Location: BondGraph Basic @ 994dbbb88a76 / BG Tutorial Biochemical Systems / TMDD.cellml
- Author:
- Soroush <ssaf006@aucklanduni.ac.nz>
- Date:
- 2021-04-08 15:18:19+12:00
- Desc:
- modified svg
- Permanent Source URI:
- https://models.physiomeproject.org/workspace/43b/rawfile/994dbbb88a761fe3a62bfaf8352da94103650bb2/BG Tutorial Biochemical Systems/TMDD.cellml
<?xml version='1.0'?>
<model name="TMDD" xmlns="http://www.cellml.org/cellml/1.1#" xmlns:cellml="http://www.cellml.org/cellml/1.1#">
<units name="day">
<unit multiplier="21600" units="second"/>
</units>
<units name="l_per_day">
<unit units="litre"/>
<unit exponent="-1" units="day"/>
</units>
<units name="nmol_per_l">
<unit prefix="nano" units="mole"/>
<unit exponent="-1" units="litre"/>
</units>
<units name="per_nmol_per_l_day">
<unit exponent="-1" units="nmol_per_l"/>
<unit exponent="-1" units="day"/>
</units>
<units name="nmol_per_l_day">
<unit units="nmol_per_l"/>
<unit exponent="-1" units="day"/>
</units>
<units name="nmol">
<unit prefix="nano" units="mole"/>
</units>
<units name="per_day">
<unit exponent="-1" units="day"/>
</units>
<component name="state">
<variable name="t" units="day"/>
<!-- State variables-->
<variable name="C_tot" units="nmol_per_l"/>
<variable name="R_tot" units="nmol_per_l"/>
<variable initial_value="0.0" name="A_d" units="nmol"/>
<variable initial_value="0.0" name="A_t" units="nmol"/>
<variable initial_value="33.3" name="C" units="nmol_per_l"/>
<variable initial_value="5" name="R" units="nmol_per_l"/>
<variable initial_value="0.0" name="RC" units="nmol_per_l"/>
<!-- Parameters-->
<variable initial_value="100" name="Dose" units="nmol"/>
<variable initial_value="0.45" name="Q" units="l_per_day"/>
<variable initial_value="0.15" name="CL" units="l_per_day"/>
<variable initial_value="0.6" name="F_SC" units="dimensionless"/>
<variable initial_value="1.0" name="k_abs" units="per_day"/>
<variable initial_value="8.0" name="k_on" units="per_nmol_per_l_day"/>
<variable initial_value="8.0" name="k_off" units="per_day"/>
<variable initial_value="1" name="k_syn" units="nmol_per_l_day"/>
<variable initial_value="0.2" name="k_deg" units="per_day"/>
<variable initial_value="0.04" name="k_int" units="per_day"/>
<variable initial_value="3.0" name="V_c" units="litre"/>
<variable initial_value="3.0" name="V_p" units="litre"/>
<variable name="k_elim" units="per_day"/>
<variable name="k_pt" units="per_day"/>
<variable name="k_tp" units="per_day"/>
<!-- State equations-->
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>t</ci>
</bvar>
<ci>A_d</ci>
</apply>
<apply>
<times/>
<apply>
<minus/>
<ci>k_abs</ci>
</apply>
<ci>A_d</ci>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>t</ci>
</bvar>
<ci>A_t</ci>
</apply>
<apply>
<minus/>
<apply>
<times/>
<ci>k_pt</ci>
<ci>C</ci>
<ci>V_c</ci>
</apply>
<apply>
<times/>
<ci>k_tp</ci>
<ci>A_t</ci>
</apply>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>t</ci>
</bvar>
<ci>R</ci>
</apply>
<apply>
<plus/>
<apply>
<minus/>
<apply>
<minus/>
<ci>k_syn</ci>
<apply>
<times/>
<ci>k_deg</ci>
<ci>R</ci>
</apply>
</apply>
<apply>
<times/>
<ci>k_on</ci>
<ci>C</ci>
<ci>R</ci>
</apply>
</apply>
<apply>
<times/>
<ci>k_off</ci>
<ci>RC</ci>
</apply>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>t</ci>
</bvar>
<ci>RC</ci>
</apply>
<apply>
<minus/>
<apply>
<times/>
<ci>k_on</ci>
<ci>C</ci>
<ci>R</ci>
</apply>
<apply>
<times/>
<apply>
<plus/>
<ci>k_int</ci>
<ci>k_off</ci>
</apply>
<ci>RC</ci>
</apply>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>t</ci>
</bvar>
<ci>C</ci>
</apply>
<apply>
<plus/>
<apply>
<minus/>
<apply>
<minus/>
<apply>
<divide/>
<apply>
<times/>
<ci>k_abs</ci>
<ci>A_d</ci>
</apply>
<ci>V_c</ci>
</apply>
<apply>
<times/>
<apply>
<plus/>
<ci>k_elim</ci>
<ci>k_pt</ci>
</apply>
<ci>C</ci>
</apply>
</apply>
<apply>
<times/>
<ci>k_on</ci>
<ci>C</ci>
<ci>R</ci>
</apply>
</apply>
<apply>
<times/>
<ci>k_off</ci>
<ci>RC</ci>
</apply>
<apply>
<divide/>
<apply>
<times/>
<ci>k_tp</ci>
<ci>A_t</ci>
</apply>
<ci>V_c</ci>
</apply>
</apply>
</apply>
<!-- Parameters equations-->
<apply>
<eq/>
<ci>k_elim</ci>
<apply>
<divide/>
<ci>CL</ci>
<ci>V_c</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>k_tp</ci>
<apply>
<divide/>
<ci>Q</ci>
<ci>V_p</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>k_pt</ci>
<apply>
<divide/>
<ci>Q</ci>
<ci>V_c</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>C_tot</ci>
<apply>
<plus/>
<ci>C</ci>
<ci>RC</ci>
</apply>
</apply>
<apply>
<eq/>
<ci>R_tot</ci>
<apply>
<plus/>
<ci>R</ci>
<ci>RC</ci>
</apply>
</apply>
</math>
</component>
</model>