Imogene: identification of motifs and cis-regulatory modules underlying gene co-regulation.

ABSTRACT: Cis-regulatory modules (CRMs) and motifs play a central role in tissue and condition-specific gene expression. Here we present Imogene, an ensemble of statistical tools that we have developed to facilitate their identification and implemented in a publicly available software. Starting from a small training set of mammalian or fly CRMs that drive similar gene expression profiles, Imogene determines de novo cis-regulatory motifs that underlie this co-expression. It can then predict on a genome-wide scale other CRMs with a regulatory potential similar to the training set. Imogene bypasses the need of large datasets for statistical analyses by making central use of the information provided by the sequenced genomes of multiple species, based on the developed statistical tools and explicit model

SUBMITTER: Rouault H 

PROVIDER: S-EPMC4041412 | biostudies-literature | 2014 Jun

REPOSITORIES: biostudies-literature