Location: semantic-annotation @ 848b6a8fb585 / GI Model / diffusive_Cl.cellml

Author:
Dewan Sarwar <sarwarcse@gmail.com>
Date:
2019-01-31 16:34:20+13:00
Desc:
Testing with Max's suggested way of annotation for weinstein_1995_max model
Permanent Source URI:
https://models.physiomeproject.org/workspace/584/rawfile/848b6a8fb585337adc4f3805c0ed682a6a5fd379/GI Model/diffusive_Cl.cellml

<?xml version="1.0" encoding="UTF-8"?>
<model xmlns="http://www.cellml.org/cellml/1.1#" xmlns:cmeta="http://www.cellml.org/metadata/1.0#" xmlns:xlink="http://www.w3.org/1999/xlink" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqs="http://www.cellml.org/bqs/1.0#" xmlns:semsim="http://www.bhi.washington.edu/SemSim#" xmlns:dcterms="http://purl.org/dc/terms/" xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#" name="diffusive_Cl" cmeta:id="diffusive_Cl">
  <units name="per_millisec">
    <unit exponent="-1.0" prefix="milli" units="second" />
  </units>
  <units name="millisec">
    <unit prefix="milli" units="second" />
  </units>
  <units name="flux">
    <unit prefix="milli" units="mole" />
    <unit exponent="-1.0" units="second" />
    <unit exponent="-3.0" prefix="centi" units="metre" />
  </units>
  <units name="mM">
    <unit exponent="-1.0" units="litre" />
    <unit prefix="milli" units="mole" />
  </units>
  <component name="environment">
    <variable cmeta:id="environment.time" name="time" public_interface="out" units="second" />
  </component>
  <component name="diffusive_Cl">
    <variable cmeta:id="diffusive_Cl.C_lumen_Cl" name="C_lumen_Cl" public_interface="in" units="mM" />
    <variable cmeta:id="diffusive_Cl.C_int_Cl" name="C_int_Cl" public_interface="in" units="mM" />
    <variable cmeta:id="diffusive_Cl.G_Cl" name="G_Cl" public_interface="in" units="flux" />
  </component>
  <rdf:RDF xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/" xmlns:ro="http://www.obofoundry.org/ro/ro.owl#" xmlns:opb="http://bhi.washington.edu/OPB#">
    <rdf:Description rdf:about="">
      <dc:title>HH sodium ion channel model</dc:title>
    </rdf:Description>
    <rdf:Description rdf:about="#diffusive_Cl">
      <ro:modelOf rdf:resource="http://purl.obolibrary.org/obo/GO_0005254" />
      <ro:located_in rdf:resource="http://purl.obolibrary.org/obo/FMA_17721" />
      <ro:compartmentOf rdf:resource="http://purl.obolibrary.org/obo/FMA_66836" />    
    </rdf:Description>
    <rdf:Description rdf:about="#diffusive_Cl.G_Cl">
      <semsim:isComputationalComponentFor>
        <rdf:Description rdf:about="#property_2">
          <semsim:physicalPropertyOf>
            <rdf:Description rdf:about="#process_0" dcterms:description="">
              <semsim:hasMediatorParticipant>
                <rdf:Description rdf:about="#mediator_1">
                  <semsim:hasPhysicalEntityReference>
                    <rdf:Description rdf:about="#entity_5">
                      <semsim:hasPhysicalDefinition rdf:resource="http://purl.obolibrary.org/obo/GO_0005254" />
                    </rdf:Description>
                  </semsim:hasPhysicalEntityReference>
                </rdf:Description>
              </semsim:hasMediatorParticipant>
              <semsim:hasMediatorParticipant>
                <rdf:Description rdf:about="#mediator_0">
                  <semsim:hasPhysicalEntityReference>
                    <rdf:Description rdf:about="#entity_4">
                      <semsim:hasPhysicalDefinition rdf:resource="http://purl.obolibrary.org/obo/FMA_67394" />
                    </rdf:Description>
                  </semsim:hasPhysicalEntityReference>
                </rdf:Description>
              </semsim:hasMediatorParticipant>
              <semsim:hasSinkParticipant>
