faradays_constant" units_ref="faradays_constant"/>
  </import>
  
  <component name="potassium_dynamics" cmeta:id="potassium_dynamics">
    <rdf:RDF
      xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
      xmlns:cmeta="http://www.cellml.org/metadata/1.0#">
      <rdf:Description rdf:about="#potassium_dynamics">
        <cmeta:comment rdf:parseType="Resource">
          <rdf:value>
            The intracellular potassium dynamics.
          </rdf:value>
        </cmeta:comment>
      </rdf:Description>
    </rdf:RDF>

    <variable cmeta:id="Ki" name="Ki" initial_value="Ki_initial" public_interface="out" units="mM"/>
    
    <variable name="Ki_initial" public_interface="in" units="mM"/>
    <variable name="vC" public_interface="in" units="dimensionless"/>
    <variable name="Am" public_interface="in" units="per_mm"/>
    <variable name="F" public_interface="in" units="faradays_constant"/>
    <variable name="IK1" public_interface="in" units="uA_per_mmsq"/>
    <variable name="Ito" public_interface="in" units="uA_per_mmsq"/>
    <variable name="IKr" public_interface="in" units="uA_per_mmsq"/>
    <variable name="IKs" public_interface="in" units="uA_per_mmsq"/>
    <variable name="INaK" public_interface="in" units="uA_per_mmsq"/>
    <variable name="IpK" public_interface="in" units="uA_per_mmsq"/>
    <variable name="I_K_ATP" public_interface="in" units="uA_per_mmsq"/>
    <variable name="Istim" public_interface="in" units="uA_per_mmsq"/>
    <variable name="time" public_interface="in" units="ms"/>
    <variable name="Capacitance" public_interface="in" units="uF_per_mmsq"/>
    
    <math xmlns="http://www.w3.org/1998/Math/MathML">
      <apply id="Ki_total_diff"><eq />
        <apply><diff/>
          <bvar><ci>time</ci></bvar>
          <ci> Ki </ci>
        </apply>
        <apply><minus/>
          <apply><times/>
            <apply><divide/>
              <ci>Am</ci>
              <apply><times />
                <ci> vC </ci>
                <ci> F </ci>
              </apply>
            </apply>
            <apply><minus/>
              <apply><plus />
                <ci> IK1 </ci>
                <ci> Ito </ci>
                <ci> IKr </ci>
                <ci> IKs </ci>
                <ci> IpK </ci>
                <ci> I_K_ATP </ci>
              </apply>
              <apply><plus/>
                <apply><times />
                  <ci> INaK </ci>
                  <cn cellml:units="dimensionless"> 2.0 </cn>
                </apply>
                <ci>Istim</ci>
              </apply>
            </apply>
          </apply>
        </apply>
      </apply>
    </math>
  </component>
    
</model>