- 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/cellml/models/2004_tenTusscher-version-2/components/Ito-components.xml
<?xml version="1.0" encoding="iso-8859-1"?>
<model
name="ten_tusscher_model_2004_Ito_components"
cmeta:id="ten_tusscher_model_2004_Ito_components"
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>2004-12-29</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_Ito_components">
<dc:title>
All components for all versions of the transient outward current
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 all components of the transient
outward current from the ten Tusscher et al. 2004 mathematical
model of human ventricular cellular action potential. These are the
components represent the endo-, epi-, and midmyocardial
versions of the channel.
</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>transient outward current</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="ms" units_ref="ms"/>
<units name="per_ms" units_ref="per_ms"/>
<units name="mV" units_ref="mV"/>
<units name="mVsq" units_ref="mVsq"/>
<units name="per_mV" units_ref="per_mV"/>
<units name="mS_per_mmsq" units_ref="mS_per_mmsq"/>
<units name="uA_per_mmsq" units_ref="uA_per_mmsq"/>
</import>
<component name="current" cmeta:id="current">
<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="#current">
<cmeta:comment rdf:parseType="Resource">
<rdf:value>
Here we specify the current calculation equation as it
is shared between the versions of the channel.
</rdf:value>
</cmeta:comment>
</rdf:Description>
</rdf:RDF>
<variable cmeta:id="Ito" name="Ito" public_interface="out" units="uA_per_mmsq"/>
<variable name="g_to" public_interface="in" units="mS_per_mmsq"/>
<variable name="E_K" public_interface="in" units="mV"/>
<variable name="V" public_interface="in" private_interface="out" units="mV"/>
<variable name="time" public_interface="in" private_interface="out" units="ms"/>
<variable name="s" public_interface="out" private_interface="in" units="dimensionless"/>
<variable name="r" public_interface="out" private_interface="in" units="dimensionless"/>
<variable name="s_initial" public_interface="in" private_interface="out" units="dimensionless"/>
<variable name="r_initial" public_interface="in" private_interface="out" units="dimensionless"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="i_to_calculation"><eq/>
<ci>Ito</ci>
<apply><times/>
<ci>g_to</ci>
<ci>r</ci>
<ci>s</ci>
<apply><minus/>
<ci>V</ci>
<ci>E_K</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="r_gate" cmeta:id="r_gate">
<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="#r_gate">
<cmeta:comment rdf:parseType="Resource">
<rdf:value>
The activation gate for the transient outward current in the
ten Tusscher model is common between cell types.
</rdf:value>
</cmeta:comment>
</rdf:Description>
</rdf:RDF>
<variable name="r" initial_value="r_initial" public_interface="out" units="dimensionless"/>
<variable name="r_initial" public_interface="in" units="dimensionless"/>
<variable name="r_infinity" units="dimensionless"/>
<variable name="tau_r" units="ms"/>
<variable name="V" public_interface="in" units="mV"/>
<variable name="time" public_interface="in" units="ms"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="r_diff_eq"><eq/>
<apply><diff/>
<bvar><ci>time</ci></bvar>
<ci>r</ci>
</apply>
<apply><divide/>
<apply><minus/>
<ci>r_infinity</ci>
<ci>r</ci>
</apply>
<ci>tau_r</ci>
</apply>
</apply>
<apply id="r_infinity_calculation"><eq/>
<ci>r_infinity</ci>
<apply><divide/>
<cn cellml:units="dimensionless">1.0</cn>
<apply><plus/>
<cn cellml:units="dimensionless">1.0</cn>
<apply><exp/>
<apply><divide/>
<apply><minus/>
<cn cellml:units="mV">20.0</cn>
<ci>V</ci>
</apply>
<cn cellml:units="mV">6.0</cn>
</apply>
</apply>
</apply>
</apply>
</apply>
<apply id="tau_r_calculation"><eq/>
<ci>tau_r</ci>
<apply><plus/>
<apply><times/>
<cn cellml:units="ms">9.5</cn>
<apply><exp/>
<apply><divide/>
<apply><minus/>
<apply><power/>
<apply><plus/>
<ci>V</ci>
<cn cellml:units="mV">40.0</cn>
</apply>
<cn cellml:units="dimensionless">2.0</cn>
</apply>
</apply>
<cn cellml:units="mVsq">1800.0</cn>
</apply>
</apply>
</apply>
<cn cellml:units="ms">0.8</cn>
</apply>
</apply>
</math>
</component>
<component name="epi_M_s_gate" cmeta:id="epi_M_s_gate">
<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="#epi_M_s_gate">
<cmeta:comment rdf:parseType="Resource">
<rdf:value>
The epicardial and M cell version of the inactivation gating
kinetics of the transient outward current.
