Location: Noble 1962 model for Physiome article @ 0a252e033bdf / cell_model_interface.xml

Author:
David Nickerson <nickerso@users.sourceforge.net>
Date:
2017-07-06 22:57:44+12:00
Desc:
exposing all model variables via the experiment model to allow SED-ML to address interesting things in the model
Permanent Source URI:
http://models.cellml.org/workspace/49e/rawfile/0a252e033bdf5e65d5a6490c9d3ade9035fef04e/cell_model_interface.xml

<?xml version='1.0'?>
<model name="interface_model" xmlns="http://www.cellml.org/cellml/1.1#" xmlns:cellml="http://www.cellml.org/cellml/1.1#" xmlns:xlink="http://www.w3.org/1999/xlink">
    <component name="interface_component">
        <variable name="time" private_interface="out" public_interface="out" units="ms"/>
        <variable name="IStim" private_interface="out" public_interface="in" units="uA_per_mmsq"/>
        <variable name="g_K_add" private_interface="out" public_interface="in" units="mS_per_mmsq"/>
        <variable name="V" private_interface="in" public_interface="out" units="mV"/>
        <variable name="V_initial" private_interface="out" public_interface="in" units="mV"/>
        <variable name="Cm" private_interface="out" public_interface="in" units="uF_per_mm2"/>
        <variable name="IStimC" private_interface="in" public_interface="out" units="uA_per_mm2"/>
        <variable name="i_Na" private_interface="in" public_interface="out" units="uA_per_mm2"/>
        <variable name="g_Na_max" private_interface="out" public_interface="in" units="mS_per_mm2"/>
        <variable name="g_Na" private_interface="in" public_interface="out" units="mS_per_mm2"/>
        <variable name="E_Na" private_interface="out" public_interface="in" units="mV"/>
        <variable name="m" private_interface="in" public_interface="out" units="dimensionless"/>
        <variable name="m_initial" private_interface="out" public_interface="in" units="dimensionless"/>
        <variable name="alpha_m" private_interface="in" public_interface="out" units="per_ms"/>
        <variable name="beta_m" private_interface="in" public_interface="out" units="per_ms"/>
        <variable name="h" private_interface="in" public_interface="out" units="dimensionless"/>
        <variable name="h_initial" private_interface="out" public_interface="in" units="dimensionless"/>
        <variable name="alpha_h" private_interface="in" public_interface="out" units="per_ms"/>
        <variable name="beta_h" private_interface="in" public_interface="out" units="per_ms"/>
        <variable name="i_K" private_interface="in" public_interface="out" units="uA_per_mm2"/>
        <variable name="g_K1" private_interface="in" public_interface="out" units="mS_per_mm2"/>
        <variable name="g_K2" private_interface="in" public_interface="out" units="mS_per_mm2"/>
        <variable name="n" private_interface="in" public_interface="out" units="dimensionless"/>
        <variable name="n_initial" private_interface="out" public_interface="in" units="dimensionless"/>
        <variable name="alpha_n" private_interface="in" public_interface="out" units="per_ms"/>
        <variable name="beta_n" private_interface="in" public_interface="out" units="per_ms"/>
        <variable name="i_Leak" private_interface="in" public_interface="out" units="uA_per_mm2"/>
        <variable name="g_L" private_interface="out" public_interface="in" units="mS_per_mm2"/>
        <variable name="E_L" private_interface="out" public_interface="in" units="mV"/>
    </component>
    <group>
        <relationship_ref relationship="encapsulation"/>
        <component_ref component="interface_component">
            <component_ref component="time"/>
            <component_ref component="stimulus_protocol"/>
            <component_ref component="parameters"/>
            <component_ref component="interface"/>
            <component_ref component="membrane"/>
            <component_ref component="sodium_channel"/>
            <component_ref component="sodium_channel_m_gate"/>
            <component_ref component="sodium_channel_h_gate"/>
            <component_ref component="potassium_channel"/>
            <component_ref component="potassium_channel_n_gate"/>
            <component_ref component="leakage_current"/>
        </component_ref>
    </group>
    <import xlink:href="time_model.xml">
        <component component_ref="time" name="time"/>
    </import>
    <import xlink:href="stimulus_protocol_model.xml">
        <component component_ref="stimulus_protocol" name="stimulus_protocol"/>
    </import>
    <import xlink:href="parameters_model.xml">
        <component component_ref="parameters" name="parameters"/>
