GraTeLPy: graph-theoretic linear stability analysis.

ABSTRACT:

Background

A biochemical mechanism with mass action kinetics can be represented as a directed bipartite graph (bipartite digraph), and modeled by a system of differential equations. If the differential equations (DE) model can give rise to some instability such as multistability or Turing instability, then the bipartite digraph contains a structure referred to as a critical fragment. In some cases the existence of a critical fragment indicates that the DE model can display oscillations for some parameter values. We have implemented a graph-theoretic method that identifies the critical fragments of the bipartite digraph of a biochemical mechanism.

Results

GraTeLPy lists all critical fragments of the bipartite digraph of a given biochemical mechanism, thus enabling a prelimina

SUBMITTER: Walther GR 

PROVIDER: S-EPMC4016541 | biostudies-literature | 2014 Feb

REPOSITORIES: biostudies-literature