A novel approach to identifying regulatory motifs in distantly related genomes

Ruth Van Hellemont, Pieter Monsieurs, Gert Thijs, Bart De Moor, Yves Van de Peer, Kathleen Marchal

Research output: Contribution to journalA1: Web of Science-article

Abstract

Although proven successful in the identification of regulatory motifs, phylogenetic footprinting methods still show some shortcomings. To assess these difficulties, most apparent when applying phylogenetic footprinting to distantly related organisms, we developed a two-step procedure that combines the advantages of sequence alignment and motif detection approaches. The results on well-studied benchmark datasets indicate that the presented method outperforms other methods when the sequences become either too long or too heterogeneous in size.

Original languageEnglish
Article number113
JournalGenome Biology and Evolution
Volume6
Issue number13
Number of pages18
ISSN1474-760X
DOIs
Publication statusPublished - 2005

Keywords

  • VERTEBRATE GENOMES
  • MULTIPLE ALIGNMENT
  • ELEMENTS
  • GENE
  • IDENTIFICATION
  • SEQUENCES
  • FUGU
  • REGIONS
  • PUFFERFISH
  • DISCOVERY

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