PEAKS: identification of regulatory motifs by their position in DNA sequences

  • Authors:

  • Nicolás Bellora;Domènec Farré;M. Mar Albà

  • Affiliations:

  • Research Unit on Biomedical Informatics, Universitat Pompeu Fabra Barcelona 08003, Spain;Centre for Genomic Regulation Barcelona 08003, Spain;Research Unit on Biomedical Informatics, Universitat Pompeu Fabra Barcelona 08003, Spain

  • Venue:
  • Bioinformatics
  • Year:
  • 2007

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Abstract

Summary: Many DNA functional motifs tend to accumulate or cluster at specific gene locations. These locations can be detected, in a group of gene sequences, as high frequency 'peaks' with respect to a reference position, such as the transcription start site (TSS). We have developed a web tool for the identification of regions containing significant motif peaks. We show, by using different yeast gene datasets, that peak regions are strongly enriched in experimentally-validated motifs and contain potentially important novel motifs. Availability: http://genomics.imim.es/peaks Contact: malba@imim.es Supplementary information: Supplementary Data are available at Bioinformatics online.