- Author:
- Leyla <noroozbabaee@gmail.com>
- Date:
- 2021-10-11 15:58:15+13:00
- Desc:
- The final version of Imtiaz model ready for curation.
- Permanent Source URI:
- https://models.fieldml.org/workspace/763/rawfile/d42ef5a082ba250a7078b4a897abdf19ce5ff033/Experiment/IP3_Imtiaz_Modified.cellml
<?xml version='1.0' encoding='UTF-8'?>
<model name="IP3_Imtiaz_Modified" xmlns="http://www.cellml.org/cellml/1.1#" xmlns:cellml="http://www.cellml.org/cellml/1.1#">
<units name="millimolar">
<unit prefix="milli" units="mole"/>
<unit exponent="-1" units="litre"/>
</units>
<units name="time_units">
<unit prefix="milli" units="second"/>
</units>
<units name="per_time_units">
<unit exponent="-1" units="time_units"/>
</units>
<units name="millimolar_per_time_units">
<unit units="per_time_units"/>
<unit units="millimolar"/>
</units>
<units name="conductance_units">
<unit prefix="nano" units="siemens"/>
</units>
<units name="current_units">
<unit units="voltage_units"/>
<unit units="conductance_units"/>
</units>
<units name="voltage_units">
<unit prefix="milli" units="volt"/>
</units>
<units name="capacitance_units">
<unit prefix="pico" units="farad"/>
</units>
<component name="Time">
<variable name="time" private_interface="out" public_interface="out" units="time_units"/>
</component>
<component name="vm">
<variable initial_value="-65.09" name="v_init" units="voltage_units"/>
<variable initial_value="v_init" name="vm" private_interface="out" units="voltage_units"/>
<variable initial_value="17" name="cm" units="capacitance_units"/>
<variable name="time" private_interface="out" public_interface="in" units="time_units"/>
<variable name="I_ca" private_interface="in" units="current_units"/>
<variable name="I_i" private_interface="in" units="current_units"/>
<variable name="I_stim" units="current_units"/>
<variable initial_value="0" name="I_clamp0" units="current_units"/>
<variable initial_value="0" name="I_clamp1" units="current_units"/>
<variable initial_value="0" name="I_clamp2" units="current_units"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>I_stim</ci>
<piecewise>
<piece>
<ci>I_clamp0</ci>
<apply>
<leq/>
<ci>time</ci>
<cn cellml:units="time_units">100000</cn>
</apply>
</piece>
<piece>
<ci>I_clamp1</ci>
<apply>
<and/>
<apply>
<gt/>
<ci>time</ci>
<cn cellml:units="time_units">100000</cn>
</apply>
<apply>
<leq/>
<ci>time</ci>
<cn cellml:units="time_units">200000</cn>
</apply>
</apply>
</piece>
<piece>
<ci>I_clamp2</ci>
<apply>
<and/>
<apply>
<gt/>
<ci>time</ci>
<cn cellml:units="time_units">200000</cn>
</apply>
<apply>
<leq/>
<ci>time</ci>
<cn cellml:units="time_units">300000</cn>
</apply>
</apply>
</piece>
<otherwise>
<cn cellml:units="dimensionless">0</cn>
</otherwise>
</piecewise>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>vm</ci>
</apply>
<apply>
<divide/>
<apply>
<minus/>
<apply>
<minus/>
<apply>
<plus/>
<ci>I_ca</ci>
<ci>I_i</ci>
</apply>
<ci>I_stim</ci>
</apply>
</apply>
<ci>cm</ci>
</apply>
</apply>
</math>
</component>
<component name="I_i">
<variable name="I_i" public_interface="out" units="current_units"/>
<variable name="z" private_interface="out" public_interface="in" units="millimolar"/>
<variable initial_value="-67.2" name="Ei" units="voltage_units"/>
<variable initial_value="1.12" name="g_i" units="conductance_units"/>
<variable name="vm" private_interface="out" public_interface="in" units="voltage_units"/>
<variable name="time" private_interface="out" public_interface="in" units="time_units"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>I_i</ci>
<apply>
<times/>
<ci>g_i</ci>
<apply>
<minus/>
<ci>vm</ci>
