Location of Repository

Sequence analysis Seeder: discriminative seeding DNA motif discovery

By François Fauteux, Mathieu Blanchette and Martina V. Strömvik

Abstract

Motivation: The computational identification of transcription factor binding sites is a major challenge in bioinformatics and an important complement to experimental approaches. Results: We describe a novel, exact discriminative seeding DNA motif discovery algorithm designed for fast and reliable prediction of cis-regulatory elements in eukaryotic promoters. The algorithm is tested on biological benchmark data and shown to perform equally or better than other motif discovery tools. The algorithm is applied to the analysis of plant tissue-specific promoter sequences and successfully identifies key regulatory elements. Availability: The Seeder Perl distribution includes four modules. It is available for download on the Comprehensive Perl Archive Networ

Year: 2011
OAI identifier: oai:CiteSeerX.psu:10.1.1.183.8659
Provided by: CiteSeerX
Download PDF:
Sorry, we are unable to provide the full text but you may find it at the following location(s):
  • http://citeseerx.ist.psu.edu/v... (external link)
  • http://www2.in.tu-clausthal.de... (external link)
  • Suggested articles


    To submit an update or takedown request for this paper, please submit an Update/Correction/Removal Request.