- Author:
- David Nickerson <nickerso@users.sourceforge.net>
- Date:
- 2009-07-08 07:08:43+12:00
- Desc:
- adding generated content for the current version of the IUPS tutorial description
- Permanent Source URI:
- https://models.fieldml.org/workspace/a1/rawfile/3d4e6bf98dd9bad94b65a1d1001cd4d0e779b8f4/models/common/reversal_potential.xml
<?xml version="1.0" encoding="iso-8859-1"?>
<model
name="reversal_potential"
cmeta:id="reversal_potential"
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>2004-12-27</dcterms:W3CDTF>
</dcterms:created>
<dc:publisher>
Bioengineering Institute, The University of Auckland
</dc:publisher>
</rdf:Description>
<rdf:Description rdf:about="#reversal_potential">
<dc:title>
Standard Nernst equlibrium potential calculation, with modifiers.
</dc:title>
<cmeta:comment rdf:parseType="Resource">
<rdf:value>
A CellML description of the standard Nernst potential calculation. We
describe a component for one ion and a component for two ions, with
modifiers.
</rdf:value>
<dc:creator rdf:parseType="Resource">
<vCard:FN>David Nickerson</vCard:FN>
</dc:creator>
</cmeta:comment>
</rdf:Description>
</rdf:RDF>
<import xlink:href="units.xml">
<units name="K" units_ref="K"/>
<units name="mM" units_ref="mM"/>
<units name="gas_constant" units_ref="gas_constant"/>
<units name="faradays_constant" units_ref="faradays_constant"/>
<units name="mV" units_ref="mV"/>
</import>
<component name="one_ion" cmeta:id="one_ion">
<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="#one_ion">
<cmeta:comment rdf:parseType="Resource">
<rdf:value>
Calculate the Nernst reversal potential for one ionic specie. We
expect the temperature, valence and ionic concentrations to be
defined by the model importing this component. We make the gas
and Faraday's constants available for others to use.
</rdf:value>
</cmeta:comment>
</rdf:Description>
</rdf:RDF>
<variable name="z" public_interface="in" units="dimensionless"/>
<variable name="T" public_interface="in" units="K"/>
<variable name="intracellular_concentration" public_interface="in" units="mM"/>
<variable name="extracellular_concentration" public_interface="in" units="mM"/>
<variable name="R" public_interface="out" initial_value="8314.472" units="gas_constant"/>
<variable name="F" public_interface="out" initial_value="96485.0" units="faradays_constant"/>
<variable name="reversal_potential" public_interface="out" units="mV"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply><eq/>
<ci>reversal_potential</ci>
<apply><times/>
<apply><divide/>
<apply><times/>
<ci>R</ci>
<ci>T</ci>
</apply>
<apply><times/>
<ci>z</ci>
<ci>F</ci>
</apply>
</apply>
<apply><ln/>
<apply><divide/>
<ci>extracellular_concentration</ci>
<ci>intracellular_concentration</ci>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
<component name="two_ions" cmeta:id="two_ions">
<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="#two_ions">
<cmeta:comment rdf:parseType="Resource">
<rdf:value>
Calculate the Nernst reversal potential for two ionic species,
not sure how general this is but a few different models use it.
We expect the temperature, valence, modifiers and ionic
concentrations to be defined by the model importing this
component. We make the gas and Faraday's constants available for
others to use.
</rdf:value>
</cmeta:comment>
</rdf:Description>
</rdf:RDF>
<variable name="z" public_interface="in" units="dimensionless"/>
<variable name="T" public_interface="in" units="K"/>
<variable name="intracellular_concentration_1" public_interface="in" units="mM"/>
<variable name="extracellular_concentration_1" public_interface="in" units="mM"/>
<variable name="intracellular_concentration_2" public_interface="in" units="mM"/>
<variable name="extracellular_concentration_2" public_interface="in" units="mM"/>
<variable name="multiplier_1" public_interface="in" units="dimensionless"/>
<variable name="multiplier_2" public_interface="in" units="dimensionless"/>
<variable name="R" public_interface="out" initial_value="8314.472" units="gas_constant"/>
<variable name="F" public_interface="out" initial_value="96485.0" units="faradays_constant"/>
<variable name="reversal_potential" public_interface="out" units="mV"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply><eq/>
<ci>reversal_potential</ci>
<apply><times/>
<apply><divide/>
<apply><times/>
<ci>R</ci>
<ci>T</ci>
</apply>
<apply><times/>
<ci>z</ci>
<ci>F</ci>
</apply>
</apply>
<apply><ln/>
<apply><divide/>
<apply><plus/>
<apply><times/>
<ci>multiplier_1</ci>
<ci>extracellular_concentration_1</ci>
</apply>
<apply><times/>
<ci>multiplier_2</ci>
<ci>extracellular_concentration_2</ci>
</apply>
</apply>
<apply><plus/>
<apply><times/>
<ci>multiplier_1</ci>
<ci>intracellular_concentration_1</ci>
</apply>
<apply><times/>
<ci>multiplier_2</ci>
<ci>intracellular_concentration_2</ci>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
</math>
</component>
</model>
