Consistency Analysis of Genome-Scale Models of Bacterial Metabolism: A Metamodel Approach.

ABSTRACT: Genome-scale metabolic models usually contain inconsistencies that manifest as blocked reactions and gap metabolites. With the purpose to detect recurrent inconsistencies in metabolic models, a large-scale analysis was performed using a previously published dataset of 130 genome-scale models. The results showed that a large number of reactions (~22%) are blocked in all the models where they are present. To unravel the nature of such inconsistencies a metamodel was construed by joining the 130 models in a single network. This metamodel was manually curated using the unconnected modules approach, and then, it was used as a reference network to perform a gap-filling on each individual genome-scale model. Finally, a set of 36 models that had not been considered during the construction of the m

SUBMITTER: Ponce-de-Leon M 

PROVIDER: S-EPMC4668087 | biostudies-literature | 2015

REPOSITORIES: biostudies-literature