Location: Andre's Hodgkin Huxley model @ 957c2190e1ee / experiments / membrane-conductance-graphs.xml

Author:

David Nickerson <nickerso@users.sourceforge.net>

Date:

2015-05-25 08:31:46+12:00

Desc:

adding a SED-ML document which does nested repeated tasks to iterate over clamp potential and temperature; doesn't work with get-sed-ml-client

Permanent Source URI:

https://models.physiomeproject.org/w/andre/HH/rawfile/957c2190e1eed47d7634613250bc274dc836b826/experiments/membrane-conductance-graphs.xml

<?xml version="1.0" encoding="iso-8859-1"?>
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            This graph illustrates the action potentials simulated using the Hodgkin &amp; Huxley (1952) squid axon model with a periodic electrical stimulus current applied. Several different values for the maximal conductance of the sodium channel are used.
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            Investigation of membrane conductance and ion concentrations using Hodgkin &amp; Huxley's squid axon model
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            Fan J Eve Cool. 2021 Jun;1(1):12-67
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            Investigation of membrane conductance and ion concentrations using Hodgkin &amp; Huxley's squid axon model
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            This graph illustrates the action potentials simulated using the Hodgkin &amp; Huxley (1952) squid axon model with a periodic electrical stimulus current applied. Several different values for the maximal conductance of the potassium channel are used.
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            Investigation of membrane conductance and ion concentrations using Hodgkin &amp; Huxley's squid axon model
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        <cg:title>Leak current</cg:title>
        <dcterms:description rdf:parseType="Resource">
          <rdf:value>
            This graph illustrates the leak current simulated using the Hodgkin &amp; Huxley (1952) squid axon model with a periodic electrical stimulus current applied. Several different values for the maximal conductance of the leak current are used.
          </rdf:value>
        </dcterms:description>
        <csim:citation rdf:parseType="Resource">
          <csim:authors>
            <rdf:Seq>
              <rdf:li rdf:parseType="Resource">
                <dc:creator rdf:resource="#andre"/>
              </rdf:li>
              <rdf:li rdf:parseType="Resource">
                <dc:creator rdf:resource="#andre2"/>
              </rdf:li>
              <rdf:li rdf:parseType="Resource">
                <dc:creator rdf:resource="#andre3"/>
              </rdf:li>
            </rdf:Seq>
          </csim:authors>
          <dc:title>
            Investigation of membrane conductance and ion concentrations using Hodgkin &amp; Huxley's squid axon model
          </dc:title>
          <dcterms:issued>2021</dcterms:issued>
          <dcterms:bibliographicCitation>
            Fan J Eve Cool. 2021 Jun;1(1):12-67
          </dcterms:bibliographicCitation>
        </csim:citation>
        <cmeta:species>loligo</cmeta:species>
        <cmeta:bio_entity>giant nerve fibre</cmeta:bio_entity>
        <cg:x-label>Time (ms)</cg:x-label>
        <cg:y-label>Current (uA/cm^2)</cg:y-label>
        <cg:background-colour>#ffffff</cg:background-colour>
        <cg:traces rdf:parseType="Collection">
          <rdf:Description>
            <cg:label>control</cg:label>
            <cg:type rdf:resource="http://www.cellml.org/metadata/graphs/1.0#line"/>
            <cg:colour>#ff0000</cg:colour>
            <cg:x-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gleak-control.xml#simulation"/>
              <cg:variable rdf:resource="gleak-control.xml#time"/>
            </cg:x-variable>
            <cg:y-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gleak-control.xml#simulation"/>
              <cg:variable rdf:resource="../components/Ileak.xml#Ileak"/>
            </cg:y-variable>
          </rdf:Description>
          <rdf:Description>
            <cg:label>50%</cg:label>
            <cg:type rdf:resource="http://www.cellml.org/metadata/graphs/1.0#line"/>
            <cg:colour>#0000ff</cg:colour>
            <cg:x-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gleak-050.xml#simulation"/>
              <cg:variable rdf:resource="gleak-050.xml#time"/>
            </cg:x-variable>
            <cg:y-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gleak-050.xml#simulation"/>
              <cg:variable rdf:resource="../components/Ileak.xml#Ileak"/>
