MinePath: Mining for Phenotype Differential Sub-paths in Molecular Pathways.

ABSTRACT: Pathway analysis methodologies couple traditional gene expression analysis with knowledge encoded in established molecular pathway networks, offering a promising approach towards the biological interpretation of phenotype differentiating genes. Early pathway analysis methodologies, named as gene set analysis (GSA), view pathways just as plain lists of genes without taking into account either the underlying pathway network topology or the involved gene regulatory relations. These approaches, even if they achieve computational efficiency and simplicity, consider pathways that involve the same genes as equivalent in terms of their gene enrichment characteristics. Most recent pathway analysis approaches take into account the underlying gene regulatory relations by examining their consistency w

SUBMITTER: Koumakis L 

PROVIDER: S-EPMC5104320 | biostudies-literature | 2016 Nov

REPOSITORIES: biostudies-literature