<ci>Ei</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="I_ca">
<variable name="I_ca" public_interface="out" units="current_units"/>
<variable name="z" public_interface="in" units="millimolar"/>
<variable initial_value="-20" name="Eca" units="voltage_units"/>
<variable initial_value="4" name="g_m_ca" units="conductance_units"/>
<variable initial_value="4" name="q" units="dimensionless"/>
<variable initial_value="1.4" name="kca" units="millimolar"/>
<variable name="vm" private_interface="out" public_interface="in" units="voltage_units"/>
<variable name="g_ca" units="conductance_units"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>g_ca</ci>
<apply>
<divide/>
<apply>
<times/>
<ci>g_m_ca</ci>
<apply>
<power/>
<ci>z</ci>
<ci>q</ci>
</apply>
</apply>
<apply>
<plus/>
<apply>
<power/>
<ci>kca</ci>
<ci>q</ci>
</apply>
<apply>
<power/>
<ci>z</ci>
<ci>q</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>I_ca</ci>
<apply>
<times/>
<ci>g_ca</ci>
<apply>
<minus/>
<ci>vm</ci>
<ci>Eca</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="ca">
<variable initial_value="4.439" name="z_init" units="millimolar"/>
<variable initial_value="z_init" name="z" public_interface="out" units="millimolar"/>
<variable initial_value="0.475" name="y_init" units="millimolar"/>
<variable initial_value="y_init" name="y" public_interface="out" units="millimolar"/>
<variable initial_value="0.397" name="p_ip3_init" units="millimolar"/>
<variable initial_value="p_ip3_init" name="p_ip3" public_interface="out" units="millimolar"/>
<variable name="time" public_interface="in" units="time_units"/>
<variable name="vm" private_interface="out" public_interface="in" units="voltage_units"/>
<variable initial_value="0.0002042" name="v0" units="millimolar_per_time_units"/>
<variable initial_value="0.0002042" name="v1" units="per_time_units"/>
<variable initial_value="0.003" name="vm2" units="millimolar_per_time_units"/>
<variable initial_value="2" name="n" units="dimensionless"/>
<variable initial_value="1" name="k2" units="millimolar"/>
<variable initial_value="0.39" name="vm3" units="millimolar_per_time_units"/>
<variable initial_value="4" name="w" units="dimensionless"/>
<variable initial_value="0.9" name="ka" units="millimolar"/>
<variable initial_value="4" name="m" units="dimensionless"/>
<variable initial_value="2" name="kr" units="millimolar"/>
<variable initial_value="4" name="o" units="dimensionless"/>
<variable initial_value="0.65" name="kp" units="millimolar"/>
<variable name="vin" units="millimolar_per_time_units"/>
<variable name="v2" units="millimolar_per_time_units"/>
<variable name="v3" units="millimolar_per_time_units"/>
<variable initial_value="0.00006" name="kf" units="per_time_units"/>
<variable initial_value="0.0006" name="K" units="per_time_units"/>
<variable initial_value="0.0048" name="b_ip3" units="millimolar_per_time_units"/>
<variable initial_value="0.054" name="eps_ip3" units="per_time_units"/>
<!--not data from table, 0.058 for second figure* 0.054 for second figure-->
<variable initial_value="0.00012" name="vm4" units="millimolar_per_time_units"/>
<variable initial_value="0.5" name="k4" units="millimolar"/>
<variable initial_value="8" name="u" units="dimensionless"/>
<variable initial_value="0.0274" name="p_mv" units="millimolar_per_time_units"/>
<!--not data from table DIRECTLY CHANGE vm VOLTAGE-->
<variable initial_value="-58" name="kv" units="voltage_units"/>
<variable initial_value="8" name="r" units="dimensionless"/>
<variable name="pv" units="millimolar_per_time_units"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>pv</ci>
<apply>