            </cg:y-variable>
          </rdf:Description>
          <rdf:Description>
            <cg:label>150%</cg:label>
            <cg:type rdf:resource="http://www.cellml.org/metadata/graphs/1.0#line"/>
            <cg:colour>#008000</cg:colour>
            <cg:x-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gleak-150.xml#simulation"/>
              <cg:variable rdf:resource="gleak-150.xml#time"/>
            </cg:x-variable>
            <cg:y-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gleak-150.xml#simulation"/>
              <cg:variable rdf:resource="../components/Ileak.xml#Ileak"/>
            </cg:y-variable>
          </rdf:Description>
          <rdf:Description>
            <cg:label>200%</cg:label>
            <cg:type rdf:resource="http://www.cellml.org/metadata/graphs/1.0#line"/>
            <cg:colour>#800080</cg:colour>
            <cg:x-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gleak-200.xml#simulation"/>
              <cg:variable rdf:resource="gleak-200.xml#time"/>
            </cg:x-variable>
            <cg:y-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gleak-200.xml#simulation"/>
              <cg:variable rdf:resource="../components/Ileak.xml#Ileak"/>
            </cg:y-variable>
          </rdf:Description>
        </cg:traces>
      </rdf:Description>
    </cg:graph>
    <cg:graph>
      <rdf:Description rdf:ID="combined_potential_050">
        <cg:title>Action Potentials - 50%</cg:title>
        <dcterms:description rdf:parseType="Resource">
          <rdf:value>
            This graph illustrates the action potentials simulated for the case when maximal conductance of the three ionic currents are reduced to 50% of their control value.
          </rdf:value>
        </dcterms:description>
        <csim:citation rdf:parseType="Resource">
          <csim:authors>
            <rdf:Seq>
              <rdf:li rdf:parseType="Resource">
                <dc:creator rdf:resource="#andre"/>
              </rdf:li>
              <rdf:li rdf:parseType="Resource">
                <dc:creator rdf:resource="#andre2"/>
              </rdf:li>
              <rdf:li rdf:parseType="Resource">
                <dc:creator rdf:resource="#andre3"/>
              </rdf:li>
            </rdf:Seq>
          </csim:authors>
          <dc:title>
            Investigation of membrane conductance and ion concentrations using Hodgkin &amp; Huxley's squid axon model
          </dc:title>
          <dcterms:issued>2021</dcterms:issued>
          <dcterms:bibliographicCitation>
            Fan J Eve Cool. 2021 Jun;1(1):12-67
          </dcterms:bibliographicCitation>
        </csim:citation>
        <cmeta:species>loligo</cmeta:species>
        <cmeta:bio_entity>giant nerve fibre</cmeta:bio_entity>
        <cg:x-label>Time (ms)</cg:x-label>
        <cg:y-label>Potential (mV)</cg:y-label>
        <cg:background-colour>#ffffff</cg:background-colour>
        <cg:traces rdf:parseType="Collection">
          <rdf:Description>
            <cg:label>control</cg:label>
            <cg:type rdf:resource="http://www.cellml.org/metadata/graphs/1.0#line"/>
            <cg:colour>#ff0000</cg:colour>
            <cg:x-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gleak-control.xml#simulation"/>
              <cg:variable rdf:resource="gleak-control.xml#time"/>
            </cg:x-variable>
            <cg:y-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gleak-control.xml#simulation"/>
              <cg:variable rdf:resource="../components/stimulated.xml#minus_V"/>
            </cg:y-variable>
          </rdf:Description>
          <rdf:Description>
            <cg:label>INa</cg:label>
            <cg:type rdf:resource="http://www.cellml.org/metadata/graphs/1.0#line"/>
            <cg:colour>#0000ff</cg:colour>
            <cg:x-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gNa-050.xml#simulation"/>
              <cg:variable rdf:resource="gNa-050.xml#time"/>
            </cg:x-variable>
            <cg:y-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gNa-050.xml#simulation"/>
              <cg:variable rdf:resource="../components/stimulated.xml#minus_V"/>
            </cg:y-variable>
          </rdf:Description>
          <rdf:Description>
            <cg:label>IK</cg:label>
            <cg:type rdf:resource="http://www.cellml.org/metadata/graphs/1.0#line"/>
            <cg:colour>#008000</cg:colour>
            <cg:x-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gK-050.xml#simulation"/>
              <cg:variable rdf:resource="gK-050.xml#time"/>
            </cg:x-variable>
