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Nucleic Acids Research 2006 34(Database Issue):D98-D103; doi:10.1093/nar/gkj096
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Nucleic Acids Research, 2006, Vol. 34, Database issue D98-D103
© The Author 2006. Published by Oxford University Press. All rights reserved
The online version of this article has been published under an open access model. Users are entitled to use, reproduce, disseminate, or display the open access version of this article for non-commercial purposes provided that: the original authorship is properly and fully attributed; the Journal and Oxford University Press are attributed as the original place of publication with the correct citation details given; if an article is subsequently reproduced or disseminated not in its entirety but only in part or as a derivative work this must be clearly indicated. For commercial re-use, please contact journals.permissions{at}oxfordjournals.org

Article

MPromDb: an integrated resource for annotation and visualization of mammalian gene promoters and ChIP-chip experimental data

Hao Sun, Saranyan K. Palaniswamy, Twyla T. Pohar, Victor X. Jin, Tim H.-M. Huang and Ramana V. Davuluri*

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

*To whom correspondence should be addressed. Tel: +1 614 688 3088; Fax: +1 614 688 4006; Email: Davuluri-1{at}medctr.osu.edu

Received August 15, 2005. Revised October 16, 2005. Accepted October 16, 2005.

We have developed Mammalian Promoter Database (MPromDb), a novel database that integrates gene promoters with experimentally supported annotation of transcription start sites, cis-regulatory elements, CpG islands and chromatin immunoprecipitation microarray (ChIP-chip) experimental results with intuitively designed presentation. Release 1.0 of MPromDb currently contains 36 407 promoters and first exons (19 170 from human, 15 953 from mouse and 1284 from rat), 3739 transcription factor (TF)-binding sites (2027 from human, 1181 mouse and 531 rat) and 224 TFs with links to PubMed and GenBank references. Target promoters of TFs that have been identified by ChIP-chip assay are integrated into the database. MPromDb serves as a portal for genome-wide promoter analysis of data generated by ChIP-chip experimental studies. MPromDb can be accessed from http://bioinformatics.med.ohio-state.edu/MPromDb.


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