- Author:
- Soroush Safaei <ssaf006@aucklanduni.ac.nz>
- Date:
- 2016-04-13 17:09:57+12:00
- Desc:
- add protein module tag
- Permanent Source URI:
- https://models.physiomeproject.org/workspace/290/rawfile/bfe3af8b5a3e6c13b0091449d23b8bd04c5c645e/Weinstein_2000_AE1.cellml
<?xml version='1.0'?>
<!-- This CellML file was generated from:
Weinstein, Alan M. "A mathematical model of the outer medullary collecting duct of the rat." American Journal of Physiology-Renal Physiology 279.1 (2000): F24-F45.-->
<model cmeta:id="Weinstein_2000_AE1" name="Weinstein_2000_AE1" 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:bqs="http://www.cellml.org/bqs/1.0#" xmlns:dc="http://purl.org/dc/elements/1.1/">
<rdf:Description rdf:about="">
<dc:title>A kinetic model of Cl-/HCO3- exchanger (AE1)</dc:title>
</rdf:Description>
<rdf:Description rdf:about="#Weinstein_2000_AE1">
<bqs:reference rdf:parseType="Resource">
<dc:subject rdf:parseType="Resource">
<bqs:subject_type>keyword</bqs:subject_type>
<rdf:value>
<rdf:Bag>
<rdf:li>protein module</rdf:li>
</rdf:Bag>
</rdf:value>
</dc:subject>
</bqs:reference>
</rdf:Description>
</rdf:RDF>
<import xlink:href="Units/Units.cellml">
<units name="mM" units_ref="mM"/>
<units name="mM_per_s" units_ref="mM_per_s"/>
<units name="per_s" units_ref="per_s"/>
</import>
<component name="AE1">
<variable name="HCO3_int" public_interface="in" units="mM"/>
<variable name="HCO3_ext" public_interface="in" units="mM"/>
<variable name="Cl_int" public_interface="in" units="mM"/>
<variable name="Cl_ext" public_interface="in" units="mM"/>
<variable name="J_AE1_HCO3" public_interface="out" units="mM_per_s"/>
<variable name="J_AE1_Cl" public_interface="out" units="mM_per_s"/>
<variable name="J_HCO3_influx" public_interface="out" units="mM_per_s"/>
<variable name="J_Cl_influx" public_interface="out" units="mM_per_s"/>
<variable initial_value="198" name="K_HCO3_ext" units="mM"/>
<variable initial_value="198" name="K_HCO3_int" units="mM"/>
<variable initial_value="50" name="K_Cl_ext" units="mM"/>
<variable initial_value="50" name="K_Cl_int" units="mM"/>
<variable initial_value="1247" name="P_HCO3_ext" units="per_s"/>
<variable initial_value="135" name="P_HCO3_int" units="per_s"/>
<variable initial_value="562" name="P_Cl_ext" units="per_s"/>
<variable initial_value="61" name="P_Cl_int" units="per_s"/>
<variable name="beta_ext" units="dimensionless"/>
<variable name="beta_int" units="dimensionless"/>
<variable name="gamma_ext" units="dimensionless"/>
<variable name="gamma_int" units="dimensionless"/>
<variable name="sigma" units="per_s"/>
<variable initial_value="1" name="x_Tmax" units="mM"/>
<variable initial_value="172" name="K_I" units="mM"/>
<variable name="x_T" units="mM"/>
<variable name="x_ext" units="mM"/>
<variable name="x_int" units="mM"/>
<variable name="Jo_bm" units="mM_per_s"/>
<variable name="Ji_bm" units="mM_per_s"/>
<variable name="Js_bm" units="mM_per_s"/>
<variable name="Jo_cm" units="mM_per_s"/>
<variable name="Ji_cm" units="mM_per_s"/>
<variable name="Js_cm" units="mM_per_s"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>x_T</ci>
<apply>
<divide/>
<ci>x_Tmax</ci>
<apply>
<plus/>
<cn cellml:units="dimensionless">1</cn>
<apply>
<divide/>
<ci>HCO3_int</ci>
<ci>K_I</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>beta_ext</ci>
<apply>
<divide/>
<ci>HCO3_ext</ci>
<ci>K_HCO3_ext</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>beta_int</ci>
<apply>
<divide/>
<ci>HCO3_int</ci>
<ci>K_HCO3_int</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>gamma_ext</ci>
<apply>
<divide/>
<ci>Cl_ext</ci>
