One Hand Clapping: detection of condition-specific transcription factor interactions from genome-wide gene activity data.

ABSTRACT: We present One Hand Clapping (OHC), a method for the detection of condition-specific interactions between transcription factors (TFs) from genome-wide gene activity measurements. OHC is based on a mapping between transcription factors and their target genes. Given a single case-control experiment, it uses a linear regression model to assess whether the common targets of two arbitrary TFs behave differently than expected from the genes targeted by only one of the TFs. When applied to osmotic stress data in S. cerevisiae, OHC produces consistent results across three types of expression measurements: gene expression microarray data, RNA Polymerase II ChIP-chip binding data and messenger RNA synthesis rates. Among the eight novel, condition-specific TF pairs, we validate the interaction betwee

SUBMITTER: Dumcke S 

PROVIDER: S-EPMC3467085 | biostudies-literature | 2012 Oct

REPOSITORIES: biostudies-literature