- Author:
- Tommy Yu <tommy.yu@auckland.ac.nz>
- Date:
- 2015-02-12 19:28:32+13:00
- Desc:
- Merging to remove the extra head
- Since the title is changed and in the interest of maintaining the
current structure we keep it as is.
- Permanent Source URI:
- https://staging.physiomeproject.org/w/matthiaskoenig/MetabolicComponentLibrary/rawfile/e0e2c28e2dfdfe37ea2cae3390a6ae26c28a3393/examples/Example_MassAction_3.cellml
<?xml version="1.0"?>
<!--
--><model xmlns="http://www.cellml.org/cellml/1.1#" xmlns:cmeta="http://www.cellml.org/metadata/1.1#" cmeta:id="Example_MassAction_3" name="Example_MassAction_3">
<import xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="MetabolicComponentLibrary-v0.1.cellml">
<component component_ref="MassActionUniUniRev" name="R1_MassActionUniUniRev"/>
<component component_ref="MassActionBiIrrev" name="R2_MassActionBiIrrev"/>
<component component_ref="MassActionUniBiRev" name="R3_MassActionUniBiRev"/>
<component component_ref="MassActionUniIrrev" name="R4_MassActionUniIrrev"/>
<units name="mM" units_ref="mM"/><units name="per_second" units_ref="per_second"/>
<units name="mM_per_second" units_ref="mM_per_second"/>
<units name="per_mM_per_second" units_ref="per_mM_per_second"/>
<units name="per_mM" units_ref="per_mM"/>
</import>
<component name="Network">
<variable name="t" units="second"/>
<variable name="v1" public_interface="in" units="mM_per_second"/>
<variable name="v2" public_interface="in" units="mM_per_second"/>
<variable name="v3" public_interface="in" units="mM_per_second"/>
<variable name="v4" public_interface="in" units="mM_per_second"/>
<variable initial_value="1" name="A_ex" public_interface="out" units="mM"/>
<variable initial_value="0" name="A" public_interface="out" units="mM"/>
<variable initial_value="0" name="B" public_interface="out" units="mM"/>
<variable initial_value="0" name="B_ex" public_interface="out" units="mM"/>
<variable initial_value="0" name="C" public_interface="out" units="mM"/>
<variable initial_value="0.5" name="D" public_interface="out" units="mM"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>t</ci>
</bvar>
<ci>A_ex</ci>
</apply>
<apply>
<minus/>
<ci>v1</ci>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>t</ci>
</bvar>
<ci>A</ci>
</apply>
<apply>
<minus/>
<ci>v1</ci>
<ci>v2</ci>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>t</ci>
</bvar>
<ci>B</ci>
</apply>
<apply>
<minus/>
<ci>v3</ci>
<ci>v4</ci>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>t</ci>
</bvar>
<ci>B_ex</ci>
</apply>
<ci>v4</ci>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>t</ci>
</bvar>
<ci>C</ci>
</apply>
<apply>
<minus/>
<ci>v2</ci>
<ci>v3</ci>
</apply>
</apply>
</math>
</component>
<component name="Reaction_1">
<variable name="v1" private_interface="in" public_interface="out" units="mM_per_second"/>
<variable name="A_ex" private_interface="out" public_interface="in" units="mM"/>
<variable name="A" private_interface="out" public_interface="in" units="mM"/>
<variable name="k_f" private_interface="out" units="per_second"/>
<variable name="k_b" private_interface="out" units="per_second"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>k_f</ci>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.1#" cellml:units="per_second">10</cn>
</apply>
<apply>
<eq/>
<ci>k_b</ci>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.1#" cellml:units="per_second">3</cn>
</apply>
</math>
</component>
<component name="Reaction_2">
<variable name="v2" private_interface="in" public_interface="out" units="mM_per_second"/>
<variable name="A" private_interface="out" public_interface="in" units="mM"/>
<variable name="D" private_interface="out" public_interface="in" units="mM"/>
<variable name="k_f" private_interface="out" units="per_mM_per_second"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>k_f</ci>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.1#" cellml:units="per_second">8</cn>
</apply>
</math>
</component>
<component name="Reaction_3">
<variable name="v3" private_interface="in" public_interface="out" units="mM_per_second"/>
