InDePTH: detection of hub genes for developing gene expression networks under anticancer drug treatment.

ABSTRACT: It has been difficult to elucidate the structure of gene regulatory networks under anticancer drug treatment. Here, we developed an algorithm to highlight the hub genes that play a major role in creating the upstream and downstream relationships within a given set of differentially expressed genes. The directionality of the relationships between genes was defined using information from comprehensive collections of transcriptome profiles after gene knockdown and overexpression. As expected, among the drug-perturbed genes, our algorithm tended to derive plausible hub genes, such as transcription factors. Our validation experiments successfully showed the anticipated activity of certain hub gene in establishing the gene regulatory network that was associated with cell growth inhibition. Notab

SUBMITTER: Koido M 

PROVIDER: S-EPMC6044382 | biostudies-literature | 2018 Jun

REPOSITORIES: biostudies-literature