Location: A review of cardiac cellular electrophysiology models @ 53b070ec6d82 / models / 1998_fenton / experiments / GP.xml

Author:

David Nickerson <david.nickerson@gmail.com>

Date:

2021-09-16 22:03:57+12:00

Desc:

Updating Luo & Rudy 1991 model: * exposing membrane potential and time variables at top-level; * adding SED-ML for each of the [K]o simulations. Using OpenCOR snapshot release 2021-09-14

Permanent Source URI:

https://models.physiomeproject.org/workspace/a1/rawfile/53b070ec6d825b9a6fa4b0befe9199efe2e32de6/models/1998_fenton/experiments/GP.xml

<?xml version='1.0' encoding='UTF-8'?>
<model cmeta:id="GP_experiment_model" name="GP_experiment_model" 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">
    <import xlink:href="periodic-stimulus-generic.xml">
        <component component_ref="interface" name="math_model"/>
    </import>
    <component name="output_variables">
        <variable name="Vm" public_interface="in" units="mV"/>
        <variable name="time" public_interface="in" units="ms"/>
    </component>
    <connection>
        <map_components component_1="math_model" component_2="output_variables"/>
        <map_variables variable_1="Vm" variable_2="Vm"/>
        <map_variables variable_1="time" variable_2="time"/>
    </connection>
    <component cmeta:id="parameters" name="parameters">
        <variable initial_value="0.087" name="g_fi_max" private_interface="out" public_interface="out" units="mS_per_mm2"/>
        <variable initial_value="12.5" name="tau_0" private_interface="out" public_interface="out" units="ms"/>
        <variable initial_value="25.0" name="tau_r" private_interface="out" public_interface="out" units="ms"/>
        <variable initial_value="22.22" name="tau_si" private_interface="out" public_interface="out" units="ms"/>
        <variable initial_value="333.0" name="tau_v1_minus" private_interface="out" public_interface="out" units="ms"/>
        <variable initial_value="40.0" name="tau_v2_minus" private_interface="out" public_interface="out" units="ms"/>
        <variable initial_value="10.0" name="tau_v_plus" private_interface="out" public_interface="out" units="ms"/>
        <variable initial_value="65.0" name="tau_w_minus" private_interface="out" public_interface="out" units="ms"/>
        <variable initial_value="1000.0" name="tau_w_plus" private_interface="out" public_interface="out" units="ms"/>
        <variable initial_value="0.025" name="u_v" private_interface="out" public_interface="out" units="dimensionless"/>
    </component>
    <connection>
        <map_components component_1="math_model" component_2="parameters"/>
        <map_variables variable_1="u_v" variable_2="u_v"/>
        <map_variables variable_1="g_fi_max" variable_2="g_fi_max"/>
        <map_variables variable_1="tau_v1_minus" variable_2="tau_v1_minus"/>
        <map_variables variable_1="tau_v2_minus" variable_2="tau_v2_minus"/>
        <map_variables variable_1="tau_v_plus" variable_2="tau_v_plus"/>
        <map_variables variable_1="tau_0" variable_2="tau_0"/>
        <map_variables variable_1="tau_r" variable_2="tau_r"/>
        <map_variables variable_1="tau_si" variable_2="tau_si"/>
        <map_variables variable_1="tau_w_minus" variable_2="tau_w_minus"/>
        <map_variables variable_1="tau_w_plus" variable_2="tau_w_plus"/>
    </connection>
    <import xlink:href="../fenton_karma_model_1998_units_model.xml">
        <units name="ms" units_ref="ms"/>
        <units name="per_ms" units_ref="per_ms"/>
        <units name="mV" units_ref="mV"/>
        <units name="per_mV" units_ref="per_mV"/>
        <units name="per_mV_ms" units_ref="per_mV_ms"/>
        <units name="mS_per_mm2" units_ref="mS_per_mm2"/>
        <units name="uF_per_mm2" units_ref="uF_per_mm2"/>
        <units name="uA_per_mm2" units_ref="uA_per_mm2"/>
        <units name="concentration_units" units_ref="concentration_units"/>
    </import>
    <rdf:RDF xmlns:rdf="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="">
            <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#">Nickerson</vCard:Family>
                    <vCard:Given xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">David</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#">d.nickerson@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#">The University of Auckland</vCard:Orgname>
                    <vCard:Orgunit xmlns:vCard="http://www.w3.org/2001/vcard-rdf/3.0#">Bioengineering Institute</vCard:Orgunit>
                </vCard:ORG>
            </dc:creator>
            <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/">2009-06-18</dcterms:W3CDTF>
            </dcterms:created>
            <dc:publisher xmlns:dc="http://purl.org/dc/elements/1.1/">&#xd;
        Bioengineering Institute, The University of Auckland&#xd;
      </dc:publisher>
        </rdf:Description>
        <rdf:Description xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:about="#GP_experiment_model">
            <cs:simulation xmlns:cs="http://www.cellml.org/metadata/simulation/1.0#">
                <rdf:Description xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:ID="simulation">
                    <cs:multistepMethod xmlns:cs="http://www.cellml.org/metadata/simulation/1.0#">bdf</cs:multistepMethod>
                    <cs:iterationMethod xmlns:cs="http://www.cellml.org/metadata/simulation/1.0#">functional</cs:iterationMethod>
                    <cs:boundIntervals xmlns:cs="http://www.cellml.org/metadata/simulation/1.0#" rdf:parseType="Collection" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
                        <rdf:Description xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
                            <cs:boundVariable xmlns:cs="http://www.cellml.org/metadata/simulation/1.0#">
                                <rdf:Description xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:about="periodic-stimulus-generic.xml#time"/>
                            </cs:boundVariable>
                            <cs:maximumStepSize xmlns:cs="http://www.cellml.org/metadata/simulation/1.0#" rdf:datatype="http://www.w3.org/2001/XMLSchema#double" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">&#xd;
                0.1&#xd;
              </cs:maximumStepSize>
                            <cs:tabulationStepSize xmlns:cs="http://www.cellml.org/metadata/simulation/1.0#" rdf:datatype="http://www.w3.org/2001/XMLSchema#double" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">&#xd;
                1.0&#xd;
              </cs:tabulationStepSize>
                            <cs:startingValue xmlns:cs="http://www.cellml.org/metadata/simulation/1.0#" rdf:datatype="http://www.w3.org/2001/XMLSchema#double" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">&#xd;
                0&#xd;
              </cs:startingValue>
                            <cs:endingValue xmlns:cs="http://www.cellml.org/metadata/simulation/1.0#" rdf:datatype="http://www.w3.org/2001/XMLSchema#double" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">&#xd;
                1500&#xd;
              </cs:endingValue>
                        </rdf:Description>
                    </cs:boundIntervals>
                </rdf:Description>
            </cs:simulation>
        </rdf:Description>
    </rdf:RDF>
</model>