Journal Article

MOTIFATOR: detection and characterization of regulatory motifs using prokaryote transcriptome data

Evert-Jan Blom, Jos B. T. M. Roerdink, Oscar P. Kuipers and Sacha A. F. T. van Hijum

in Bioinformatics

Volume 25, issue 4, pages 550-551
Published in print February 2009 | ISSN: 1367-4803
Published online January 2009 | e-ISSN: 1460-2059 | DOI: http://dx.doi.org/10.1093/bioinformatics/btp013
MOTIFATOR: detection and characterization of regulatory motifs using prokaryote transcriptome data

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Summary: Unraveling regulatory mechanisms (e.g. identification of motifs in cis-regulatory regions) remains a major challenge in the analysis of transcriptome experiments. Existing applications identify putative motifs from gene lists obtained at rather arbitrary cutoff and require additional manual processing steps. Our standalone application MOTIFATOR identifies the most optimal parameters for motif discovery and creates an interactive visualization of the results. Discovered putative motifs are functionally characterized, thereby providing valuable insight in the biological processes that could be controlled by the motif.

Availability: MOTIFATOR is freely available at http://www.motifator.nl

Contact: o.p.kuipers@rug.nl; sacha.vanhijum@nizo.nl

Journal Article.  902 words.  Illustrated.

Subjects: Bioinformatics and Computational Biology

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