<ci>K_Cl_ext</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>gamma_int</ci>
<apply>
<divide/>
<ci>Cl_int</ci>
<ci>K_Cl_int</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>sigma</ci>
<apply>
<plus/>
<apply>
<times/>
<apply>
<plus/>
<cn cellml:units="dimensionless">1</cn>
<ci>beta_ext</ci>
<ci>gamma_ext</ci>
</apply>
<apply>
<plus/>
<apply>
<times/>
<ci>P_HCO3_int</ci>
<ci>beta_int</ci>
</apply>
<apply>
<times/>
<ci>P_Cl_int</ci>
<ci>gamma_int</ci>
</apply>
</apply>
</apply>
<apply>
<times/>
<apply>
<plus/>
<cn cellml:units="dimensionless">1</cn>
<ci>beta_int</ci>
<ci>gamma_int</ci>
</apply>
<apply>
<plus/>
<apply>
<times/>
<ci>P_HCO3_ext</ci>
<ci>beta_ext</ci>
</apply>
<apply>
<times/>
<ci>P_Cl_ext</ci>
<ci>gamma_ext</ci>
</apply>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>J_AE1_HCO3</ci>
<apply>
<times/>
<apply>
<divide/>
<ci>x_T</ci>
<ci>sigma</ci>
</apply>
<apply>
<minus/>
<apply>
<times/>
<ci>P_HCO3_int</ci>
<ci>beta_int</ci>
<ci>P_Cl_ext</ci>
<ci>gamma_ext</ci>
</apply>
<apply>
<times/>
<ci>P_HCO3_ext</ci>
<ci>beta_ext</ci>
<ci>P_Cl_int</ci>
<ci>gamma_int</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>J_AE1_Cl</ci>
<apply>
<minus/>
<ci>J_AE1_HCO3</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>x_ext</ci>
<apply>
<divide/>
<apply>
<times/>
<ci>x_T</ci>
<apply>
<plus/>
<apply>
<times/>
<ci>P_HCO3_int</ci>
<ci>beta_int</ci>
</apply>
<apply>
<times/>
<ci>P_Cl_int</ci>
<ci>gamma_int</ci>
</apply>
</apply>
</apply>
<ci>sigma</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>x_int</ci>
<apply>
<divide/>
<apply>
<times/>
<ci>x_T</ci>
<apply>
<plus/>
<apply>
<times/>
<ci>P_HCO3_ext</ci>
<ci>beta_ext</ci>
</apply>
<apply>
<times/>
<ci>P_Cl_ext</ci>
<ci>gamma_ext</ci>
</apply>
</apply>
</apply>
<ci>sigma</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>J_HCO3_influx</ci>
<apply>
<times/>
<apply>
<divide/>
<ci>x_T</ci>
<ci>sigma</ci>
</apply>
<ci>P_HCO3_ext</ci>
<ci>beta_ext</ci>
<apply>
<plus/>
<apply>
<times/>
<ci>P_HCO3_int</ci>
<ci>beta_int</ci>
</apply>
<apply>
<times/>
<ci>P_Cl_int</ci>
<ci>gamma_int</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>J_Cl_influx</ci>
<apply>
<times/>
<apply>
<divide/>
<ci>x_T</ci>
<ci>sigma</ci>
</apply>
<ci>P_Cl_ext</ci>
<ci>gamma_ext</ci>
<apply>
<plus/>
<apply>
<times/>
<ci>P_HCO3_int</ci>
<ci>beta_int</ci>
</apply>
<apply>
<times/>
<ci>P_Cl_int</ci>
<ci>gamma_int</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>Jo_bm</ci>
<apply>
<power/>
<apply>
<times/>
<apply>
<divide/>
<cn cellml:units="dimensionless">1</cn>
<ci>x_T</ci>
</apply>
<apply>
<plus/>
<apply>
<divide/>
<cn cellml:units="dimensionless">1</cn>
<ci>P_HCO3_ext</ci>
</apply>
<apply>
<divide/>
<cn cellml:units="dimensionless">1</cn>
<ci>P_HCO3_int</ci>
</apply>
<apply>
<divide/>
<ci>K_HCO3_int</ci>
<apply>
<times/>
<ci>P_HCO3_int</ci>
<ci>HCO3_int</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<minus/>
<cn cellml:units="dimensionless">1</cn>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>Ji_bm</ci>
<apply>
<power/>
<apply>
<times/>
<apply>
<divide/>
<cn cellml:units="dimensionless">1</cn>
<ci>x_T</ci>
</apply>
<apply>
<plus/>
<apply>
<divide/>
<cn cellml:units="dimensionless">1</cn>
<ci>P_HCO3_ext</ci>
</apply>
<apply>
<divide/>
<cn cellml:units="dimensionless">1</cn>
<ci>P_HCO3_int</ci>
</apply>
<apply>
<divide/>
<ci>K_HCO3_ext</ci>
<apply>
<times/>
<ci>P_HCO3_ext</ci>
<ci>HCO3_ext</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<minus/>
<cn cellml:units="dimensionless">1</cn>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>Js_bm</ci>
<apply>
<power/>
<apply>
<times/>
<apply>
