- 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://models.cellml.org/w/matthiaskoenig/MetabolicComponentLibrary/rawfile/e0e2c28e2dfdfe37ea2cae3390a6ae26c28a3393/examples/Example_Full_1.cellml
<?xml version="1.0"?>
<!--
This CellML file was generated on 4/18/2013 at 5:25:56 at PM using:
COR (0.9.31.1409)
Copyright 2002-2013 Dr Alan Garny
http://cor.physiol.ox.ac.uk/ - cor@physiol.ox.ac.uk
CellML 1.0 was used to generate this model
http://www.cellml.org/
--><model xmlns="http://www.cellml.org/cellml/1.1#" xmlns:cmeta="http://www.cellml.org/metadata/1.1#" cmeta:id="tdONQydRvt0" cmeta:id="Example_MassAction_2" name="Example_Full_1">
<import xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="MetabolicComponentLibrary-v0.1.cellml">
<component component_ref="MichaelisMentenRev" name="R1_MichaelisMentenRev"/>
<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>
<import xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="MetabolicComponentLibrary-v0.1.cellml">
<component component_ref="BiIrrev" name="R2_BiIrrev"/>
</import>
<import xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="MetabolicComponentLibrary-v0.1.cellml">
<component component_ref="CompetitiveInhibitionIrrev" name="R3_CompetitiveInhibitionIrrev"/>
</import>
<import xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="MetabolicComponentLibrary-v0.1.cellml">
<component component_ref="MassActionUniUniRev" name="R4_MassActionUniUniRev"/>
</import>
<import xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="MetabolicComponentLibrary-v0.1.cellml">
<component component_ref="CompetitiveInhibitionIrrev" name="R5_CompetitiveInhibitionIrrev"/>
</import>
<import xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="MetabolicComponentLibrary-v0.1.cellml">
<component component_ref="MichaelisMentenIrrev" name="R6_MichaelisMentenIrrev"/>
</import>
<import xmlns:xlink="http://www.w3.org/1999/xlink" xlink:href="MetabolicComponentLibrary-v0.1.cellml">
<component component_ref="MassActionBiIrrev" name="R7_MassActionBiIrrev"/>
</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 name="v5" public_interface="in" units="mM_per_second"/>
<variable name="v6" public_interface="in" units="mM_per_second"/>
<variable name="v7" public_interface="in" units="mM_per_second"/>
<variable initial_value="3" name="glc_ext" public_interface="out" units="mM"/>
<variable initial_value="0.5" name="glc" public_interface="out" units="mM"/>
<variable initial_value="0.5" name="glc6p" public_interface="out" units="mM"/>
<variable initial_value="2.5" name="atp" public_interface="out" units="mM"/>
<variable initial_value="0.8" name="adp" public_interface="out" units="mM"/>
<variable initial_value="5" name="p" public_interface="out" units="mM"/>
<variable initial_value="0.8" name="glc1p" public_interface="out" units="mM"/>
<variable initial_value="5" name="glyc" public_interface="out" units="mM"/>
<variable name="T" units="second"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply><eq/><ci>T</ci><cn xmlns:cellml="http://www.cellml.org/cellml/1.1#" cellml:units="second">50</cn></apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>t</ci>
</bvar>
<ci>glc_ext</ci>
</apply>
<apply>
<minus/>
<apply>
<sin/>
<apply>
<times/>
<apply>
<divide/>
<apply>
<times/>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.1#" cellml:units="dimensionless">2</cn>
<pi/>
</apply>
<ci>T</ci>
</apply>
<ci>t</ci>
</apply>
</apply>
<ci>v1</ci>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>t</ci>
</bvar>
<ci>glc</ci>
</apply>
<apply>
<plus/>
<apply>
<minus/>
<ci>v1</ci>
<ci>v2</ci>
</apply>
<ci>v3</ci>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>t</ci>
</bvar>
<ci>glc6p</ci>
</apply>
<apply>
<minus/>
<apply>
<minus/>
<ci>v2</ci>
<ci>v3</ci>
</apply>
<ci>v4</ci>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>t</ci>
</bvar>
<ci>glc1p</ci>
</apply>
<apply>
<plus/>
<apply>
<minus/>
<ci>v4</ci>
<ci>v5</ci>
</apply>
