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Bioinformatics Advance Access published online on November 22, 2005
Bioinformatics, doi:10.1093/bioinformatics/bti794
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© The Author (2005). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org
Received September 29, 2005
Revised November 17, 2005
Accepted November 17, 2005

Applications note

REDfly: a regulatory element database for Drosophila

Steven M. Gallo 1, Long Li 2, Zihua Hu 1, and Marc S. Halfon 3 *

1 Center for Computational Research, State University of New York at Buffalo, Buffalo, NY 14214, USA
2 Department of Biochemistry, State University of New York at Buffalo, Buffalo, NY 14214, USA
3 Department of Biochemistry, State University of New York at Buffalo, Buffalo, NY 14214, USA; Center of Excellence in Bioinformatics and the Life Sciences, State University of New York at Buffalo, Buffalo, NY 14214, USA

* To whom correspondence should be addressed.
Marc S. Halfon, E-mail: mshalfon{at}buffalo.edu


  Abstract

Summary: Bioinformatics studies of transcriptional regulation in the metazoa are significantly hindered by the absence of readily available data on large numbers of transcriptional cis-regulatory modules (CRMs). Even the richly annotated Drosophila melanogaster genome lacks extensive CRM information. We therefore present here a database of Drosophila CRMs curated from the literature complete with both DNA sequence and a searchable description of the gene expression pattern regulated by each CRM. This resource should greatly facilitate the development of computational approaches to CRM discovery as well as bioinformatics analyses of regulatory sequence properties and evolution.

Availability: http://redfly.ccr.buffalo.edu.


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