- 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://models.cellml.org/w/andre/nickerson-2008/rawfile/d6328d18c94e9dad70f4d0e4b250e89429773b62/TNNP-extended/components/Jrel-modifications.xml
<?xml version="1.0" encoding="iso-8859-1"?>
<model
name="TNNP_extended_Jrel_modifications"
cmeta:id="TNNP_extended_Jrel_modifications"
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>2007-06-22</dcterms:W3CDTF>
</dcterms:created>
<dc:publisher>
Division of Bioengineering, National University of Singapore
</dc:publisher>
</rdf:Description>
<rdf:Description rdf:about="#TNNP_extended_Jrel_modifications">
<dc:title>
Various modifications for Jrel due to ischemic effects.
</dc:title>
</rdf:Description>
</rdf:RDF>
<import xlink:href="../../../../cellml/models/common/units.xml">
<units name="mV" units_ref="mV"/>
<units name="mM" units_ref="mM"/>
<units name="mM_per_ms" units_ref="mM_per_ms"/>
</import>
<component name="pHi" cmeta:id="pHi">
<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="#pHi">
<dc:title>
pHi dependence of Jrel based on data from Xu et al (1996).
</dc:title>
<cmeta:species>canine</cmeta:species>
<cmeta:bio_entity>Cardiac muscle</cmeta:bio_entity>
<bqs:reference rdf:parseType="Resource">
<bqs:Pubmed_id>8943948</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>Xu</vCard:Family>
<vCard:Given>L</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>Mann</vCard:Family>
<vCard:Given>G</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>Meissner</vCard:Family>
<vCard:Given>G</vCard:Given>
</vCard:N>
</bqs:Person>
</rdf:li>
</rdf:Seq>
</dc:creator>
<dc:title>
Regulation of cardiac Ca2+ release channel (ryanodine receptor) by Ca2+, H+, Mg2+, and adenine nucleotides under normal and simulated ischemic conditions.
</dc:title>
<dcterms:issued rdf:parseType="Resource">
<dcterms:W3CDTF>1996</dcterms:W3CDTF>
</dcterms:issued>
<bqs:Journal rdf:parseType="Resource">
<dc:title>Circ. Res.</dc:title>
</bqs:Journal>
<bqs:volume>79</bqs:volume>
<bqs:issue>6</bqs:issue>
<bqs:first_page>1100</bqs:first_page>
<bqs:last_page>1109</bqs:last_page>
</bqs:JournalArticle>
</bqs:reference>
</rdf:Description>
</rdf:RDF>
<variable name="open_probability" public_interface="out" private_interface="out" units="dimensionless"/>
<variable name="H_i" public_interface="in" private_interface="out" units="mM"/>
<variable name="k_half" public_interface="in" private_interface="out" units="mM"/>
<variable name="H" public_interface="in" private_interface="out" units="dimensionless"/>
<variable name="k" public_interface="in" private_interface="out" units="dimensionless"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply><eq/>
<ci>open_probability</ci>
<apply><divide/>
<ci>k</ci>
<apply><plus/>
<cn cellml:units="dimensionless">1.0</cn>
<apply><power/>
<apply><divide/>
<ci>H_i</ci>
<ci>k_half</ci>
</apply>
<ci>H</ci>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component name="Jrel" cmeta:id="Jrel">
<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="#Jrel">
<dc:title>
Modified Jrel current taking intracellular pH into account.
</dc:title>
</rdf:Description>
</rdf:RDF>
<variable name="pHi" public_interface="out" private_interface="in" units="dimensionless"/>
<variable cmeta:id="Jrel" name="Jrel" public_interface="out" units="mM_per_ms"/>
<variable cmeta:id="Jrel_original" name="Jrel_original" public_interface="in" units="mM_per_ms"/>
<variable name="H_i" public_interface="in" private_interface="out" units="mM"/>
<variable name="k_half_pHi" public_interface="in" private_interface="out" units="mM"/>
<variable name="H_pHi" public_interface="in" private_interface="out" units="dimensionless"/>
<variable name="k_pHi" public_interface="in" private_interface="out" units="dimensionless"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="Jrel_eq"><eq/>
<ci>Jrel</ci>
<apply><times/>
<ci>pHi</ci>
<ci>Jrel_original</ci>
</apply>
</apply>
</math>
</component>
<group>
<relationship_ref relationship="encapsulation"/>
<component_ref component="Jrel">
<component_ref component="pHi"/>
</component_ref>
</group>
<connection>
<map_components component_1="Jrel" component_2="pHi"/>
<map_variables variable_1="pHi" variable_2="open_probability"/>
<map_variables variable_1="H_i" variable_2="H_i"/>
<map_variables variable_1="k_half_pHi" variable_2="k_half"/>
<map_variables variable_1="H_pHi" variable_2="H"/>
<map_variables variable_1="k_pHi" variable_2="k"/>
</connection>
</model>