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Nucleic Acids Research, 2003, Vol. 31, No. 13 3554-3559
© 2003 Oxford University Press

PromoSer: a large-scale mammalian promoter and transcription start site identification service

Anason S. Halees1, Dmitriy Leyfer1 and Zhiping Weng*,1,2

1 Bioinformatics Program, Boston University, 44 Cummington Street, Boston, MA 02215, USA 2 Biomedical Engineering Department, Boston University, 44 Cummington Street, Boston, MA 02215, USA

*To whom correspondence should be addressed at Biomedical Engineering Department, Boston University, 44 Cummington Street, Boston, MA 02215, USA. Tel: +1 617 353 3509; Fax: +1 617 353 6766; Email: zhiping{at}bu.edu

Proximal promoters have a major impact on transcriptional regulation. Studies of the sequence-based nature of this regulation usually require collection of proximal promoter sequences for large sets of co-regulated genes. We report a newly implemented web service that facilitates extraction of user specified regions around the transcription start site of all annotated human, mouse or rat genes. The transcription start sites have been identified computationally by considering alignments of a large number of partial and full-length mRNA sequences to genomic DNA, with provision for alternative promoters. The service is publicly available at http://biowulf.bu.edu/zlab/PromoSer/.


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