<times/>
<ci>p_mv</ci>
<apply>
<minus/>
<cn cellml:units="dimensionless">1</cn>
<apply>
<divide/>
<apply>
<power/>
<ci>vm</ci>
<ci>r</ci>
</apply>
<apply>
<plus/>
<apply>
<power/>
<ci>kv</ci>
<ci>r</ci>
</apply>
<apply>
<power/>
<ci>vm</ci>
<ci>r</ci>
</apply>
</apply>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>vin</ci>
<apply>
<plus/>
<ci>v0</ci>
<apply>
<times/>
<ci>v1</ci>
<ci>p_ip3</ci>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>v2</ci>
<apply>
<divide/>
<apply>
<times/>
<ci>vm2</ci>
<apply>
<power/>
<ci>z</ci>
<ci>n</ci>
</apply>
</apply>
<apply>
<plus/>
<apply>
<power/>
<ci>k2</ci>
<ci>n</ci>
</apply>
<apply>
<power/>
<ci>z</ci>
<ci>n</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<ci>v3</ci>
<apply>
<divide/>
<apply>
<times/>
<apply>
<divide/>
<apply>
<times/>
<apply>
<divide/>
<apply>
<times/>
<ci>vm3</ci>
<apply>
<power/>
<ci>z</ci>
<ci>w</ci>
</apply>
</apply>
<apply>
<plus/>
<apply>
<power/>
<ci>ka</ci>
<ci>w</ci>
</apply>
<apply>
<power/>
<ci>z</ci>
<ci>w</ci>
</apply>
</apply>
</apply>
<apply>
<power/>
<ci>y</ci>
<ci>m</ci>
</apply>
</apply>
<apply>
<plus/>
<apply>
<power/>
<ci>kr</ci>
<ci>m</ci>
</apply>
<apply>
<power/>
<ci>y</ci>
<ci>m</ci>
</apply>
</apply>
</apply>
<apply>
<power/>
<ci>p_ip3</ci>
<ci>o</ci>
</apply>
</apply>
<apply>
<plus/>
<apply>
<power/>
<ci>kp</ci>
<ci>o</ci>
</apply>
<apply>
<power/>
<ci>p_ip3</ci>
<ci>o</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>p_ip3</ci>
</apply>
<apply>
<plus/>
<apply>
<minus/>
<apply>
<minus/>
<ci>b_ip3</ci>
<apply>
<times/>
<ci>eps_ip3</ci>
<ci>p_ip3</ci>
</apply>
</apply>
<apply>
<divide/>
<apply>
<times/>
<ci>vm4</ci>
<apply>
<power/>
<ci>p_ip3</ci>
<ci>u</ci>
</apply>
</apply>
<apply>
<plus/>
<apply>
<power/>
<ci>k4</ci>
<ci>u</ci>
</apply>
<apply>
<power/>
<ci>p_ip3</ci>
<ci>u</ci>
</apply>
</apply>
</apply>
</apply>
<apply>
<times/>
<cn cellml:units="dimensionless">1</cn>
<ci>pv</ci>
</apply>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>y</ci>
</apply>
<apply>
<minus/>
<apply>
<minus/>
<ci>v2</ci>
<ci>v3</ci>
</apply>
<apply>
<times/>
<ci>kf</ci>
<ci>y</ci>
</apply>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>z</ci>
</apply>
<apply>
<minus/>
<apply>
<plus/>
<apply>
<minus/>
<ci>vin</ci>
<ci>v2</ci>
</apply>
<ci>v3</ci>
<apply>
<times/>
<ci>kf</ci>
<ci>y</ci>
</apply>
</apply>
<apply>
<times/>
<ci>K</ci>
<ci>z</ci>
</apply>
</apply>
</apply>
</math>
</component>
<group>
<relationship_ref relationship="encapsulation"/>
<component_ref component="vm">
<component_ref component="I_ca"/>
<component_ref component="ca"/>
</component_ref>
</group>
<connection>
<map_components component_1="I_i" component_2="vm"/>
<map_variables variable_1="vm" variable_2="vm"/>
<map_variables variable_1="I_i" variable_2="I_i"/>
<map_variables variable_1="time" variable_2="time"/>
</connection>
<connection>
<map_components component_1="I_i" component_2="ca"/>
<map_variables variable_1="z" variable_2="z"/>
</connection>
<connection>
<map_components component_1="I_ca" component_2="vm"/>
<map_variables variable_1="vm" variable_2="vm"/>
<map_variables variable_1="I_ca" variable_2="I_ca"/>
</connection>
<connection>
<map_components component_1="I_ca" component_2="ca"/>
<map_variables variable_1="z" variable_2="z"/>
</connection>
<connection>
<map_components component_1="ca" component_2="vm"/>
<map_variables variable_1="vm" variable_2="vm"/>
<map_variables variable_1="time" variable_2="time"/>
</connection>
<connection>
<map_components component_1="Time" component_2="vm"/>
<map_variables variable_1="time" variable_2="time"/>
</connection>
</model>
