- Author:
- David Nickerson <nickerso@users.sourceforge.net>
- Date:
- 2009-07-16 02:00:03+12:00
- Desc:
- the starting point for the HH tutorial example
- Permanent Source URI:
- https://models.fieldml.org/workspace/a1/rawfile/f6a8f90307388eb4b040ee3566b84d88b59247f7/models/2004_tenTusscher/components/Cai.xml
<?xml version="1.0" encoding="iso-8859-1"?>
<model
name="ten_tusscher_model_2004_Cai"
cmeta:id="ten_tusscher_model_2004_Cai"
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>d.nickerson@auckland.ac.nz</rdf:value>
<rdf:type rdf:resource="http://imc.org/vCard/3.0#internet"/>
</vCard:EMAIL>
<vCard:ORG rdf:parseType="Resource">
<vCard:Orgname>The University of Auckland</vCard:Orgname>
<vCard:Orgunit>Bioengineering Institute</vCard:Orgunit>
</vCard:ORG>
</dc:creator>
<dcterms:created rdf:parseType="Resource">
<dcterms:W3CDTF>2004-12-30</dcterms:W3CDTF>
</dcterms:created>
<dc:publisher>
Bioengineering Institute, The University of Auckland
</dc:publisher>
</rdf:Description>
<rdf:Description rdf:about="#ten_tusscher_model_2004_Cai">
<dc:title>
The intracellular calcium dynamics from the ten Tusscher et al.
2004 human ventricular AP model.
</dc:title>
<cmeta:comment rdf:parseType="Resource">
<rdf:value>
This is the CellML description of the intracellular calcium
dynamics from the ten Tusscher et al. 2004 mathematical
model of human ventricular cellular action potential.
</rdf:value>
<dc:creator rdf:parseType="Resource">
<vCard:FN>David Nickerson</vCard:FN>
</dc:creator>
</cmeta:comment>
<cmeta:species>Homo sapiens</cmeta:species>
<cmeta:bio_entity>Ventricular Myocyte</cmeta:bio_entity>
<bqs:reference rdf:parseType="Resource">
<dc:subject rdf:parseType="Resource">
<bqs:subject_type>keyword</bqs:subject_type>
<rdf:value>
<rdf:Bag>
<rdf:li>Ventricular Myocyte</rdf:li>
<rdf:li>cardiac</rdf:li>
<rdf:li>electrophysiology</rdf:li>
<rdf:li>intacellular calcium</rdf:li>
</rdf:Bag>
</rdf:value>
</dc:subject>
</bqs:reference>
<bqs:reference rdf:parseType="Resource">
<bqs:Pubmed_id>14656705</bqs:Pubmed_id>
<bqs:JournalArticle rdf:parseType="Resource">
<dc:creator>
<rdf:Seq>
<rdf:li rdf:parseType="Resource">
<bqs:Person rdf:parseType="Resource">
<vCard:N rdf:parseType="Resource">
<vCard:Family>ten Tusscher</vCard:Family>
<vCard:Given>K</vCard:Given>
<vCard:Other>H</vCard:Other>
<vCard:Other>W</vCard:Other>
<vCard:Other>J</vCard:Other>
</vCard:N>
</bqs:Person>
</rdf:li>
<rdf:li rdf:parseType="Resource">
<bqs:Person rdf:parseType="Resource">
<vCard:N rdf:parseType="Resource">
<vCard:Family>Noble</vCard:Family>
<vCard:Given>D</vCard:Given>
</vCard:N>
</bqs:Person>
</rdf:li>
<rdf:li rdf:parseType="Resource">
<bqs:Person rdf:parseType="Resource">
<vCard:N rdf:parseType="Resource">
<vCard:Family>Noble</vCard:Family>
<vCard:Given>P</vCard:Given>
<vCard:Other>J</vCard:Other>
</vCard:N>
</bqs:Person>
</rdf:li>
<rdf:li rdf:parseType="Resource">
<bqs:Person rdf:parseType="Resource">
<vCard:N rdf:parseType="Resource">
<vCard:Family>Panfilov</vCard:Family>
<vCard:Given>A</vCard:Given>
<vCard:Other>V</vCard:Other>
</vCard:N>
</bqs:Person>
</rdf:li>
</rdf:Seq>
</dc:creator>
<dc:title>
A model for human ventricular tissue
</dc:title>
<dcterms:issued rdf:parseType="Resource">
<dcterms:W3CDTF>2004-04</dcterms:W3CDTF>
</dcterms:issued>
<bqs:Journal rdf:parseType="Resource">
