WOLFRAM SYSTEM MODELER

Cytosol

Cytosolic compartment

Diagram

In[1]:=

SystemModel["EducationExamples.ComputationalBiology.Glycolysis.Cytosol"]

Out[1]:=

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.

mainCompartment	Value: false Type: Boolean Description: Specifies whether the compartment is a main (top-level) compartment. Used in SBML import/export.

mainCompartment

Value: false

Type: Boolean

Description: Specifies whether the compartment is a main (top-level) compartment. Used in SBML import/export.

	Glc_node	Type: SubstanceConnector Description: Connector between substances and reactions
	G6P_node	Type: SubstanceConnector Description: Connector between substances and reactions
	EtOH_node	Type: SubstanceConnector Description: Connector between substances and reactions
	Glyc_node	Type: SubstanceConnector Description: Connector between substances and reactions
	ACA_node	Type: SubstanceConnector Description: Connector between substances and reactions

	Glc	Type: Glc_ Description: Cytosolic glucose
	ATP	Type: ATP_ Description: ATP
	G6P	Type: G6P_ Description: Glucose-6-Phosphate
	ADP	Type: ADP_ Description: ADP
	F6P	Type: F6P_ Description: Fructose-6-Phosphate
	FBP	Type: FBP_ Description: Fructose 1,6-bisphosphate
	GAP	Type: GAP_ Description: Glyceraldehyde 3-phosphate
	DHAP	Type: DHAP_ Description: Dihydroxyacetone phosphate
	NAD	Type: NAD_ Description: NAD
	BPG	Type: BPG_ Description: 1,3-Bisphosphoglycerate
	NADH	Type: NADH_ Description: NADH
	PEP	Type: PEP_ Description: Phosphoenolpyruvate
	Pyr	Type: Pyr_ Description: Pyruvate
	ACA	Type: ACA_ Description: Acetaldehyde
	EtOH	Type: EtOH_
	Glyc	Type: Glyc_ Description: Glycerol
	AMP	Type: AMP_ Description: AMP
	vHK	Type: vHK_ Description: Hexokinase
	vPGI	Type: vPGI_ Description: Phosphoglucoisomerase
	vPFK	Type: vPFK_ Description: Phosphofructokinase
	vALD	Type: vALD_ Description: Aldolase
	vTIM	Type: vTIM_ Description: Triosephosphate isomerase
	vGAPDH	Type: vGAPDH_ Description: Glyceraldehyde 3-phosphate dehydrogenase
	vlpPEP	Type: vlpPEP_ Description: Phosphoenolpyruvate synthesis
	vPK	Type: vPK_ Description: Pyruvate kinase
	vPDC	Type: vPDC_ Description: Pyruvate decarboxylase
	vADH	Type: vADH_ Description: Alcohol dehydrogenase
	vlpGlyc	Type: vlpGlyc_ Description: Glycerol synthesis
	vstorage	Type: vstorage_ Description: Storage
	vconsum	Type: vconsum_ Description: ATP consumption
	vAK	Type: vAK_ Description: Adenylate kinase