    </import>
    <import xlink:href="interface_model.xml">
        <component component_ref="interface" name="interface"/>
    </import>
    <import xlink:href="membrane_model.xml">
        <component component_ref="membrane" name="membrane"/>
    </import>
    <import xlink:href="sodium_channel_model.xml">
        <component component_ref="sodium_channel" name="sodium_channel"/>
    </import>
    <import xlink:href="sodium_channel_m_gate_model.xml">
        <component component_ref="sodium_channel_m_gate" name="sodium_channel_m_gate"/>
    </import>
    <import xlink:href="sodium_channel_h_gate_model.xml">
        <component component_ref="sodium_channel_h_gate" name="sodium_channel_h_gate"/>
    </import>
    <import xlink:href="potassium_channel_model.xml">
        <component component_ref="potassium_channel" name="potassium_channel"/>
    </import>
    <import xlink:href="potassium_channel_n_gate_model.xml">
        <component component_ref="potassium_channel_n_gate" name="potassium_channel_n_gate"/>
    </import>
    <import xlink:href="leakage_current_model.xml">
        <component component_ref="leakage_current" name="leakage_current"/>
    </import>
    <import xlink:href="units_model.xml">
        <units name="mm" units_ref="mm"/>
        <units name="ng" units_ref="ng"/>
        <units name="ms" units_ref="ms"/>
        <units name="uA" units_ref="uA"/>
        <units name="K" units_ref="K"/>
        <units name="nmol" units_ref="nmol"/>
        <units name="mmsq" units_ref="mmsq"/>
        <units name="mmcu" units_ref="mmcu"/>
        <units name="mssq" units_ref="mssq"/>
        <units name="mscu" units_ref="mscu"/>
        <units name="mV" units_ref="mV"/>
        <units name="mVsq" units_ref="mVsq"/>
        <units name="mV_per_ms" units_ref="mV_per_ms"/>
        <units name="mS" units_ref="mS"/>
        <units name="mS_per_mmsq" units_ref="mS_per_mmsq"/>
        <units name="mS_per_mm" units_ref="mS_per_mm"/>
        <units name="uA_per_mmsq" units_ref="uA_per_mmsq"/>
        <units name="uA_per_mmcu" units_ref="uA_per_mmcu"/>
        <units name="nC" units_ref="nC"/>
        <units name="uF" units_ref="uF"/>
        <units name="uF_per_mmsq" units_ref="uF_per_mmsq"/>
        <units name="mM" units_ref="mM"/>
        <units name="mM_per_ms" units_ref="mM_per_ms"/>
        <units name="nN" units_ref="nN"/>
        <units name="mPa" units_ref="mPa"/>
        <units name="pJ" units_ref="pJ"/>
        <units name="nW" units_ref="nW"/>
        <units name="per_ms" units_ref="per_ms"/>
        <units name="per_mm" units_ref="per_mm"/>
        <units name="per_mV" units_ref="per_mV"/>
        <units name="per_mV_per_ms" units_ref="per_mV_per_ms"/>
        <units name="per_mM_per_ms" units_ref="per_mM_per_ms"/>
        <units name="uA_per_mmsq_per_mM" units_ref="uA_per_mmsq_per_mM"/>
        <units name="mm_per_ms" units_ref="mm_per_ms"/>
        <units name="gas_constant" units_ref="gas_constant"/>
        <units name="faradays_constant" units_ref="faradays_constant"/>
        <units name="pA_per_pF" units_ref="pA_per_pF"/>
        <units name="nS_per_pF" units_ref="nS_per_pF"/>
        <units name="uF_per_cmsq" units_ref="uF_per_cmsq"/>
        <units name="um" units_ref="um"/>
        <units name="umsq" units_ref="umsq"/>
        <units name="umcu" units_ref="umcu"/>
        <units name="cmcu_per_uF_per_s" units_ref="cmcu_per_uF_per_s"/>
        <units name="mM_per_s" units_ref="mM_per_s"/>
        <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"/>
    </import>
    <connection>
        <map_components component_1="interface_component" component_2="time"/>
        <map_variables variable_1="time" variable_2="time"/>
    </connection>
    <connection>
        <map_components component_1="interface_component" component_2="stimulus_protocol"/>
        <map_variables variable_1="IStim" variable_2="IStim"/>
    </connection>
    <connection>
        <map_components component_1="interface_component" component_2="membrane"/>
        <map_variables variable_1="IStim" variable_2="I_stim"/>
        <map_variables variable_1="V" variable_2="V"/>
        <map_variables variable_1="V_initial" variable_2="V_initial"/>
        <map_variables variable_1="Cm" variable_2="Cm"/>
        <map_variables variable_1="time" variable_2="time"/>
        <map_variables variable_1="IStimC" variable_2="IStimC"/>
    </connection>
    <connection>
        <map_components component_1="interface_component" component_2="interface"/>
        <map_variables variable_1="IStim" variable_2="I_stim"/>
        <map_variables variable_1="g_K_add" variable_2="g_K_add"/>