<ci>v6</ci>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>t</ci>
</bvar>
<ci>glyc</ci>
</apply>
<apply>
<minus/>
<ci>v5</ci>
<ci>v6</ci>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>t</ci>
</bvar>
<ci>atp</ci>
</apply>
<apply>
<plus/>
<apply>
<minus/>
<ci>v2</ci>
</apply>
<ci>v7</ci>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>t</ci>
</bvar>
<ci>adp</ci>
</apply>
<apply>
<minus/>
<ci>v2</ci>
<ci>v7</ci>
</apply>
</apply>
<apply>
<eq/>
<apply>
<diff/>
<bvar>
<ci>t</ci>
</bvar>
<ci>p</ci>
</apply>
<apply>
<minus/>
<ci>v3</ci>
<ci>v7</ci>
</apply>
</apply>
</math>
</component>
<component name="Reaction_1">
<variable name="v1" private_interface="in" public_interface="out" units="mM_per_second"/>
<variable name="glc_ext" private_interface="out" public_interface="in" units="mM"/>
<variable name="glc" private_interface="out" public_interface="in" units="mM"/>
<variable name="V_f" public_interface="out" units="mM_per_second"/>
<variable name="V_b" public_interface="out" units="mM_per_second"/>
<variable name="Km_S" public_interface="out" units="mM"/>
<variable name="Km_P" public_interface="out" units="mM"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>V_f</ci>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.1#" cellml:units="mM_per_second">10</cn>
</apply>
<apply>
<eq/>
<ci>V_b</ci>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.1#" cellml:units="mM_per_second">8</cn>
</apply>
<apply>
<eq/>
<ci>Km_S</ci>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.1#" cellml:units="mM">0.9</cn>
</apply>
<apply>
<eq/>
<ci>Km_P</ci>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.1#" cellml:units="mM">0.9</cn>
</apply>
</math>
</component>
<component name="Reaction_2">
<variable name="v2" private_interface="in" public_interface="out" units="mM_per_second"/>
<variable name="atp" private_interface="out" public_interface="in" units="mM"/>
<variable name="glc" private_interface="out" public_interface="in" units="mM"/>
<variable name="V" private_interface="out" units="mM_per_second"/>
<variable name="Km_atp" private_interface="out" units="mM"/>
<variable name="Km_glc" private_interface="out" units="mM"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>V</ci>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.1#" cellml:units="mM_per_second">10</cn>
</apply>
<apply>
<eq/>
<ci>Km_atp</ci>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.1#" cellml:units="mM">1</cn>
</apply>
<apply>
<eq/>
<ci>Km_glc</ci>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.1#" cellml:units="mM">0.2</cn>
</apply>
</math>
</component>
<component name="Reaction_3">
<variable name="v3" private_interface="in" public_interface="out" units="mM_per_second"/>
<variable name="glc6p" private_interface="out" public_interface="in" units="mM"/>
<variable name="adp" private_interface="out" public_interface="in" units="mM"/>
<variable name="V" private_interface="out" units="mM_per_second"/>
<variable name="Km_glc6p" private_interface="out" units="mM"/>
<variable name="Ki_adp" private_interface="out" units="mM"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>V</ci>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.1#" cellml:units="mM_per_second">10</cn>
</apply>
<apply>
<eq/>
<ci>Km_glc6p</ci>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.1#" cellml:units="mM">1</cn>
</apply>
<apply>
<eq/>
<ci>Ki_adp</ci>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.1#" cellml:units="mM">1</cn>
</apply>
</math>
</component>
<component name="Reaction_4">
<variable name="v4" private_interface="in" public_interface="out" units="mM_per_second"/>
<variable name="glc6p" private_interface="out" public_interface="in" units="mM"/>
<variable name="glc1p" 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">5</cn>
</apply>
<apply>
<eq/>
<ci>k_b</ci>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.1#" cellml:units="per_second">5</cn>
</apply>
</math>
</component>
<component name="Reaction_5">
