Condition-specific series of metabolic sub-networks and its application for gene set enrichment analysis.

ABSTRACT:

Motivation

Genome-scale metabolic networks and transcriptomic data represent complementary sources of knowledge about an organism's metabolism, yet their integration to achieve biological insight remains challenging.

Results

We investigate here condition-specific series of metabolic sub-networks constructed by successively removing genes from a comprehensive network. The optimal order of gene removal is deduced from transcriptomic data. The sub-networks are evaluated via a fitness function, which estimates their degree of alteration. We then consider how a gene set, i.e. a group of genes contributing to a common biological function, is depleted in different series of sub-networks to detect the difference between experimental conditions. The method, named metaboGSE, is valida

SUBMITTER: Tran VDT 

PROVIDER: S-EPMC6596900 | biostudies-literature | 2019 Jul

REPOSITORIES: biostudies-literature