        <map_variables variable_1="time" variable_2="time"/>
    </connection>
    <connection>
        <map_components component_1="interface_component" component_2="parameters"/>
        <map_variables variable_1="g_K_add" variable_2="g_K_add"/>
    </connection>
    <connection>
        <map_components component_1="interface_component" component_2="potassium_channel"/>
        <map_variables variable_1="g_K_add" variable_2="g_K_add"/>
        <map_variables variable_1="i_K" variable_2="i_K"/>
        <map_variables variable_1="g_K1" variable_2="g_K1"/>
        <map_variables variable_1="g_K2" variable_2="g_K2"/>
        <map_variables variable_1="time" variable_2="time"/>
    </connection>
    <connection>
        <map_components component_1="membrane" component_2="sodium_channel"/>
        <map_variables variable_1="V" variable_2="V"/>
        <map_variables variable_1="i_Na" variable_2="i_Na"/>
    </connection>
    <connection>
        <map_components component_1="membrane" component_2="sodium_channel_m_gate"/>
        <map_variables variable_1="V" variable_2="V"/>
    </connection>
    <connection>
        <map_components component_1="membrane" component_2="sodium_channel_h_gate"/>
        <map_variables variable_1="V" variable_2="V"/>
    </connection>
    <connection>
        <map_components component_1="membrane" component_2="potassium_channel"/>
        <map_variables variable_1="V" variable_2="V"/>
        <map_variables variable_1="i_K" variable_2="i_K"/>
    </connection>
    <connection>
        <map_components component_1="membrane" component_2="potassium_channel_n_gate"/>
        <map_variables variable_1="V" variable_2="V"/>
    </connection>
    <connection>
        <map_components component_1="membrane" component_2="leakage_current"/>
        <map_variables variable_1="V" variable_2="V"/>
        <map_variables variable_1="i_Leak" variable_2="i_Leak"/>
    </connection>
    <connection>
        <map_components component_1="interface_component" component_2="sodium_channel"/>
        <map_variables variable_1="i_Na" variable_2="i_Na"/>
        <map_variables variable_1="g_Na_max" variable_2="g_Na_max"/>
        <map_variables variable_1="g_Na" variable_2="g_Na"/>
        <map_variables variable_1="E_Na" variable_2="E_Na"/>
        <map_variables variable_1="time" variable_2="time"/>
    </connection>
    <connection>
        <map_components component_1="interface_component" component_2="sodium_channel_m_gate"/>
        <map_variables variable_1="m" variable_2="m"/>
        <map_variables variable_1="m_initial" variable_2="m_initial"/>
        <map_variables variable_1="alpha_m" variable_2="alpha_m"/>
        <map_variables variable_1="beta_m" variable_2="beta_m"/>
        <map_variables variable_1="time" variable_2="time"/>
    </connection>
    <connection>
        <map_components component_1="sodium_channel_m_gate" component_2="sodium_channel"/>
        <map_variables variable_1="m" variable_2="m"/>
    </connection>
    <connection>
        <map_components component_1="interface_component" component_2="sodium_channel_h_gate"/>
        <map_variables variable_1="h" variable_2="h"/>
        <map_variables variable_1="h_initial" variable_2="h_initial"/>
        <map_variables variable_1="alpha_h" variable_2="alpha_h"/>
        <map_variables variable_1="beta_h" variable_2="beta_h"/>
        <map_variables variable_1="time" variable_2="time"/>
    </connection>
    <connection>
        <map_components component_1="sodium_channel_h_gate" component_2="sodium_channel"/>
        <map_variables variable_1="h" variable_2="h"/>
    </connection>
    <connection>
        <map_components component_1="interface_component" component_2="potassium_channel_n_gate"/>
        <map_variables variable_1="n" variable_2="n"/>
        <map_variables variable_1="n_initial" variable_2="n_initial"/>
        <map_variables variable_1="alpha_n" variable_2="alpha_n"/>
        <map_variables variable_1="beta_n" variable_2="beta_n"/>
        <map_variables variable_1="time" variable_2="time"/>
    </connection>
    <connection>
        <map_components component_1="potassium_channel_n_gate" component_2="potassium_channel"/>
        <map_variables variable_1="n" variable_2="n"/>
    </connection>
    <connection>
        <map_components component_1="interface_component" component_2="leakage_current"/>
        <map_variables variable_1="i_Leak" variable_2="i_Leak"/>
        <map_variables variable_1="g_L" variable_2="g_L"/>
        <map_variables variable_1="E_L" variable_2="E_L"/>
        <map_variables variable_1="time" variable_2="time"/>
    </connection>
</model>