<dc:title>American Journal of Physiology</dc:title>
</bqs:Journal>
<bqs:volume>286</bqs:volume>
<bqs:first_page>H1573</bqs:first_page>
<bqs:last_page>H1589</bqs:last_page>
</bqs:JournalArticle>
</bqs:reference>
</rdf:Description>
</rdf:RDF>
<import xlink:href="../../common/units.xml">
<units name="mM" units_ref="mM"/>
<units name="mM_per_ms" units_ref="mM_per_ms"/>
<units name="ms" units_ref="ms"/>
<units name="mV" units_ref="mV"/>
<units name="umcu" units_ref="umcu"/>
<units name="per_mm" units_ref="per_mm"/>
<units name="pA_per_pF" units_ref="pA_per_pF"/>
<units name="uF_per_cmsq" units_ref="uF_per_cmsq"/>
<units name="faradays_constant" units_ref="faradays_constant"/>
</import>
<component name="calcium_dynamics" cmeta:id="calcium_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="#calcium_dynamics">
<cmeta:comment rdf:parseType="Resource">
<rdf:value>
The intracellular calcium dynamics.
</rdf:value>
</cmeta:comment>
</rdf:Description>
</rdf:RDF>
<!--
<variable name="Cai_dummy" initial_value="0.2e-3" public_interface="out" private_interface="out" units="mM"/>
<variable name="CaSR_dummy" initial_value="0.2" public_interface="out" private_interface="out" units="mM"/>
-->
<variable name="Cai" public_interface="out" units="mM"/>
<variable name="CaSR" public_interface="out" units="mM"/>
<variable name="Cai_total" public_interface="out" initial_value="Cai_total_initial" units="mM"/>
<variable name="CaSR_total" public_interface="out" initial_value="CaSR_total_initial" units="mM"/>
<variable name="Cai_buf" public_interface="out" units="mM"/>
<variable name="CaSR_buf" public_interface="out" units="mM"/>
<variable name="Cai_total_initial" public_interface="in" units="mM"/>
<variable name="CaSR_total_initial" public_interface="in" units="mM"/>
<variable name="Bufc" public_interface="in" units="mM"/>
<variable name="Kbufc" public_interface="in" units="mM"/>
<variable name="Bufsr" public_interface="in" units="mM"/>
<variable name="Kbufsr" public_interface="in" units="mM"/>
<variable name="vSR" public_interface="in" units="umcu"/>
<variable name="vC" public_interface="in" units="umcu"/>
<variable name="Am" public_interface="in" units="per_mm"/>
<variable name="F" public_interface="in" units="faradays_constant"/>
<variable name="ICaL" public_interface="in" units="pA_per_pF"/>
<variable name="IbCa" public_interface="in" units="pA_per_pF"/>
<variable name="IpCa" public_interface="in" units="pA_per_pF"/>
<variable name="INaCa" public_interface="in" units="pA_per_pF"/>
<variable name="Jleak" public_interface="in" units="mM_per_ms"/>
<variable name="Jup" public_interface="in" units="mM_per_ms"/>
<variable name="Jrel" public_interface="in" units="mM_per_ms"/>
<variable name="time" public_interface="in" units="ms"/>
<variable name="Capacitance" public_interface="in" units="uF_per_cmsq"/>
<units name="mMsq">
<unit units="mM" exponent="2"/>
</units>
<variable name="aCai" units="dimensionless"/>
<variable name="bCai" units="mM"/>
<variable name="cCai" units="mMsq"/>
<variable name="aCaSR" units="dimensionless"/>
<variable name="bCaSR" units="mM"/>
<variable name="cCaSR" units="mMsq"/>
<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="#Cai">
<cmeta:comment rdf:parseType="Resource">
<rdf:value>
The differential equation defining the total intracellular
calcium concentration - Cai_total = Cai + Cai_buf.
