ModelExplorer - software for visual inspection and inconsistency correction of genome-scale metabolic reconstructions.

ABSTRACT:

Background

Genome-scale metabolic network reconstructions are low level chemical representations of biological organisms. These models allow the system-level investigation of metabolic phenotypes using a variety of computational approaches. The link between a metabolic network model and an organisms' higher-level behaviour is usually found using a constraint-based analysis approach, such as FBA (Flux Balance Analysis). However, the process of model reconstruction rarely proceeds without error. Often, considerable parts of a model cannot carry flux under any condition. This is termed model inconsistency and is caused by faulty topology and/or stoichiometry of the underlying reconstructed network. While there exist several automated gap-filling tools that may solve some of the incons

SUBMITTER: Martyushenko N 

PROVIDER: S-EPMC6348647 | biostudies-literature | 2019 Jan

REPOSITORIES: biostudies-literature