WOLFRAM SYSTEM MODELER
CytosolCytosolic compartment |
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Diagram
Wolfram Language
In[1]:=
SystemModel["EducationExamples.ComputationalBiology.Glycolysis.Cytosol"]
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Information
Library Dependency
This model requires the BioChem library.
- The free BioChem library is an extendable, general purpose Modelica library for modeling, simulation and visualization of biological and biochemical systems. The library is designed to be used together with Wolfram System Modeler, which enables several extra features such as Systems Biology Markup Language (SBML) import and export. BioChem can, for instance, be used for selecting drug targets with PK/PD modeling or searching for novel drug targets with mechanistic modeling of the reactions in a cell or organism.
Model of the cytosolic glycolysis compartment used in the main glycolysis model.
Parameters (1)
| mainCompartment |
Value: false Type: Boolean Description: Specifies whether the compartment is a main (top-level) compartment. Used in SBML import/export. |
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Connectors (5)
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Glc_node |
Type: SubstanceConnector Description: Connector between substances and reactions |
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G6P_node |
Type: SubstanceConnector Description: Connector between substances and reactions |
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EtOH_node |
Type: SubstanceConnector Description: Connector between substances and reactions |
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Glyc_node |
Type: SubstanceConnector Description: Connector between substances and reactions |
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ACA_node |
Type: SubstanceConnector Description: Connector between substances and reactions |
Components (31)
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Glc |
Type: Glc_ Description: Cytosolic glucose |
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ATP |
Type: ATP_ Description: ATP |
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G6P |
Type: G6P_ Description: Glucose-6-Phosphate |
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ADP |
Type: ADP_ Description: ADP |
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F6P |
Type: F6P_ Description: Fructose-6-Phosphate |
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FBP |
Type: FBP_ Description: Fructose 1,6-bisphosphate |
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GAP |
Type: GAP_ Description: Glyceraldehyde 3-phosphate |
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DHAP |
Type: DHAP_ Description: Dihydroxyacetone phosphate |
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NAD |
Type: NAD_ Description: NAD |
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BPG |
Type: BPG_ Description: 1,3-Bisphosphoglycerate |
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NADH |
Type: NADH_ Description: NADH |
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PEP |
Type: PEP_ Description: Phosphoenolpyruvate |
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Pyr |
Type: Pyr_ Description: Pyruvate |
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ACA |
Type: ACA_ Description: Acetaldehyde |
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EtOH |
Type: EtOH_ |
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Glyc |
Type: Glyc_ Description: Glycerol |
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AMP |
Type: AMP_ Description: AMP |
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vHK |
Type: vHK_ Description: Hexokinase |
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vPGI |
Type: vPGI_ Description: Phosphoglucoisomerase |
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vPFK |
Type: vPFK_ Description: Phosphofructokinase |
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vALD |
Type: vALD_ Description: Aldolase |
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vTIM |
Type: vTIM_ Description: Triosephosphate isomerase |
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vGAPDH |
Type: vGAPDH_ Description: Glyceraldehyde 3-phosphate dehydrogenase |
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vlpPEP |
Type: vlpPEP_ Description: Phosphoenolpyruvate synthesis |
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vPK |
Type: vPK_ Description: Pyruvate kinase |
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vPDC |
Type: vPDC_ Description: Pyruvate decarboxylase |
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vADH |
Type: vADH_ Description: Alcohol dehydrogenase |
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vlpGlyc |
Type: vlpGlyc_ Description: Glycerol synthesis |
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vstorage |
Type: vstorage_ Description: Storage |
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vconsum |
Type: vconsum_ Description: ATP consumption |
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vAK |
Type: vAK_ Description: Adenylate kinase |
Used in Examples (1)
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EducationExamples.ComputationalBiology.Glycolysis Main model - Extracellular compartment |