            <cg:y-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gK-050.xml#simulation"/>
              <cg:variable rdf:resource="../components/stimulated.xml#minus_V"/>
            </cg:y-variable>
          </rdf:Description>
          <rdf:Description>
            <cg:label>Ileak</cg:label>
            <cg:type rdf:resource="http://www.cellml.org/metadata/graphs/1.0#line"/>
            <cg:colour>#800080</cg:colour>
            <cg:x-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gleak-050.xml#simulation"/>
              <cg:variable rdf:resource="gleak-050.xml#time"/>
            </cg:x-variable>
            <cg:y-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gleak-050.xml#simulation"/>
              <cg:variable rdf:resource="../components/stimulated.xml#minus_V"/>
            </cg:y-variable>
          </rdf:Description>
        </cg:traces>
      </rdf:Description>
    </cg:graph>
    <cg:graph>
      <rdf:Description rdf:ID="combined_potential_150">
        <cg:title>Action Potentials - 150%</cg:title>
        <dcterms:description rdf:parseType="Resource">
          <rdf:value>
            This graph illustrates the action potentials simulated for the case when maximal conductance of the three ionic currents are increased to 150% of their control value.
          </rdf:value>
        </dcterms:description>
        <csim:citation rdf:parseType="Resource">
          <csim:authors>
            <rdf:Seq>
              <rdf:li rdf:parseType="Resource">
                <dc:creator rdf:resource="#andre"/>
              </rdf:li>
              <rdf:li rdf:parseType="Resource">
                <dc:creator rdf:resource="#andre2"/>
              </rdf:li>
              <rdf:li rdf:parseType="Resource">
                <dc:creator rdf:resource="#andre3"/>
              </rdf:li>
            </rdf:Seq>
          </csim:authors>
          <dc:title>
            Investigation of membrane conductance and ion concentrations using Hodgkin &amp; Huxley's squid axon model
          </dc:title>
          <dcterms:issued>2021</dcterms:issued>
          <dcterms:bibliographicCitation>
            Fan J Eve Cool. 2021 Jun;1(1):12-67
          </dcterms:bibliographicCitation>
        </csim:citation>
        <cmeta:species>loligo</cmeta:species>
        <cmeta:bio_entity>giant nerve fibre</cmeta:bio_entity>
        <cg:x-label>Time (ms)</cg:x-label>
        <cg:y-label>Potential (mV)</cg:y-label>
        <cg:background-colour>#ffffff</cg:background-colour>
        <cg:traces rdf:parseType="Collection">
          <rdf:Description>
            <cg:label>control</cg:label>
            <cg:type rdf:resource="http://www.cellml.org/metadata/graphs/1.0#line"/>
            <cg:colour>#ff0000</cg:colour>
            <cg:x-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gleak-control.xml#simulation"/>
              <cg:variable rdf:resource="gleak-control.xml#time"/>
            </cg:x-variable>
            <cg:y-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gleak-control.xml#simulation"/>
              <cg:variable rdf:resource="../components/stimulated.xml#minus_V"/>
            </cg:y-variable>
          </rdf:Description>
          <rdf:Description>
            <cg:label>INa</cg:label>
            <cg:type rdf:resource="http://www.cellml.org/metadata/graphs/1.0#line"/>
            <cg:colour>#0000ff</cg:colour>
            <cg:x-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gNa-150.xml#simulation"/>
              <cg:variable rdf:resource="gNa-150.xml#time"/>
            </cg:x-variable>
            <cg:y-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gNa-150.xml#simulation"/>
              <cg:variable rdf:resource="../components/stimulated.xml#minus_V"/>
            </cg:y-variable>
          </rdf:Description>
          <rdf:Description>
            <cg:label>IK</cg:label>
            <cg:type rdf:resource="http://www.cellml.org/metadata/graphs/1.0#line"/>
            <cg:colour>#008000</cg:colour>
            <cg:x-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gK-150.xml#simulation"/>
              <cg:variable rdf:resource="gK-150.xml#time"/>
            </cg:x-variable>
            <cg:y-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gK-150.xml#simulation"/>
              <cg:variable rdf:resource="../components/stimulated.xml#minus_V"/>
            </cg:y-variable>
          </rdf:Description>
          <rdf:Description>
            <cg:label>Ileak</cg:label>
            <cg:type rdf:resource="http://www.cellml.org/metadata/graphs/1.0#line"/>
            <cg:colour>#800080</cg:colour>
            <cg:x-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gleak-150.xml#simulation"/>