<divide/>
<cn cellml:units="dimensionless">1</cn>
<ci>x_T</ci>
</apply>
<apply>
<plus/>
<apply>
<divide/>
<cn cellml:units="dimensionless">1</cn>
<ci>P_HCO3_ext</ci>
</apply>
<apply>
<divide/>
<cn cellml:units="dimensionless">1</cn>
<ci>P_HCO3_int</ci>
</apply>
</apply>
</apply>
<apply>
<minus/>
<cn cellml:units="dimensionless">1</cn>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>Jo_cm</ci>
<apply>
<power/>
<apply>
<times/>
<apply>
<divide/>
<cn cellml:units="dimensionless">1</cn>
<ci>x_T</ci>
</apply>
<apply>
<plus/>
<apply>
<divide/>
<cn cellml:units="dimensionless">1</cn>
<ci>P_Cl_ext</ci>
</apply>
<apply>
<divide/>
<cn cellml:units="dimensionless">1</cn>
<ci>P_Cl_int</ci>
</apply>
<apply>
<divide/>
<ci>K_Cl_int</ci>
<apply>
<times/>
<ci>P_Cl_int</ci>
<ci>Cl_int</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<minus/>
<cn cellml:units="dimensionless">1</cn>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>Ji_cm</ci>
<apply>
<power/>
<apply>
<times/>
<apply>
<divide/>
<cn cellml:units="dimensionless">1</cn>
<ci>x_T</ci>
</apply>
<apply>
<plus/>
<apply>
<divide/>
<cn cellml:units="dimensionless">1</cn>
<ci>P_Cl_ext</ci>
</apply>
<apply>
<divide/>
<cn cellml:units="dimensionless">1</cn>
<ci>P_Cl_int</ci>
</apply>
<apply>
<divide/>
<ci>K_Cl_ext</ci>
<apply>
<times/>
<ci>P_Cl_ext</ci>
<ci>Cl_ext</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<minus/>
<cn cellml:units="dimensionless">1</cn>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>Js_cm</ci>
<apply>
<power/>
<apply>
<times/>
<apply>
<divide/>
<cn cellml:units="dimensionless">1</cn>
<ci>x_T</ci>
</apply>
<apply>
<plus/>
<apply>
<divide/>
<cn cellml:units="dimensionless">1</cn>
<ci>P_Cl_ext</ci>
</apply>
<apply>
<divide/>
<cn cellml:units="dimensionless">1</cn>
<ci>P_Cl_int</ci>
</apply>
</apply>
</apply>
<apply>
<minus/>
<cn cellml:units="dimensionless">1</cn>
</apply>
</apply>
</apply>
</math>
</component>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<!--
The following RDF block contains metadata that applies to this document
as a whole, as indicated by the empty about attribute on the
<rdf:Description> element.
-->
<rdf:Description xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:about="">
<!--
The Model Builder Metadata. The Dublin Core "creator" element is used
to indicate the person who translated the model into CellML.
-->
<dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/" rdf:parseType="Resource" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<vCard:N xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" rdf:parseType="Resource" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<vCard:Family xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">Terkildsen</vCard:Family>
<vCard:Given xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">Jonna</vCard:Given>
</vCard:N>
<vCard:EMAIL xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" rdf:parseType="Resource" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:value xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">j.terkildsen@auckland.ac.nz</rdf:value>
<rdf:type xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:resource="http://imc.org/vCard/3.0#internet"/>
</vCard:EMAIL>
<vCard:ORG xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" rdf:parseType="Resource" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<vCard:Orgname xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">Auckland Bioengineering Institute</vCard:Orgname>
</vCard:ORG>
</dc:creator>
<!--
The Creation Date metadata. This is the date on which the model
was translated into CellML.
