Location: VPH-MIP case study on CellML @ 036dadde9083 / experiments / IK-gating-kinetics.xml.rdf

Author:
David Nickerson <nickerso@users.sourceforge.net>
Date:
2012-09-25 12:45:09+12:00
Desc:
starting to add a bit of documentation following the slides I put together for the VPH-MIP standardisation and ontologies module.
Permanent Source URI:
https://models.fieldml.org/w/andre/VPH-MIP/rawfile/036dadde90835505fa089b9d33be0bf5b4e6db24/experiments/IK-gating-kinetics.xml.rdf
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<?xml version="1.0"?>
<RDF xmlns="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
  <rdf:Description xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:about="IK-gating-kinetics.xml">
      <dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/" rdf:parseType="Resource">
        <vCard:N xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" rdf:parseType="Resource">
          <vCard:Family>Nickerson</vCard:Family>
          <vCard:Given>David</vCard:Given>
        </vCard:N>
        <vCard:EMAIL xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" 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 xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" rdf:parseType="Resource">
          <vCard:Orgname>National University of Singapore</vCard:Orgname>
          <vCard:Orgunit>Division of Bioengineering</vCard:Orgunit>
        </vCard:ORG>
      </dc:creator>
      <dcterms:created xmlns:dcterms="http://purl.org/dc/terms/" rdf:parseType="Resource">
        <dcterms:W3CDTF>2008-03-13</dcterms:W3CDTF>
      </dcterms:created>
      <dc:publisher xmlns:dc="http://purl.org/dc/elements/1.1/">
        Division of Bioengineering, National University of Singapore
      </dc:publisher>
    </rdf:Description>
  <rdf:Description xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:about="IK-gating-kinetics.xml#IK_gating_kinetics_model">
      <dc:title xmlns:dc="http://purl.org/dc/elements/1.1/">
        The gating kinetics of the Hodgkin &amp; Huxley (1952) potassium current.
      </dc:title>
      <cmeta:comment xmlns:cmeta="http://www.cellml.org/metadata/1.0#" rdf:parseType="Resource">
        <rdf:value>
          Here we investigate the gating kinetics of the Hodgkin &amp; Huxley potassium current by applying a linear potential ramp.
        </rdf:value>
        <dc:creator xmlns:dc="http://purl.org/dc/elements/1.1/" rdf:parseType="Resource">
          <vCard:FN xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">David Nickerson</vCard:FN>
        </dc:creator>
      </cmeta:comment>
      <cmeta:modification xmlns:cmeta="http://www.cellml.org/metadata/1.0#" rdf:parseType="Resource">
        <rdf:value>
          Update to use the new IK gating rates model in order to work around a possible bug in the API implementation (or my understanding of the CellML specification) which doesn't like importing encapsulated children directly.
        </rdf:value>
        <cmeta:modifier rdf:parseType="Resource">
          <vCard:FN xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">David Nickerson</vCard:FN>
        </cmeta:modifier>
        <dcterms:modified xmlns:dcterms="http://purl.org/dc/terms/" rdf:parseType="Resource">
          <dcterms:W3CDTF>2008-08-11</dcterms:W3CDTF>
        </dcterms:modified>
      </cmeta:modification>
      <cs:simulation xmlns:cs="http://www.cellml.org/metadata/simulation/1.0#">
        <rdf:Description rdf:ID="simulation">
          <cs:simulationName>IK gating kinetics</cs:simulationName>
          <cs:multistepMethod>bdf</cs:multistepMethod>
          <cs:iterationMethod>functional</cs:iterationMethod>
          <cs:boundIntervals rdf:parseType="Collection">
            <rdf:Description>
              <cs:boundVariable>
                <rdf:Description rdf:about="IK-gating-kinetics.xml#time"/>
              </cs:boundVariable>
              <cs:maximumStepSize rdf:datatype="http://www.w3.org/2001/XMLSchema#double">
                0.1
              </cs:maximumStepSize>
              <cs:tabulationStepSize rdf:datatype="http://www.w3.org/2001/XMLSchema#double">
                0.1
              </cs:tabulationStepSize>
              <cs:startingValue rdf:datatype="http://www.w3.org/2001/XMLSchema#double">
                0
              </cs:startingValue>
              <cs:endingValue rdf:datatype="http://www.w3.org/2001/XMLSchema#double">
                200
              </cs:endingValue>
            </rdf:Description>
          </cs:boundIntervals>
        </rdf:Description>
      </cs:simulation>
    </rdf:Description>
  <rdf:Description xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:about="IK-gating-kinetics.xml#time_component">
        <cmeta:comment xmlns:cmeta="http://www.cellml.org/metadata/1.0#" rdf:parseType="Resource">
          <rdf:value>
            The actual definition of the time variable.
          </rdf:value>
        </cmeta:comment>
      </rdf:Description>
  <rdf:Description xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:about="IK-gating-kinetics.xml#V_parameters">
        <cmeta:comment xmlns:cmeta="http://www.cellml.org/metadata/1.0#" rdf:parseType="Resource">
          <rdf:value>
            Here we define the parameters for the applied voltage ramp.
          </rdf:value>
        </cmeta:comment>
      </rdf:Description>
  <rdf:Description xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:about="IK-gating-kinetics.xml#parameters">
        <cmeta:comment xmlns:cmeta="http://www.cellml.org/metadata/1.0#" rdf:parseType="Resource">
          <rdf:value>
            The model parameters - in this case we use all default values.
          </rdf:value>
        </cmeta:comment>
      </rdf:Description>
  <rdf:Description xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:about="IK-gating-kinetics.xml#initial_conditions">
        <cmeta:comment xmlns:cmeta="http://www.cellml.org/metadata/1.0#" rdf:parseType="Resource">
          <rdf:value>
            The initial conditions - using all default values in this case.
          </rdf:value>
        </cmeta:comment>
      </rdf:Description>
</RDF>