A Caenorhabditis motif compendium for studying transcriptional gene regulation.

ABSTRACT:

Background

Controlling gene expression is fundamental to biological complexity. The nematode Caenorhabditis elegans is an important model for studying principles of gene regulation in multi-cellular organisms. A comprehensive parts list of putative regulatory motifs was yet missing for this model system. In this study, we compile a set of putative regulatory motifs by combining evidence from conservation and expression data.

Description

We present an unbiased comparative approach to a regulatory motif compendium for Caenorhabditis species. This involves the assembly of a new nematode genome, whole genome alignments and assessment of conserved k-mers counts. Candidate motifs are selected from a set of 9,500 randomly picked genes by three different motif discovery strategies.

SUBMITTER: Dieterich C 

PROVIDER: S-EPMC2248174 | biostudies-literature | 2008 Jan

REPOSITORIES: biostudies-literature