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Nucleic Acids Research 2004 32(Web Server Issue):W420-W423; doi:10.1093/nar/gkh426
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© 2004, the authors
Nucleic Acids Research, Vol. 32, Web Server issue © Oxford University Press 2004; all rights reserved

MotifViz: an analysis and visualization tool for motif discovery

Yutao Fu1, Martin C. Frith1, Peter M. Haverty1 and Zhiping Weng1,2,*

1 Bioinformatics Program and 2 Biomedical Engineering Department, Boston University, Boston, MA 02215, USA

* To whom all correspondence should be addressed. Tel: +1 617 353 3509; Fax: +1 617 353 6766; Email: zhiping{at}bu.edu

Received February 15, 2004; Revised March 30, 2004; Accepted April 12, 2004

Detecting overrepresented known transcription factor binding motifs in a set of promoter sequences of co-regulated genes has become an important approach to deciphering transcriptional regulatory mechanisms. In this paper, we present an interactive web server, MotifViz, for three motif discovery programs, Clover, Rover and Motifish, covering most available flavors of algorithms for achieving this goal. For comparison, we have also implemented the simple motif-matching program Possum. MotifViz provides uniform and intuitive input and output formats for all four programs. It can be accessed at http://biowulf.bu.edu/MotifViz.

The online version of this article has been published under an open access model. Users are entitled to use, reproduce, disseminate, or display the open access version of this article provided that: the original authorship is properly and fully attributed; the Journal and Oxford University Press are attributed as the original place of publication with the correct citation details given; if an article is subsequently reproduced or disseminated not in its entirety but only in part or as a derivative work this must be clearly indicated.


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