Complete enumeration of elementary flux modes through scalable demand-based subnetwork definition.

ABSTRACT:

Motivation

Elementary flux mode analysis (EFMA) decomposes complex metabolic network models into tractable biochemical pathways, which have been used for rational design and analysis of metabolic and regulatory networks. However, application of EFMA has often been limited to targeted or simplified metabolic network representations due to computational demands of the method.

Results

Division of biological networks into subnetworks enables the complete enumeration of elementary flux modes (EFMs) for metabolic models of a broad range of complexities, including genome-scale. Here, subnetworks are defined using serial dichotomous suppression and enforcement of flux through model reactions. Rules for selecting appropriate reactions to generate subnetworks are proposed and tested;

SUBMITTER: Hunt KA 

PROVIDER: S-EPMC4029027 | biostudies-literature | 2014 Jun

REPOSITORIES: biostudies-literature