BlueBrainProjectShowcase/Channelpedia/HCN1.channel.nml at master · OpenSourceBrain/BlueBrainProjectShowcase · GitHub

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<neuroml xmlns="http://www.neuroml.org/schema/neuroml2"  xmlns:xs="http://www.w3.org/2001/XMLSchema" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://www.neuroml.org/schema/neuroml2 https://raw.github.com/NeuroML/NeuroML2/development/Schemas/NeuroML2/NeuroML_v2beta5.xsd" id="Channelpedia_HCN1_9">
    <ionChannelHH id="Channelpedia_HCN1_9" species="Hcn" conductance="10pS">
        <notes>This is an automated conversion to NeuroML 2 of an ion channel model from Channelpedia.
The original channel model file can be found at: http://channelpedia.epfl.ch/ionchannels/61

Conversion scripts at https://github.com/OpenSourceBrain/BlueBrainProjectShowcase</notes>

        <annotation>
            <rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" xmlns:bqmodel="http://biomodels.net/model-qualifiers/" xmlns:bqbiol="http://biomodels.net/biology-qualifiers/">
                <!-- Automatic conversion of Channelpedia XML file to NeuroML2
Uses: https://github.com/OpenSourceBrain/BlueBrainProjectShowcase/blob/master/Channelpedia/ChannelpediaToNeuroML2.py -->
                <rdf:Description rdf:about="Channelpedia_HCN1_9">
                    <bqmodel:isDerivedFrom>
                        <rdf:Bag>
                            <!-- Channelpedia channel ID: 61, ModelID: 9; direct link to original XML model -->
                            <rdf:li rdf:resource="http://channelpedia.epfl.ch/ionchannels/61/hhmodels/9.xml"/>
                        </rdf:Bag>
                    </bqmodel:isDerivedFrom>
                    <bqmodel:isDescribedBy>
                        <rdf:Bag>
                            <!-- Channelpedia channel ID: 61; link to main page for channel -->
                            <rdf:li rdf:resource="http://channelpedia.epfl.ch/ionchannels/61"/>
                        </rdf:Bag>
                    </bqmodel:isDescribedBy>
                    <bqmodel:isDescribedBy>
                        <rdf:Bag>
                            <!-- PubMed ID: 11248683 is referenced in original XML
                                 Cellular expression and functional characterization of four hyperpolarization-activated pacemaker channels in cardiac and neuronal tissues. Eur. J. Biochem., 2001, 268, 1646-52 -->
                            <rdf:li rdf:resource="http://identifiers.org/pubmed/11248683"/>
                        </rdf:Bag>
                    </bqmodel:isDescribedBy>
                    <bqbiol:hasTaxon>
                        <rdf:Bag>
                            <!-- Known species: mouse; taxonomy id: 10090 -->
                            <rdf:li rdf:resource="http://identifiers.org/taxonomy/10090"/>
                        </rdf:Bag>
                    </bqbiol:hasTaxon>
                    <bqbiol:isPartOf>
                        <rdf:Bag>
                            <!-- Known cell type: dorsal root ganglion; taxonomy id: birnlex_2596 -->
                            <rdf:li rdf:resource="http://neurolex.org/wiki/birnlex_2596"/>
                        </rdf:Bag>
                    </bqbiol:isPartOf>
                </rdf:Description>
            </rdf:RDF>
        </annotation>

        <gate id="m" instances="1" type="gateHHtauInf">
            <timeCourse type="Channelpedia_HCN1_9_m_tau"/>
            <steadyState type="Channelpedia_HCN1_9_m_inf"/>
        </gate>
    </ionChannelHH>

    <ComponentType name="Channelpedia_HCN1_9_m_inf" extends="baseVoltageDepVariable">
        <Constant name = "TIME_SCALE" value = "1 ms" dimension = "time"/>
        <Constant name = "VOLT_SCALE" value = "1 mV" dimension = "voltage"/>
        <Dynamics>
            <DerivedVariable name="x" dimension="none" exposure="x" value="1.0000/(1+exp((V+94)/8.1))"/>
            <DerivedVariable name="V" dimension="none" value="v / VOLT_SCALE"/>
        </Dynamics>
    </ComponentType>


    <ComponentType name="Channelpedia_HCN1_9_m_tau" extends="baseVoltageDepTime">
        <Constant name = "TIME_SCALE" value = "1 ms" dimension = "time"/>
        <Constant name = "VOLT_SCALE" value = "1 mV" dimension = "voltage"/>
        <Dynamics>
            <DerivedVariable name="t" dimension="none" exposure="t" value="(30.0000) * TIME_SCALE"/>
            <DerivedVariable name="V" dimension="none" value="v / VOLT_SCALE"/>
        </Dynamics>
    </ComponentType>

</neuroml>