- Author:
- aram148 <a.rampadarath@auckland.ac.nz>
- Date:
- 2021-11-04 16:02:42+13:00
- Desc:
- Updated USMC-Bursztyn model
- Permanent Source URI:
- http://models.cellml.org/workspace/6b0/rawfile/4c1ab73f48d7150c2094cf8017425482a1594ccf/Airway_FTU/cellml2_version/experiments/hai.cellml
<model xmlns="http://www.cellml.org/cellml/2.0#" xmlns:cellml="http://www.cellml.org/cellml/2.0#" xmlns:xlink="http://www.w3.org/1999/xlink" name="hai" id="hai">
<units name="nanometre">
<unit prefix="nano" units="metre"/>
</units>
<units name="first_order_rate_constant">
<unit exponent="-1" units="second"/>
</units>
<component name="environment">
<variable name="time" units="second" interface="public"/>
</component>
<component name="M" id="M">
<variable initial_value="1.0" name="M" units="dimensionless" interface="public"/>
<variable name="AM" units="dimensionless" interface="public"/>
<variable name="Mp" units="dimensionless" interface="public"/>
<variable name="k1" units="first_order_rate_constant" interface="public"/>
<variable name="k2" units="first_order_rate_constant" interface="public"/>
<variable name="k7" units="first_order_rate_constant" interface="public"/>
<variable name="time" units="second" interface="public"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>M</ci>
</apply>
<apply>
<plus/>
<apply>
<times/>
<apply>
<minus/>
<ci>k1</ci>
</apply>
<ci>M</ci>
</apply>
<apply>
<times/>
<ci>k2</ci>
<ci>Mp</ci>
</apply>
<apply>
<times/>
<ci>k7</ci>
<ci>AM</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="Mp" id="Mp">
<variable initial_value="0.0" name="Mp" units="dimensionless" interface="public"/>
<variable name="AMp" units="dimensionless" interface="public"/>
<variable name="M" units="dimensionless" interface="public"/>
<variable name="k1" units="first_order_rate_constant" interface="public"/>
<variable name="k2" units="first_order_rate_constant" interface="public"/>
<variable name="k3" units="first_order_rate_constant" interface="public"/>
<variable name="k4" units="first_order_rate_constant" interface="public"/>
<variable name="time" units="second" interface="public"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>Mp</ci>
</apply>
<apply>
<minus/>
<apply>
<plus/>
<apply>
<times/>
<ci>k4</ci>
<ci>AMp</ci>
</apply>
<apply>
<times/>
<ci>k1</ci>
<ci>M</ci>
</apply>
</apply>
<apply>
<times/>
<apply>
<plus/>
<ci>k2</ci>
<ci>k3</ci>
</apply>
<ci>Mp</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="AMp" id="AMp">
<variable initial_value="0.0" name="AMp" units="dimensionless" interface="public"/>
<variable name="Mp" units="dimensionless" interface="public"/>
<variable name="AM" units="dimensionless" interface="public"/>
<variable name="k5" units="first_order_rate_constant" interface="public"/>
<variable name="k6" units="first_order_rate_constant" interface="public"/>
<variable name="k3" units="first_order_rate_constant" interface="public"/>
<variable name="k4" units="first_order_rate_constant" interface="public"/>
<variable name="time" units="second" interface="public"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>AMp</ci>
</apply>
<apply>
<minus/>
<apply>
<plus/>
<apply>
<times/>
<ci>k3</ci>
<ci>Mp</ci>
</apply>
<apply>
<times/>
<ci>k6</ci>
<ci>AM</ci>
</apply>
</apply>
<apply>
<times/>
<apply>
<plus/>
<ci>k5</ci>
<ci>k4</ci>
</apply>
<ci>AMp</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="AM" id="AM">
<variable initial_value="0.0" name="AM" units="dimensionless" interface="public"/>
<variable name="AMp" units="dimensionless" interface="public"/>
<variable name="k5" units="first_order_rate_constant" interface="public"/>
<variable name="k6" units="first_order_rate_constant" interface="public"/>
<variable name="k7" units="first_order_rate_constant" interface="public"/>
<variable name="time" units="second" interface="public"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>time</ci>
</bvar>
<ci>AM</ci>
</apply>
<apply>
<minus/>
<apply>
<times/>
<ci>k5</ci>
<ci>AMp</ci>
</apply>
<apply>
<times/>
<apply>
<plus/>
<ci>k6</ci>
<ci>k7</ci>
</apply>
<ci>AM</ci>
</apply>
</apply>
</apply>
</math>
</component>
<component name="phosphorylation" id="phosphorylation">
<variable name="phosphorylation" units="dimensionless"/>
<variable name="AMp" units="dimensionless" interface="public"/>
<variable name="Mp" units="dimensionless" interface="public"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>phosphorylation</ci>
