OMGProm: A database of orthologous mammalian gene promoters

Saranyan K. Palaniswamy; Victor X. Jin; Han Sun; Ramana V. Davuluri

doi:10.1093/bioinformatics/bti119

OMGProm: A database of orthologous mammalian gene promoters

Saranyan K. Palaniswamy, Victor X. Jin, Han Sun, Ramana V. Davuluri^*

^*Corresponding author for this work

Driskill Graduate Training Program in Life Sciences

Research output: Contribution to journal › Comment/debate › peer-review

17 Scopus citations

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 OMG-Prom 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 8550 promoter pairs of 6373 orthologous human and mouse genes, where supporting experimental evidence for transcription start site annotation exists in at least one species.

Original language	English (US)
Pages (from-to)	835-836
Number of pages	2
Journal	Bioinformatics
Volume	21
Issue number	6
DOIs	https://doi.org/10.1093/bioinformatics/bti119
State	Published - Mar 15 2005

ASJC Scopus subject areas

Statistics and Probability
Biochemistry
Molecular Biology
Computer Science Applications
Computational Theory and Mathematics
Computational Mathematics

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title = "OMGProm: A database of orthologous mammalian gene promoters",

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 OMG-Prom 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 8550 promoter pairs of 6373 orthologous human and mouse genes, where supporting experimental evidence for transcription start site annotation exists in at least one species.",

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AU - Palaniswamy, Saranyan K.

AU - Jin, Victor X.

AU - Sun, Han

AU - Davuluri, Ramana V.

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N2 - 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 OMG-Prom 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 8550 promoter pairs of 6373 orthologous human and mouse genes, where supporting experimental evidence for transcription start site annotation exists in at least one species.

AB - 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 OMG-Prom 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 8550 promoter pairs of 6373 orthologous human and mouse genes, where supporting experimental evidence for transcription start site annotation exists in at least one species.

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