- Author:
- David Nickerson <nickerso@users.sourceforge.net>
- Date:
- 2016-03-17 21:39:31+13:00
- Desc:
- adding SED-ML for the Hodgkin-Huxley sodium current example
- Permanent Source URI:
- http://models.cellml.org/workspace/25d/rawfile/46ffa273c788e9de16b17d8da5bc1cea2e6f4f9a/Noble62_Na_channel.cellml
<?xml version='1.0'?>
<model name="sodium_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}):
0.0{mV};
otherwise:
-85.0{mV};
endsel;
enddef;-->
<group>
<relationship_ref relationship="encapsulation"/>
<component_ref component="sodium_channel">
<component_ref component="sodium_channel_m_gate"/>
<component_ref component="sodium_channel_h_gate"/>
</component_ref>
</group>
<component name="sodium_channel">
<variable name="V" private_interface="out" public_interface="in" units="mV"/>
<variable name="t" private_interface="out" public_interface="in" units="ms"/>
<variable initial_value="400" name="g_Na_max" units="mS"/>
<variable name="g_Na" public_interface="out" units="mS"/>
<variable name="E_Na" units="mV"/>
<variable name="m" private_interface="in" public_interface="out" units="dimensionless"/>
<variable name="h" private_interface="in" public_interface="out" units="dimensionless"/>
<variable name="Nai" public_interface="in" units="mM"/>
<variable name="Nao" public_interface="in" units="mM"/>
<variable initial_value="25" name="RTF" units="mV"/>
<variable name="i_Na" public_interface="out" units="microA"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>E_Na</ci>
<apply>
<times/>
<ci>RTF</ci>
<apply>
<ln/>
<apply>
<divide/>
<ci>Nao</ci>
<ci>Nai</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>g_Na</ci>
<apply>
<times/>
<apply>
<power/>
<ci>m</ci>
<cn cellml:units="dimensionless">3</cn>
</apply>
<ci>h</ci>
<ci>g_Na_max</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>i_Na</ci>
<apply>
<times/>
<apply>
<plus/>
<ci>g_Na</ci>
<cn cellml:units="mS">0.14</cn>
</apply>
<apply>
<minus/>
<ci>V</ci>
<ci>E_Na</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="sodium_channel_m_gate">
<variable name="V" public_interface="in" units="mV"/>
<variable name="t" public_interface="in" units="ms"/>
<variable initial_value="0.01" name="m" public_interface="out" units="dimensionless"/>
<variable name="alpha_m" units="per_ms"/>
<variable name="beta_m" units="per_ms"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>alpha_m</ci>
<apply>
<divide/>
<apply>
<times/>
<apply>
<minus/>
<cn cellml:units="per_mV_ms">0.10</cn>
</apply>
<apply>
<plus/>
<ci>V</ci>
<cn cellml:units="mV">48</cn>
</apply>
</apply>
<apply>
<minus/>
<apply>
<exp/>
<apply>
<divide/>
<apply>
<minus/>
<apply>
<plus/>
<ci>V</ci>
<cn cellml:units="mV">48</cn>
</apply>
</apply>
<cn cellml:units="mV">15</cn>
</apply>
</apply>
<cn cellml:units="dimensionless">1</cn>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>beta_m</ci>
<apply>
<divide/>
<apply>
<times/>
<cn cellml:units="per_mV_ms">0.12</cn>
<apply>
<plus/>
<ci>V</ci>
<cn cellml:units="mV">8</cn>
</apply>
</apply>
<apply>
<minus/>
<apply>
<exp/>
<apply>
<divide/>
<apply>
<plus/>
<ci>V</ci>
<cn cellml:units="mV">8</cn>
</apply>
<cn cellml:units="mV">5</cn>
</apply>
</apply>
<cn cellml:units="dimensionless">1</cn>
</apply>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>t</ci>
</bvar>
<ci>m</ci>
</apply>
<apply>
<minus/>
<apply>
<times/>
<ci>alpha_m</ci>
<apply>
<minus/>
<cn cellml:units="dimensionless">1</cn>
<ci>m</ci>
</apply>
</apply>
<apply>
<times/>
<ci>beta_m</ci>
<ci>m</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="sodium_channel_h_gate">
<variable name="V" public_interface="in" units="mV"/>
<variable name="t" public_interface="in" units="ms"/>
<variable initial_value="0.8" name="h" public_interface="out" units="dimensionless"/>
<variable name="alpha_h" units="per_ms"/>
<variable name="beta_h" units="per_ms"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>alpha_h</ci>
<apply>
<times/>
<cn cellml:units="per_ms">0.17</cn>
<apply>
<exp/>
<apply>
<divide/>
<apply>
<minus/>
<apply>
<plus/>
<ci>V</ci>
<cn cellml:units="mV">90</cn>
</apply>
</apply>
<cn cellml:units="mV">20</cn>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>beta_h</ci>
<apply>
<divide/>
<cn cellml:units="per_ms">1.00</cn>
<apply>
<plus/>
<cn cellml:units="dimensionless">1</cn>
<apply>
<exp/>
<apply>
<divide/>
<apply>
<minus/>
<apply>
<plus/>
<ci>V</ci>
<cn cellml:units="mV">42</cn>
</apply>
</apply>
<cn cellml:units="mV">10</cn>
</apply>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>t</ci>
</bvar>
<ci>h</ci>
</apply>
<apply>
<minus/>
<apply>
<times/>
<ci>alpha_h</ci>
<apply>
<minus/>
<cn cellml:units="dimensionless">1</cn>
<ci>h</ci>
</apply>
</apply>
<apply>
<times/>
<ci>beta_h</ci>
<ci>h</ci>
</apply>
</apply>
</apply>
</math>
</component>
<!-- def map between environment and sodium_channel for
vars V and V;
vars t and t;
enddef;-->
<connection>
<map_components component_1="sodium_channel" component_2="sodium_channel_m_gate"/>
<map_variables variable_1="V" variable_2="V"/>
<map_variables variable_1="t" variable_2="t"/>
<map_variables variable_1="m" variable_2="m"/>
</connection>
<connection>
<map_components component_1="sodium_channel" component_2="sodium_channel_h_gate"/>
<map_variables variable_1="V" variable_2="V"/>
<map_variables variable_1="t" variable_2="t"/>
<map_variables variable_1="h" variable_2="h"/>
</connection>
</model>