                <rdf:Description rdf:about="#sink_0" semsim:hasMultiplier="1.0">
                  <semsim:hasPhysicalEntityReference>
                    <rdf:Description rdf:about="#entity_2">
                      <ro:part_of>
                        <rdf:Description rdf:about="#entity_3">
                          <semsim:hasPhysicalDefinition rdf:resource="http://purl.obolibrary.org/obo/FMA_66836" />
                        </rdf:Description>
                      </ro:part_of>
                      <semsim:hasPhysicalDefinition rdf:resource="http://purl.obolibrary.org/obo/CHEBI_17996" />
                    </rdf:Description>
                  </semsim:hasPhysicalEntityReference>
                </rdf:Description>
              </semsim:hasSinkParticipant>
              <semsim:hasSourceParticipant>
                <rdf:Description rdf:about="#source_0" semsim:hasMultiplier="1.0">
                  <semsim:hasPhysicalEntityReference>
                    <rdf:Description rdf:about="#entity_0">
                      <ro:part_of>
                        <rdf:Description rdf:about="#entity_1">
                          <semsim:hasPhysicalDefinition rdf:resource="http://purl.obolibrary.org/obo/FMA_74550" />
                        </rdf:Description>
                      </ro:part_of>
                      <semsim:hasPhysicalDefinition rdf:resource="http://purl.obolibrary.org/obo/CHEBI_17996" />
                    </rdf:Description>
                  </semsim:hasPhysicalEntityReference>
                </rdf:Description>
              </semsim:hasSourceParticipant>
              <semsim:name>Cl flow from luminal to tissue fluid</semsim:name>
            </rdf:Description>
          </semsim:physicalPropertyOf>
          <semsim:hasPhysicalDefinition rdf:resource="http://identifiers.org/opb/OPB_00593" />
        </rdf:Description>
      </semsim:isComputationalComponentFor>
      <dcterms:description>Flux of chloride from luminal to tissue fluid compartment through Na diffusive channel and paracellular pathway</dcterms:description>
    </rdf:Description>
    <rdf:Description rdf:about="#diffusive_Cl.C_lumen_Cl">
      <semsim:isComputationalComponentFor>
        <rdf:Description rdf:about="#property_0">
          <semsim:physicalPropertyOf rdf:resource="#entity_0" />
          <semsim:hasPhysicalDefinition rdf:resource="http://identifiers.org/opb/OPB_00340" />
        </rdf:Description>
      </semsim:isComputationalComponentFor>
      <dcterms:description>concentration of chloride in the luminal compartment</dcterms:description>
    </rdf:Description>
    <rdf:Description rdf:about="#diffusive_Cl" semsim:modelId="diffusive_Cl" semsim:modelName="diffusive_Cl" />
    <rdf:Description rdf:about="#model">
      <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:Description rdf:about="#diffusive_Cl.G_Cl">
      <dcterms:description>Flux of chloride from luminal to tissue fluid compartment through Cl diffusive channel and paracellular pathway</dcterms:description>
    </rdf:Description>
    <rdf:Description rdf:about="#diffusive_Cl.C_int_Cl">
      <semsim:isComputationalComponentFor>
        <rdf:Description rdf:about="#property_1">
          <semsim:physicalPropertyOf rdf:resource="#entity_2" />
          <semsim:hasPhysicalDefinition rdf:resource="http://identifiers.org/opb/OPB_00340" />
        </rdf:Description>
      </semsim:isComputationalComponentFor>
      <dcterms:description>concentration of chloride in the cytosol compartment</dcterms:description>
    </rdf:Description>
    <rdf:Description rdf:about="#environment.time" dcterms:description="Time">
      <semsim:hasPhysicalDefinition rdf:resource="http://identifiers.org/opb/OPB_01023" />
    </rdf:Description>
  </rdf:RDF>
</model>