<variable name="C" private_interface="out" public_interface="in" units="mM"/>
<variable name="D" private_interface="out" public_interface="in" units="mM"/>
<variable name="B" private_interface="out" public_interface="in" units="mM"/>
<variable name="k_f" private_interface="out" units="per_second"/>
<variable name="k_b" private_interface="out" units="per_mM_per_second"/>
<math xmlns="http://www.w3.org/1998/Math/MathML"><apply><eq/><ci>k_f</ci><cn xmlns:cellml="http://www.cellml.org/cellml/1.1#" cellml:units="per_second">8</cn></apply><apply><eq/><ci>k_b</ci><cn xmlns:cellml="http://www.cellml.org/cellml/1.1#" cellml:units="per_second">6</cn></apply></math>
</component>
<component name="Reaction_4">
<variable name="v4" private_interface="in" public_interface="out" units="mM_per_second"/>
<variable name="B" private_interface="out" public_interface="in" units="mM"/>
<variable name="k_f" private_interface="out" units="per_second"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>k_f</ci>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.1#" cellml:units="per_second">2</cn>
</apply>
</math>
</component>
<group>
<relationship_ref relationship="encapsulation"/>
<component_ref component="Reaction_1">
<component_ref component="R1_MassActionUniUniRev"/>
</component_ref>
</group>
<group>
<relationship_ref relationship="encapsulation"/>
<component_ref component="Reaction_2">
<component_ref component="R2_MassActionBiIrrev"/>
</component_ref>
</group>
<group>
<relationship_ref relationship="encapsulation"/>
<component_ref component="Reaction_3">
<component_ref component="R3_MassActionUniBiRev"/>
</component_ref>
</group>
<group>
<relationship_ref relationship="encapsulation"/>
<component_ref component="Reaction_4">
<component_ref component="R4_MassActionUniIrrev"/>
</component_ref>
</group>
<connection>
<map_components component_1="Network" component_2="Reaction_1"/>
<map_variables variable_1="v1" variable_2="v1"/>
<map_variables variable_1="A_ex" variable_2="A_ex"/>
<map_variables variable_1="A" variable_2="A"/>
</connection>
<connection>
<map_components component_1="Network" component_2="Reaction_2"/>
<map_variables variable_1="v2" variable_2="v2"/>
<map_variables variable_1="A" variable_2="A"/>
<map_variables variable_1="D" variable_2="D"/>
</connection>
<connection>
<map_components component_1="Network" component_2="Reaction_3"/>
<map_variables variable_1="v3" variable_2="v3"/>
<map_variables variable_1="C" variable_2="C"/>
<map_variables variable_1="D" variable_2="D"/>
<map_variables variable_1="B" variable_2="B"/>
</connection>
<connection>
<map_components component_1="Network" component_2="Reaction_4"/>
<map_variables variable_1="v4" variable_2="v4"/>
<map_variables variable_1="B" variable_2="B"/>
</connection>
<connection>
<map_components component_1="Reaction_1" component_2="R1_MassActionUniUniRev"/>
<map_variables variable_1="v1" variable_2="J"/>
<map_variables variable_1="A_ex" variable_2="S"/>
<map_variables variable_1="A" variable_2="P"/>
<map_variables variable_1="k_f" variable_2="k_f"/>
<map_variables variable_1="k_b" variable_2="k_b"/>
</connection>
<connection>
<map_components component_1="Reaction_2" component_2="R2_MassActionBiIrrev"/>
<map_variables variable_1="v2" variable_2="J"/>
<map_variables variable_1="A" variable_2="S1"/>
<map_variables variable_1="D" variable_2="S2"/>
<map_variables variable_1="k_f" variable_2="k_f"/>
</connection>
<connection>
<map_components component_1="Reaction_3" component_2="R3_MassActionUniBiRev"/>
<map_variables variable_1="v3" variable_2="J"/>
<map_variables variable_1="C" variable_2="S"/>
<map_variables variable_1="D" variable_2="P1"/>
<map_variables variable_1="B" variable_2="P2"/>
<map_variables variable_1="k_f" variable_2="k_f"/>
<map_variables variable_1="k_b" variable_2="k_b"/>
</connection>
<connection>
<map_components component_1="Reaction_4" component_2="R4_MassActionUniIrrev"/>
<map_variables variable_1="v4" variable_2="J"/>
<map_variables variable_1="B" variable_2="S"/>
<map_variables variable_1="k_f" variable_2="k_f"/>
</connection>
</model>
