title: MPromDb: an integrated resource for annotation and visualization of mammalian gene promoters and ChIP-chip experimental data.
abstract: 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.
authors.affiliation: 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.
authors.forename: Hao
authors.initials: H
authors.lastname: Sun
authors.forename: Saranyan K
authors.initials: SK
authors.lastname: Palaniswamy
authors.forename: Twyla T
authors.initials: TT
authors.lastname: Pohar
authors.forename: Victor X
authors.initials: VX
authors.lastname: Jin
authors.forename: Tim H-M
authors.initials: TH
authors.lastname: Huang
authors.forename: Ramana V
authors.initials: RV
authors.lastname: Davuluri
mesh_terms: D000818:Animals; D001665:Binding Sites; D047369:Chromatin Immunoprecipitation; D019295:Computational Biology; D003196:Computer Graphics; D030561:Databases, Nucleic Acid; D005091:Exons; D023281:Genomics; D006801:Humans; D020407:Internet; D051379:Mice; D020411:Oligonucleotide Array Sequence Analysis; D011401:Promoter Regions, Genetic; D051381:Rats; D018511:Systems Integration; D014157:Transcription Factors / Q000378:metabolism*; D024363:Transcription Initiation Site; D014584:User-Computer Interface
chemical_list: D014157:Transcription Factors