<variable name="v5" private_interface="in" public_interface="out" units="mM_per_second"/>
<variable name="glc1p" private_interface="out" public_interface="in" units="mM"/>
<variable name="glyc" private_interface="out" public_interface="in" units="mM"/>
<variable name="V" private_interface="out" units="mM_per_second"/>
<variable name="Km_glc1p" private_interface="out" units="mM"/>
<variable name="Ki_glyc" private_interface="out" units="mM"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>V</ci>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.1#" cellml:units="mM_per_second">10</cn>
</apply>
<apply>
<eq/>
<ci>Km_glc1p</ci>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.1#" cellml:units="mM">1</cn>
</apply>
<apply>
<eq/>
<ci>Ki_glyc</ci>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.1#" cellml:units="mM">5</cn>
</apply>
</math>
</component>
<component name="Reaction_6">
<variable name="v6" private_interface="in" public_interface="out" units="mM_per_second"/>
<variable name="glyc" private_interface="out" public_interface="in" units="mM"/>
<variable name="V" private_interface="out" units="mM_per_second"/>
<variable name="Km_glyc" private_interface="out" units="mM"/>
<math xmlns="http://www.w3.org/1998/Math/MathML">
<apply>
<eq/>
<ci>V</ci>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.1#" cellml:units="mM_per_second">10</cn>
</apply>
<apply>
<eq/>
<ci>Km_glyc</ci>
<cn xmlns:cellml="http://www.cellml.org/cellml/1.1#" cellml:units="mM">5</cn>
</apply>
</math>
</component>
<component name="Reaction_7">
<variable name="v7" private_interface="in" public_interface="out" units="mM_per_second"/>
<variable name="adp" private_interface="out" public_interface="in" units="mM"/>
<variable name="p" 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_mM_per_second">5</cn>
</apply>
</math>
</component>
<group>
<relationship_ref relationship="encapsulation"/>
<component_ref component="Reaction_1">
<component_ref component="R1_MichaelisMentenRev"/>
</component_ref>
</group>
<group>
<relationship_ref relationship="encapsulation"/>
<component_ref component="Reaction_2">
<component_ref component="R2_BiIrrev"/>
</component_ref>
</group>
<group>
<relationship_ref relationship="encapsulation"/>
<component_ref component="Reaction_3">
<component_ref component="R3_CompetitiveInhibitionIrrev"/>
</component_ref>
</group>
<group>
<relationship_ref relationship="encapsulation"/>
<component_ref component="Reaction_4">
<component_ref component="R4_MassActionUniUniRev"/>
</component_ref>
</group>
<group>
<relationship_ref relationship="encapsulation"/>
<component_ref component="Reaction_5">
<component_ref component="R5_CompetitiveInhibitionIrrev"/>
</component_ref>
</group>
<group>
<relationship_ref relationship="encapsulation"/>
<component_ref component="Reaction_6">
<component_ref component="R6_MichaelisMentenIrrev"/>
</component_ref>
</group>
<group>
<relationship_ref relationship="encapsulation"/>
<component_ref component="Reaction_7">
<component_ref component="R7_MassActionBiIrrev"/>
</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="glc_ext" variable_2="glc_ext"/>
<map_variables variable_1="glc" variable_2="glc"/>
</connection>
<connection>
<map_components component_1="Network" component_2="Reaction_2"/>
<map_variables variable_1="v2" variable_2="v2"/>
<map_variables variable_1="atp" variable_2="atp"/>
<map_variables variable_1="glc" variable_2="glc"/>
</connection>
<connection>
<map_components component_1="Network" component_2="Reaction_3"/>
<map_variables variable_1="v3" variable_2="v3"/>
<map_variables variable_1="glc6p" variable_2="glc6p"/>
<map_variables variable_1="adp" variable_2="adp"/>
</connection>
<connection>
<map_components component_1="Network" component_2="Reaction_4"/>
<map_variables variable_1="v4" variable_2="v4"/>
<map_variables variable_1="glc6p" variable_2="glc6p"/>
<map_variables variable_1="glc1p" variable_2="glc1p"/>
</connection>
<connection>
<map_components component_1="Network" component_2="Reaction_5"/>
