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Bioinformatics Advance Access published online on November 5, 2004
Bioinformatics, doi:10.1093/bioinformatics/bti119
Bioinformatics © Oxford University Press 2004; all rights reserved
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Received May 21, 2004
Revised October 1, 2004
Accepted October 20, 2004

Applications note

OMGProm: a database of orthologous mammalian gene promoters

Saranyan K. Palaniswamy 1, Victor X. Jin 1, Hao Sun 1, and Ramana V. Davuluri 1*

1 Human Cancer Genetics Program, Comprehensive Cancer Center, Department of Molecular Virology, Immunology & Medical Genetics, The Ohio State University, 420 W.12th Avenue, TMRF 524, Columbus, OH 43210, USA

* To whom correspondence should be addressed.
Ramana V. Davuluri, E-mail: davuluri-1{at}medctr.osu.edu


  Abstract

Summary: Sequence comparisons between human and rodents are increasingly being used for the identification of gene regulatory regions. The effectiveness of such an approach largely depends on the quality and availability of promoter sequences. We developed OMGProm by integrating three data sources: (1) experimentally supported full-length cDNA, promoter and first exon sequences (2) homology information from HomoloGene and (3) the human and mouse genomic sequences. The current version of OMGProm contains 8,550 promoter pairs of 6,373 orthologous human and mouse genes, where supporting experimental evidence for transcription start site annotation exists in at least one species.

Availability: OMGProm can be accessed from http://bioinformatics.med.ohio-state.edu/OMGProm.

Supplementary information: Additional information on methods and implementation is available at http://bioinformatics.med.ohio-state.edu/OMGProm/si.jsp.


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