- Author:
- Weiwei Ai <wai484@aucklanduni.ac.nz>
- Date:
- 2024-04-08 18:20:16+12:00
- Desc:
- clean up; correct the cell volume to 0.09 pL; remove the param convertion equations in cellml; use python to do the conversion;
- Permanent Source URI:
- http://models.cellml.org/workspace/b65/rawfile/d36dca3e6ed80f08a478e14a9be7695786950d7e/Facilitated transporter/CellMLV2/params_BG_fit.cellml
<?xml version="1.0" encoding="UTF-8"?>
<model xmlns="http://www.cellml.org/cellml/2.0#" name="params_BG">
<import xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="units.cellml">
<units units_ref="fmol_per_s" name="fmol_per_s"/>
<units units_ref="J_per_K_mol" name="J_per_K_mol"/>
<units units_ref="per_fmol" name="per_fmol"/>
<units units_ref="fmol" name="fmol"/>
<units units_ref="per_s" name="per_s"/>
<units units_ref="pL" name="pL"/>
<units units_ref="uM" name="uM"/>
<units units_ref="mM" name="mM"/>
</import>
<units name="per_s_mM">
<unit exponent="-1" units="mM"/>
<unit units="per_s"/>
</units>
<units name="amol">
<unit prefix="atto" units="mole"/>
</units>
<component name="params_BG">
<variable name="R" units="J_per_K_mol" initial_value="8.31" interface="public"/>
<variable name="T" units="kelvin" initial_value="273.15" interface="public"/>
<variable name="K_Ai" units="per_fmol" interface="public"/>
<variable name="q_init_Ai" units="fmol" interface="public"/>
<variable name="K_Ao" units="per_fmol" interface="public"/>
<variable name="q_init_Ao" units="fmol" interface="public"/>
<variable name="K_1" units="per_fmol" initial_value="3.1884880343642372" interface="public"/>
<variable name="q_init_1" units="fmol" initial_value="0.1501" interface="public"/>
<variable name="K_2" units="per_fmol" interface="public"/>
<variable name="q_init_2" units="fmol" initial_value="0.1501" interface="public"/>
<variable name="K_3" units="per_fmol" initial_value="88.67545336743224" interface="public"/>
<variable name="q_init_3" units="fmol" initial_value="0.1501" interface="public"/>
<variable name="K_4" units="per_fmol" interface="public"/>
<variable name="q_init_4" units="fmol" initial_value="0.1501" interface="public"/>
<variable name="kappa_r1" units="fmol_per_s" interface="public"/>
<variable name="kappa_r2" units="fmol_per_s" interface="public"/>
<variable name="kappa_r3" units="fmol_per_s" interface="public"/>
<variable name="kappa_r4" units="fmol_per_s" interface="public"/>
<variable name="c" units="per_s" initial_value="1113"/>
<variable name="d" units="per_s" initial_value="90.3"/>
<variable name="g" units="per_s" initial_value="12.1"/>
<variable name="h" units="per_s" initial_value="0.726"/>
<variable name="a" units="per_s_mM" initial_value="45000"/>
<variable name="b" units="per_s"/>
<variable name="e0" units="per_s"/>
<variable name="f" units="per_s_mM" initial_value="270"/>
<variable name="E" units="fmol" interface="public"/>
<variable name="GC" units="uM" initial_value="6.67"/>
<variable name="V_i" units="pL" initial_value="90"/>
<variable name="g_i" units="mM" initial_value="10"/>
<variable name="g_o" units="mM" initial_value="1e-8"/>
<variable name="V_o" units="pL" initial_value="90" interface="public"/>
<math xmlns="http://www.w3.org/1998/Math/MathML" xmlns:cellml="http://www.cellml.org/cellml/2.0#">
<apply>
<eq/>
<ci>K_2</ci>
<apply>
<divide/>
<apply>
<times/>
<ci>K_3</ci>
<ci>c</ci>
</apply>
<ci>d</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>K_4</ci>
<apply>
<divide/>
<apply>
<times/>
<ci>K_1</ci>
<ci>h</ci>
</apply>
<ci>g</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>K_Ao</ci>
<apply>
<divide/>
<apply>
<times/>
<apply>
<divide/>
<ci>K_2</ci>
<apply>
<times/>
<ci>K_1</ci>
<ci>V_o</ci>
</apply>
</apply>
<ci>a</ci>
</apply>
<ci>b</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>b</ci>
<apply>
<times/>
<cn cellml:units="mM">9.5</cn>
<ci>a</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>e0</ci>
<apply>
<times/>
<cn cellml:units="mM">12.8459</cn>
<ci>f</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>K_Ai</ci>
<ci>K_Ao</ci>
</apply>
<apply>
<eq/>
<ci>kappa_r1</ci>
<apply>
<divide/>
<ci>h</ci>
<ci>K_4</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>kappa_r2</ci>
<apply>
<divide/>
<ci>c</ci>
<ci>K_2</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>kappa_r3</ci>
<apply>
<divide/>
<ci>b</ci>
<ci>K_2</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>kappa_r4</ci>
<apply>
<divide/>
<ci>e0</ci>
<ci>K_3</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>E</ci>
<apply>
<divide/>
<apply>
<times/>
<ci>GC</ci>
<ci>V_i</ci>
<cn cellml:units="fmol">1</cn>
</apply>
<cn cellml:units="amol">1000</cn>
</apply>
</apply>
<apply>
<eq/>
<ci>q_init_Ao</ci>
<apply>
<times/>
<ci>g_o</ci>
<ci>V_o</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>q_init_Ai</ci>
<apply>
<times/>
<ci>g_i</ci>
<ci>V_i</ci>
</apply>
</apply>
</math>
</component>
</model>