-->
<dcterms:created xmlns:dcterms="http://purl.org/dc/terms/" rdf:parseType="Resource" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<dcterms:W3CDTF xmlns:dcterms="http://purl.org/dc/terms/">2009-11-11</dcterms:W3CDTF>
</dcterms:created>
<!--
The Modification History metadata. This lists the changes that have been
made to the document, who made the changes, and when they were made.
-->
</rdf:Description>
<!--
The following metadata refers to the model itself, as indicated by the
reference to the ID "weinstein_2000_AE1", which is
declared on the <model> element.
-->
<rdf:Description xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:about="#weinstein_2000_AE1">
<!-- A human readable name for the model. -->
<dc:title xmlns:dc="http://purl.org/dc/elements/1.1/">
The Weinstein 2000 quantitative model of AE1 (Cl/HCO3 exchanger).
</dc:title>
<!-- A comment regarding the model. -->
<cmeta:comment xmlns:cmeta="http://www.cellml.org/metadata/1.0#" rdf:parseType="Resource" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:value xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
This is the CellML description of the Weinstein 2000 quantitative model of AE1 (Cl/HCO3 exchanger)
</rdf:value>
<!-- The creator of the comment. -->
<dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/" rdf:parseType="Resource" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<vCard:FN xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">Jonna Terkildsen</vCard:FN>
</dc:creator>
</cmeta:comment>
<!-- Keyword(s) -->
<bqs:reference xmlns:bqs="http://www.cellml.org/bqs/1.0#" rdf:parseType="Resource" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<dc:subject xmlns:dc="http://purl.org/dc/elements/1.1/" rdf:parseType="Resource" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<bqs:subject_type xmlns:bqs="http://www.cellml.org/bqs/1.0#">keyword</bqs:subject_type>
<rdf:value xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:Bag xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:li xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">renal</rdf:li>
<rdf:li xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">ion transport</rdf:li>
<rdf:li xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">kidney</rdf:li>
<rdf:li xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">medullary collecting duct</rdf:li>
</rdf:Bag>
</rdf:value>
</dc:subject>
</bqs:reference>
<bqs:reference xmlns:bqs="http://www.cellml.org/bqs/1.0#" rdf:parseType="Resource" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<bqs:Pubmed_id xmlns:bqs="http://www.cellml.org/bqs/1.0#">10894785</bqs:Pubmed_id>
<bqs:JournalArticle xmlns:bqs="http://www.cellml.org/bqs/1.0#" rdf:parseType="Resource" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/">
<rdf:Seq xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<rdf:li xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:parseType="Resource">
<bqs:Person xmlns:bqs="http://www.cellml.org/bqs/1.0#" rdf:parseType="Resource" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<vCard:N xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" rdf:parseType="Resource" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<vCard:Family xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">Weinstein</vCard:Family>
<vCard:Given xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">A</vCard:Given>
<vCard:Other xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">M</vCard:Other>
</vCard:N>
</bqs:Person>
</rdf:li>
</rdf:Seq>
</dc:creator>
<dc:title xmlns:dc="http://purl.org/dc/elements/1.1/">
A mathematical model of the outer medullary collecting duct of the rat
</dc:title>
<dcterms:issued xmlns:dcterms="http://purl.org/dc/terms/" rdf:parseType="Resource" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<dcterms:W3CDTF xmlns:dcterms="http://purl.org/dc/terms/">2000-07</dcterms:W3CDTF>
</dcterms:issued>
<bqs:Journal xmlns:bqs="http://www.cellml.org/bqs/1.0#" rdf:parseType="Resource" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
<dc:title xmlns:dc="http://purl.org/dc/elements/1.1/">American Journal of Physiology</dc:title>
</bqs:Journal>
<bqs:volume xmlns:bqs="http://www.cellml.org/bqs/1.0#">279</bqs:volume>
<bqs:first_page xmlns:bqs="http://www.cellml.org/bqs/1.0#">24</bqs:first_page>
<bqs:last_page xmlns:bqs="http://www.cellml.org/bqs/1.0#">45</bqs:last_page>
</bqs:JournalArticle>
</bqs:reference>
</rdf:Description>
</rdf:RDF>
</model>