              <cg:variable rdf:resource="gleak-150.xml#time"/>
            </cg:x-variable>
            <cg:y-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gleak-150.xml#simulation"/>
              <cg:variable rdf:resource="../components/stimulated.xml#minus_V"/>
            </cg:y-variable>
          </rdf:Description>
        </cg:traces>
      </rdf:Description>
    </cg:graph>
    <cg:graph>
      <rdf:Description rdf:ID="combined_potential_200">
        <cg:title>Action Potentials - 200%</cg:title>
        <dcterms:description rdf:parseType="Resource">
          <rdf:value>
            This graph illustrates the action potentials simulated for the case when maximal conductance of the three ionic currents are increased to 200% of their control value.
          </rdf:value>
        </dcterms:description>
        <csim:citation rdf:parseType="Resource">
          <csim:authors>
            <rdf:Seq>
              <rdf:li rdf:parseType="Resource">
                <dc:creator rdf:resource="#andre"/>
              </rdf:li>
              <rdf:li rdf:parseType="Resource">
                <dc:creator rdf:resource="#andre2"/>
              </rdf:li>
              <rdf:li rdf:parseType="Resource">
                <dc:creator rdf:resource="#andre3"/>
              </rdf:li>
            </rdf:Seq>
          </csim:authors>
          <dc:title>
            Investigation of membrane conductance and ion concentrations using Hodgkin &amp; Huxley's squid axon model
          </dc:title>
          <dcterms:issued>2021</dcterms:issued>
          <dcterms:bibliographicCitation>
            Fan J Eve Cool. 2021 Jun;1(1):12-67
          </dcterms:bibliographicCitation>
        </csim:citation>
        <cmeta:species>loligo</cmeta:species>
        <cmeta:bio_entity>giant nerve fibre</cmeta:bio_entity>
        <cg:x-label>Time (ms)</cg:x-label>
        <cg:y-label>Potential (mV)</cg:y-label>
        <cg:background-colour>#ffffff</cg:background-colour>
        <cg:traces rdf:parseType="Collection">
          <rdf:Description>
            <cg:label>control</cg:label>
            <cg:type rdf:resource="http://www.cellml.org/metadata/graphs/1.0#line"/>
            <cg:colour>#ff0000</cg:colour>
            <cg:x-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gleak-control.xml#simulation"/>
              <cg:variable rdf:resource="gleak-control.xml#time"/>
            </cg:x-variable>
            <cg:y-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gleak-control.xml#simulation"/>
              <cg:variable rdf:resource="../components/stimulated.xml#minus_V"/>
            </cg:y-variable>
          </rdf:Description>
          <rdf:Description>
            <cg:label>INa</cg:label>
            <cg:type rdf:resource="http://www.cellml.org/metadata/graphs/1.0#line"/>
            <cg:colour>#0000ff</cg:colour>
            <cg:x-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gNa-200.xml#simulation"/>
              <cg:variable rdf:resource="gNa-200.xml#time"/>
            </cg:x-variable>
            <cg:y-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gNa-200.xml#simulation"/>
              <cg:variable rdf:resource="../components/stimulated.xml#minus_V"/>
            </cg:y-variable>
          </rdf:Description>
          <rdf:Description>
            <cg:label>IK</cg:label>
            <cg:type rdf:resource="http://www.cellml.org/metadata/graphs/1.0#line"/>
            <cg:colour>#008000</cg:colour>
            <cg:x-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gK-200.xml#simulation"/>
              <cg:variable rdf:resource="gK-200.xml#time"/>
            </cg:x-variable>
            <cg:y-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gK-200.xml#simulation"/>
              <cg:variable rdf:resource="../components/stimulated.xml#minus_V"/>
            </cg:y-variable>
          </rdf:Description>
          <rdf:Description>
            <cg:label>Ileak</cg:label>
            <cg:type rdf:resource="http://www.cellml.org/metadata/graphs/1.0#line"/>
            <cg:colour>#800080</cg:colour>
            <cg:x-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gleak-200.xml#simulation"/>
              <cg:variable rdf:resource="gleak-200.xml#time"/>
            </cg:x-variable>
            <cg:y-variable rdf:parseType="Resource">
              <cs:simulation rdf:resource="gleak-200.xml#simulation"/>
              <cg:variable rdf:resource="../components/stimulated.xml#minus_V"/>
            </cg:y-variable>
          </rdf:Description>
        </cg:traces>
      </rdf:Description>
    </cg:graph>
  </rdf:Description>
</rdf:RDF>