</rdf:value>
</cmeta:comment>
</rdf:Description>
</rdf:RDF>
<variable name="s" initial_value="s_initial" public_interface="out" units="dimensionless"/>
<variable name="s_initial" public_interface="in" units="dimensionless"/>
<variable name="s_infinity" units="dimensionless"/>
<variable name="tau_s" units="ms"/>
<variable name="V" public_interface="in" units="mV"/>
<variable name="time" public_interface="in" units="ms"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="s_diff_eq"><eq/>
<apply><diff/>
<bvar><ci>time</ci></bvar>
<ci>s</ci>
</apply>
<apply><divide/>
<apply><minus/>
<ci>s_infinity</ci>
<ci>s</ci>
</apply>
<ci>tau_s</ci>
</apply>
</apply>
<apply id="s_infinity_calculation"><eq/>
<ci>s_infinity</ci>
<apply><divide/>
<cn cellml:units="dimensionless">1.0</cn>
<apply><plus/>
<cn cellml:units="dimensionless">1.0</cn>
<apply><exp/>
<apply><divide/>
<apply><plus/>
<cn cellml:units="mV">20.0</cn>
<ci>V</ci>
</apply>
<cn cellml:units="mV">5.0</cn>
</apply>
</apply>
</apply>
</apply>
</apply>
<apply id="tau_s_calculation"><eq/>
<ci>tau_s</ci>
<apply><plus/>
<apply><times/>
<cn cellml:units="ms">85.0</cn>
<apply><exp/>
<apply><divide/>
<apply><minus/>
<apply><power/>
<apply><plus/>
<ci>V</ci>
<cn cellml:units="mV">45.0</cn>
</apply>
<cn cellml:units="dimensionless">2.0</cn>
</apply>
</apply>
<cn cellml:units="mVsq">320.0</cn>
</apply>
</apply>
</apply>
<apply><divide/>
<cn cellml:units="ms">5.0</cn>
<apply><plus/>
<cn cellml:units="dimensionless">1.0</cn>
<apply><exp/>
<apply><divide/>
<apply><minus/>
<ci>V</ci>
<cn cellml:units="mV">20.0</cn>
</apply>
<cn cellml:units="mV">5.0</cn>
</apply>
</apply>
</apply>
</apply>
<cn cellml:units="ms">3.0</cn>
</apply>
</apply>
</math>
</component>
<component name="endo_s_gate" cmeta:id="endo_s_gate">
<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="#endo_s_gate">
<cmeta:comment rdf:parseType="Resource">
<rdf:value>
The endocardial version of the inactivation gating
kinetics of the transient outward current.
</rdf:value>
</cmeta:comment>
</rdf:Description>
</rdf:RDF>
<variable name="s" initial_value="s_initial" public_interface="out" units="dimensionless"/>
<variable name="s_initial" public_interface="in" units="dimensionless"/>
<variable name="s_infinity" units="dimensionless"/>
<variable name="tau_s" units="ms"/>
<variable name="V" public_interface="in" units="mV"/>
<variable name="time" public_interface="in" units="ms"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="s_diff_eq"><eq/>
<apply><diff/>
<bvar><ci>time</ci></bvar>
<ci>s</ci>
</apply>
<apply><divide/>
<apply><minus/>
<ci>s_infinity</ci>
<ci>s</ci>
</apply>
<ci>tau_s</ci>
</apply>
</apply>
<apply id="s_infinity_calculation"><eq/>
<ci>s_infinity</ci>
<apply><divide/>
<cn cellml:units="dimensionless">1.0</cn>
<apply><plus/>
<cn cellml:units="dimensionless">1.0</cn>
<apply><exp/>
<apply><divide/>
<apply><plus/>
<cn cellml:units="mV">28.0</cn>
<ci>V</ci>
</apply>
<cn cellml:units="mV">5.0</cn>
</apply>
</apply>
</apply>
</apply>
</apply>
<apply id="tau_s_calculation"><eq/>
<ci>tau_s</ci>
<apply><plus/>
<apply><times/>
<cn cellml:units="ms">1000.0</cn>
<apply><exp/>
<apply><divide/>
<apply><minus/>
<apply><power/>
<apply><plus/>
<ci>V</ci>
<cn cellml:units="mV">67.0</cn>
</apply>
<cn cellml:units="dimensionless">2.0</cn>
</apply>
</apply>
<cn cellml:units="mVsq">1000.0</cn>
</apply>
</apply>
</apply>
<cn cellml:units="ms">8.0</cn>
</apply>
</apply>
</math>
</component>
</model>