</rdf:value>
</cmeta:comment>
</rdf:Description>
</rdf:RDF>
<math xmlns="http://www.w3.org/1998/Math/MathML" cmeta:id="Cai">
<apply><eq/>
<ci>aCai</ci>
<cn cellml:units="dimensionless">-1.0</cn>
</apply>
<apply><eq/>
<ci>bCai</ci>
<apply><plus/>
<ci>Cai_total</ci>
<ci>Kbufc</ci>
<ci>Bufc</ci>
</apply>
</apply>
<apply><eq/>
<ci>cCai</ci>
<apply><minus/>
<apply><times/>
<ci>Bufc</ci>
<ci>Cai_total</ci>
</apply>
</apply>
</apply>
<apply><eq/>
<ci>Cai_buf</ci>
<apply><divide/>
<apply><minus/>
<apply><root/>
<apply><minus/>
<apply><power/>
<ci>bCai</ci>
<cn cellml:units="dimensionless">2.0</cn>
</apply>
<apply><times/>
<cn cellml:units="dimensionless">4.0</cn>
<ci>aCai</ci>
<ci>cCai</ci>
</apply>
</apply>
</apply>
<ci>bCai</ci>
</apply>
<apply><times/>
<cn cellml:units="dimensionless">2.0</cn>
<ci>aCai</ci>
</apply>
</apply>
</apply>
<apply><eq/>
<ci>Cai</ci>
<apply><minus/>
<ci>Cai_total</ci>
<ci>Cai_buf</ci>
</apply>
</apply>
<apply id="Cai_total_diff"><eq />
<apply><diff/>
<bvar><ci>time</ci></bvar>
<ci> Cai_total </ci>
</apply>
<apply><minus/>
<apply><plus/>
<ci>Jleak</ci>
<ci>Jrel</ci>
</apply>
<apply><plus/>
<ci>Jup</ci>
<apply><times/>
<ci>Capacitance</ci>
<apply><divide/>
<apply><minus/>
<apply><plus/>
<ci>ICaL</ci>
<ci>IbCa</ci>
<ci>IpCa</ci>
</apply>
<apply><times/>
<cn cellml:units="dimensionless">2.0</cn>
<ci>INaCa</ci>
</apply>
</apply>
<apply><times/>
<cn cellml:units="dimensionless">2.0</cn>
<ci>vC</ci>
<ci>F</ci>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
</math>
<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="#CaSR">
<cmeta:comment rdf:parseType="Resource">
<rdf:value>
The differential equation defining the total SR
calcium concentration - CaSR_total = CaSR + CaSR_buf.
</rdf:value>
</cmeta:comment>
</rdf:Description>
</rdf:RDF>
<math xmlns="http://www.w3.org/1998/Math/MathML" cmeta:id="CaSR">
<apply><eq/>
<ci>aCaSR</ci>
<cn cellml:units="dimensionless">-1.0</cn>
</apply>
<apply><eq/>
<ci>bCaSR</ci>
<apply><plus/>
<ci>CaSR_total</ci>
<ci>Kbufsr</ci>
<ci>Bufsr</ci>
</apply>
</apply>
<apply><eq/>
<ci>cCaSR</ci>
<apply><minus/>
<apply><times/>
<ci>Bufsr</ci>
<ci>CaSR_total</ci>
</apply>
</apply>
</apply>
<apply><eq/>
<ci>CaSR_buf</ci>
<apply><divide/>
<apply><minus/>
<apply><root/>
<apply><minus/>
<apply><power/>
<ci>bCaSR</ci>
<cn cellml:units="dimensionless">2.0</cn>
</apply>
<apply><times/>
<cn cellml:units="dimensionless">4.0</cn>
<ci>aCaSR</ci>
<ci>cCaSR</ci>
</apply>
</apply>
</apply>
<ci>bCaSR</ci>
</apply>
<apply><times/>
<cn cellml:units="dimensionless">2.0</cn>
<ci>aCaSR</ci>
</apply>
</apply>
</apply>
<apply><eq/>
<ci>CaSR</ci>
<apply><minus/>
<ci>CaSR_total</ci>
<ci>CaSR_buf</ci>
</apply>
</apply>
<apply id="CaSR_total_diff"><eq />
<apply><diff/>
<bvar><ci>time</ci></bvar>
<ci> CaSR_total </ci>
</apply>
<apply><times/>
<apply><divide/>
<ci>vC</ci>
<ci>vSR</ci>
</apply>
<apply><minus/>
<ci>Jup</ci>
<apply><plus/>
<ci>Jleak</ci>
<ci>Jrel</ci>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
</model>