<apply>
<plus/>
<ci>AMp</ci>
<ci>Mp</ci>
</apply>
</apply>
</math>
</component>
<component name="stress" id="stress">
<variable name="stress" units="dimensionless" interface="public"/>
<variable name="AMp" units="dimensionless" interface="public"/>
<variable name="AM" units="dimensionless" interface="public"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>stress</ci>
<apply>
<plus/>
<ci>AMp</ci>
<ci>AM</ci>
</apply>
</apply>
</math>
</component>
<component name="model_parameters">
<variable name="k1" units="first_order_rate_constant" interface="public"/>
<variable initial_value="0.5" name="k2" units="first_order_rate_constant" interface="public"/>
<variable initial_value="0.5" name="k5" units="first_order_rate_constant" interface="public"/>
<variable name="k6" units="first_order_rate_constant" interface="public"/>
<variable initial_value="0.4" name="k3" units="first_order_rate_constant" interface="public"/>
<variable initial_value="0.1" name="k4" units="first_order_rate_constant" interface="public"/>
<variable initial_value="0.01" name="k7" units="first_order_rate_constant" interface="public"/>
<variable name="time" units="second" interface="public"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply id="k1_calculation">
<eq/>
<ci>k1</ci>
<piecewise>
<piece>
<cn cellml:units="first_order_rate_constant">0.55</cn>
<apply>
<and/>
<apply>
<geq/>
<ci>time</ci>
<cn cellml:units="second">0.0</cn>
</apply>
<apply>
<lt/>
<ci>time</ci>
<cn cellml:units="second">5.0</cn>
</apply>
</apply>
</piece>
<otherwise>
<cn cellml:units="first_order_rate_constant">0.3</cn>
</otherwise>
</piecewise>
</apply>
<apply id="k6_calculation">
<eq/>
<ci>k6</ci>
<ci>k1</ci>
</apply>
</math>
</component>
<connection component_1="model_parameters" component_2="environment">
<map_variables variable_1="time" variable_2="time"/>
</connection>
<connection component_1="M" component_2="environment">
<map_variables variable_1="time" variable_2="time"/>
</connection>
<connection component_1="Mp" component_2="environment">
<map_variables variable_1="time" variable_2="time"/>
</connection>
<connection component_1="AMp" component_2="environment">
<map_variables variable_1="time" variable_2="time"/>
</connection>
<connection component_1="AM" component_2="environment">
<map_variables variable_1="time" variable_2="time"/>
</connection>
<connection component_1="M" component_2="model_parameters">
<map_variables variable_1="k7" variable_2="k7"/>
<map_variables variable_1="k1" variable_2="k1"/>
<map_variables variable_1="k2" variable_2="k2"/>
</connection>
<connection component_1="Mp" component_2="model_parameters">
<map_variables variable_1="k4" variable_2="k4"/>
<map_variables variable_1="k3" variable_2="k3"/>
<map_variables variable_1="k2" variable_2="k2"/>
<map_variables variable_1="k1" variable_2="k1"/>
</connection>
<connection component_1="AMp" component_2="model_parameters">
<map_variables variable_1="k5" variable_2="k5"/>
<map_variables variable_1="k6" variable_2="k6"/>
<map_variables variable_1="k4" variable_2="k4"/>
<map_variables variable_1="k3" variable_2="k3"/>
</connection>
<connection component_1="AM" component_2="model_parameters">
<map_variables variable_1="k5" variable_2="k5"/>
<map_variables variable_1="k6" variable_2="k6"/>
<map_variables variable_1="k7" variable_2="k7"/>
</connection>
<connection component_1="AM" component_2="M">
<map_variables variable_1="AM" variable_2="AM"/>
</connection>
<connection component_1="AM" component_2="AMp">
<map_variables variable_1="AMp" variable_2="AMp"/>
<map_variables variable_1="AM" variable_2="AM"/>
</connection>
<connection component_1="M" component_2="Mp">
<map_variables variable_1="M" variable_2="M"/>
<map_variables variable_1="Mp" variable_2="Mp"/>
</connection>
<connection component_1="Mp" component_2="AMp">
<map_variables variable_1="Mp" variable_2="Mp"/>
<map_variables variable_1="AMp" variable_2="AMp"/>
</connection>
<connection component_1="phosphorylation" component_2="AMp">
<map_variables variable_1="AMp" variable_2="AMp"/>
</connection>
<connection component_1="phosphorylation" component_2="Mp">
<map_variables variable_1="Mp" variable_2="Mp"/>
</connection>
<connection component_1="stress" component_2="AMp">
<map_variables variable_1="AMp" variable_2="AMp"/>
</connection>
<connection component_1="stress" component_2="AM">
<map_variables variable_1="AM" variable_2="AM"/>
</connection>
</model>