<map_variables variable_1="v5" variable_2="v5"/>
<map_variables variable_1="glc1p" variable_2="glc1p"/>
<map_variables variable_1="glyc" variable_2="glyc"/>
</connection>
<connection>
<map_components component_1="Network" component_2="Reaction_6"/>
<map_variables variable_1="v6" variable_2="v6"/>
<map_variables variable_1="glyc" variable_2="glyc"/>
</connection>
<connection>
<map_components component_1="Network" component_2="Reaction_7"/>
<map_variables variable_1="v7" variable_2="v7"/>
<map_variables variable_1="adp" variable_2="adp"/>
<map_variables variable_1="p" variable_2="p"/>
</connection>
<connection>
<map_components component_1="Reaction_1" component_2="R1_MichaelisMentenRev"/>
<map_variables variable_1="v1" variable_2="J"/>
<map_variables variable_1="glc_ext" variable_2="S"/>
<map_variables variable_1="glc" variable_2="P"/>
<map_variables variable_1="V_f" variable_2="V_f"/>
<map_variables variable_1="V_b" variable_2="V_b"/>
<map_variables variable_1="Km_P" variable_2="Km_P"/>
<map_variables variable_1="Km_S" variable_2="Km_S"/>
</connection>
<connection>
<map_components component_1="Reaction_2" component_2="R2_BiIrrev"/>
<map_variables variable_1="v2" variable_2="J"/>
<map_variables variable_1="atp" variable_2="S1"/>
<map_variables variable_1="glc" variable_2="S2"/>
<map_variables variable_1="V" variable_2="V"/>
<map_variables variable_1="Km_atp" variable_2="Km_S1"/>
<map_variables variable_1="Km_glc" variable_2="Km_S2"/>
</connection>
<connection>
<map_components component_1="Reaction_3" component_2="R3_CompetitiveInhibitionIrrev"/>
<map_variables variable_1="v3" variable_2="J"/>
<map_variables variable_1="glc6p" variable_2="S"/>
<map_variables variable_1="adp" variable_2="I"/>
<map_variables variable_1="V" variable_2="V"/>
<map_variables variable_1="Km_glc6p" variable_2="Km_S"/>
<map_variables variable_1="Ki_adp" variable_2="Ki"/>
</connection>
<connection>
<map_components component_1="Reaction_4" component_2="R4_MassActionUniUniRev"/>
<map_variables variable_1="v4" variable_2="J"/>
<map_variables variable_1="glc6p" variable_2="S"/>
<map_variables variable_1="glc1p" 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_5" component_2="R5_CompetitiveInhibitionIrrev"/>
<map_variables variable_1="v5" variable_2="J"/>
<map_variables variable_1="glc1p" variable_2="S"/>
<map_variables variable_1="glyc" variable_2="I"/>
<map_variables variable_1="V" variable_2="V"/>
<map_variables variable_1="Km_glc1p" variable_2="Km_S"/>
<map_variables variable_1="Ki_glyc" variable_2="Ki"/>
</connection>
<connection>
<map_components component_1="Reaction_6" component_2="R6_MichaelisMentenIrrev"/>
<map_variables variable_1="v6" variable_2="J"/>
<map_variables variable_1="glyc" variable_2="S"/>
<map_variables variable_1="V" variable_2="V"/>
<map_variables variable_1="Km_glyc" variable_2="Km_S"/>
</connection>
<connection>
<map_components component_1="Reaction_7" component_2="R7_MassActionBiIrrev"/>
<map_variables variable_1="v7" variable_2="J"/>
<map_variables variable_1="adp" variable_2="S1"/>
<map_variables variable_1="p" variable_2="S2"/>
<map_variables variable_1="k_f" variable_2="k_f"/>
</connection>
<rdf:RDF xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"><rdf:Description rdf:nodeID="n1"><endingValue xmlns="http://www.cellml.org/metadata/simulation/1.0#" xml:lang="en">400</endingValue></rdf:Description><rdf:Description rdf:nodeID="n2"><boundIntervals xmlns="http://www.cellml.org/metadata/simulation/1.0#"><rdf:Description rdf:nodeID="n3"/></boundIntervals></rdf:Description><rdf:Description rdf:nodeID="n3"><rdf:rest><rdf:Description rdf:about="http://www.w3.org/1999/02/22-rdf-syntax-ns#nil"/></rdf:rest><rdf:first><rdf:Description rdf:nodeID="n1"/></rdf:first></rdf:Description><rdf:Description rdf:about="#tdONQydRvt0"><simulation xmlns="http://www.cellml.org/metadata/simulation/1.0#"><rdf:Description rdf:nodeID="n2"/></simulation></rdf:Description></rdf:RDF></model>
