Studying the functional conservation of cis-regulatory modules and their transcriptional output.

ABSTRACT:

Background

Cis-regulatory modules (CRMs) are distinct, genomic regions surrounding the target gene that can independently activate the promoter to drive transcription. The activation of a CRM is controlled by the binding of a certain combination of transcription factors (TFs). It would be of great benefit if the transcriptional output mediated by a specific CRM could be predicted. Of equal benefit would be identifying in silico a specific CRM as the driver of the expression in a specific tissue or situation. We extend a recently developed biochemical modeling approach to manage both prediction tasks. Given a set of TFs, their protein concentrations, and the positions and binding strengths of each of the TFs in a putative CRM, the model predicts the transcriptional output of the gen

SUBMITTER: Bauer DC 

PROVIDER: S-EPMC2386823 | biostudies-literature | 2008 Apr

REPOSITORIES: biostudies-literature