Stoichiometric Matrix (analysis)

From BioUML platform
Revision as of 18:14, 9 December 2020 by BioUML wiki Bot (Talk | contribs)

(diff) ← Older revision | Latest revision (diff) | Newer revision → (diff)
Jump to: navigation, search
Analysis title
Default-analysis-icon.png Stoichiometric Matrix
Provider
Institute of Systems Biology
Class
StoichiometricAnalysis
Plugin
biouml.plugins.modelreduction (Model reduction plug-in)

Description

The stoichiometric matrix N provides the linear relationship of the model between the flux rates of the (enzymatic) reactions and the derivatives of the reactant (enzyme) concentrations.

If a reaction network has n reactions and m participating molecular species then the dynamic mass balance equation can be written as

Differential-algebraic-equations-Stoichiometric-Matrix-stoich1.png

where v is the flux vector and S is the concentration vector:

Differential-algebraic-equations-Stoichiometric-Matrix-stoich2.png

Example

Consider the following system of reactions:

Differential-algebraic-equations-Stoichiometric-Matrix-stoich3.png

This systems comprises four reactions and five different molecular species. The stoichiometry matrix for this system can be written as:

Differential-algebraic-equations-Stoichiometric-Matrix-stoich4.png

where the rows correspond to S1, S2, S3, S4 and S5, respectively. Note that the process of converting a reaction scheme into a stoichiometry matrix can be a lossy transformation, for example, the stoichiometries in the second reaction simplify when included in the matrix.

Personal tools
Namespaces

Variants
Actions
BioUML platform
Community
Modelling
Analysis & Workflows
Collaborative research
Development
Virtual biology
Wiki
Toolbox