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

Bioinformatics. 2007 Jan 15;23(2):243-4. doi: 10.1093/bioinformatics/btl568. Epub 2006 Nov 10.


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.


Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Algorithms*
  • Base Sequence
  • Chromosome Mapping / methods*
  • DNA / genetics*
  • Molecular Sequence Data
  • Pattern Recognition, Automated / methods
  • Regulatory Sequences, Nucleic Acid / genetics*
  • Sequence Alignment / methods*
  • Sequence Analysis, DNA / methods*
  • Software*
  • Transcriptional Activation / genetics


  • DNA