- Author:
- David Nickerson <nickerso@users.sourceforge.net>
- Date:
- 2016-03-22 16:30:37+13:00
- Desc:
- tweak the rdf now that we know what works
- Permanent Source URI:
- https://models.physiomeproject.org/workspace/25d/rawfile/e5703023568b6c4320d43a3bddb4a7b0c13be5ed/Noble62_K_channel.cellml
<?xml version='1.0'?>
<model name="potassium_ion_channel" 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">
<import xlink:href="Noble62_units.cellml">
<units name="mV" units_ref="mV"/>
<units name="ms" units_ref="ms"/>
<units name="mM" units_ref="mM"/>
<units name="per_ms" units_ref="per_ms"/>
<units name="per_mV" units_ref="per_mV"/>
<units name="per_mV_ms" units_ref="per_mV_ms"/>
<units name="mS" units_ref="mS"/>
<units name="microA" units_ref="microA"/>
</import>
<!-- def comp environment as
var V: mV {pub: out};
var t: ms {pub: out};
V = sel
case (t > 5{ms}) and (t < 15{ms}):
-85.0{mV};
otherwise:
0.0{mV};
endsel;
enddef;-->
<group>
<relationship_ref relationship="encapsulation"/>
<component_ref component="potassium_channel">
<component_ref component="potassium_channel_n_gate"/>
</component_ref>
</group>
<component name="potassium_channel">
<variable name="V" private_interface="out" public_interface="in" units="mV"/>
<variable name="t" private_interface="out" public_interface="in" units="ms"/>
<variable name="n" private_interface="in" public_interface="out" units="dimensionless"/>
<variable name="Ki" public_interface="in" units="mM"/>
<variable name="Ko" public_interface="in" units="mM"/>
<variable initial_value="25" name="RTF" units="mV"/>
<variable name="E_K" units="mV"/>
<variable name="g_K1" public_interface="out" units="mS"/>
<variable name="g_K2" public_interface="out" units="mS"/>
<variable name="i_K" public_interface="out" units="microA"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>E_K</ci>
<apply>
<times/>
<ci>RTF</ci>
<apply>
<ln/>
<apply>
<divide/>
<ci>Ko</ci>
<ci>Ki</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>g_K1</ci>
<apply>
<plus/>
<apply>
<times/>
<cn cellml:units="mS">1.2</cn>
<apply>
<exp/>
<apply>
<divide/>
<apply>
<minus/>
<apply>
<plus/>
<ci>V</ci>
<cn cellml:units="mV">90</cn>
</apply>
</apply>
<cn cellml:units="mV">50</cn>
</apply>
</apply>
</apply>
<apply>
<times/>
<cn cellml:units="mS">0.015</cn>
<apply>
<exp/>
<apply>
<divide/>
<apply>
<plus/>
<ci>V</ci>
<cn cellml:units="mV">90</cn>
</apply>
<cn cellml:units="mV">60</cn>
</apply>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>g_K2</ci>
<apply>
<times/>
<cn cellml:units="mS">1.2</cn>
<apply>
<power/>
<ci>n</ci>
<cn cellml:units="dimensionless">4</cn>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>i_K</ci>
<apply>
<times/>
<apply>
<plus/>
<ci>g_K1</ci>
<ci>g_K2</ci>
</apply>
<apply>
<minus/>
<ci>V</ci>
<ci>E_K</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="potassium_channel_n_gate">
<variable name="V" public_interface="in" units="mV"/>
<variable name="t" public_interface="in" units="ms"/>
<variable initial_value="0.01" name="n" public_interface="out" units="dimensionless"/>
<variable name="alpha_n" units="per_ms"/>
<variable name="beta_n" units="per_ms"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>alpha_n</ci>
<apply>
<divide/>
<apply>
<times/>
<apply>
<minus/>
<cn cellml:units="per_mV_ms">0.0001</cn>
</apply>
<apply>
<plus/>
<ci>V</ci>
<cn cellml:units="mV">50</cn>
</apply>
</apply>
<apply>
<minus/>
<apply>
<exp/>
<apply>
<divide/>
<apply>
<minus/>
<apply>
<plus/>
<ci>V</ci>
<cn cellml:units="mV">50</cn>
</apply>
</apply>
<cn cellml:units="mV">10</cn>
</apply>
</apply>
<cn cellml:units="dimensionless">1</cn>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>beta_n</ci>
<apply>
<times/>
<cn cellml:units="per_ms">0.0020</cn>
<apply>
<exp/>
<apply>
<divide/>
<apply>
<minus/>
<apply>
<plus/>
<ci>V</ci>
<cn cellml:units="mV">90</cn>
</apply>
</apply>
<cn cellml:units="mV">80</cn>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>t</ci>
</bvar>
<ci>n</ci>
</apply>
<apply>
<minus/>
<apply>
<times/>
<ci>alpha_n</ci>
<apply>
<minus/>
<cn cellml:units="dimensionless">1</cn>
<ci>n</ci>
</apply>
</apply>
<apply>
<times/>
<ci>beta_n</ci>
<ci>n</ci>
</apply>
</apply>
</apply>
</math>
</component>
<!-- def map between environment and potassium_channel for
vars V and V;
vars t and t;
enddef;-->
<connection>
<map_components component_1="potassium_channel" component_2="potassium_channel_n_gate"/>
<map_variables variable_1="V" variable_2="V"/>
<map_variables variable_1="t" variable_2="t"/>
<map_variables variable_1="n" variable_2="n"/>
</connection>
<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="#id_000000001">
<isVersionOf xmlns="http://biomodels.net/biology-qualifiers/">
<rdf:Description xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:about="http://identifiers.org/go/GO:0008076"/>
</isVersionOf>
</rdf:Description>
<rdf:Description xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:about="#id_000000002">
<isVersionOf xmlns="http://biomodels.net/biology-qualifiers/">
<rdf:Description xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:about="http://identifiers.org/chebi/CHEBI:29103"/>
</isVersionOf>
</rdf:Description>
<rdf:Description xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:about="#id_000000003">
<isVersionOf xmlns="http://biomodels.net/biology-qualifiers/">
<rdf:Description xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" rdf:about="http://identifiers.org/chebi/CHEBI:29103"/>
</isVersionOf>
</rdf:Description>
</rdf:RDF>
</model>
