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Bioinformatics Advance Access published online on November 18, 2008
Bioinformatics, doi:10.1093/bioinformatics/btn559
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© The Author (2008). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

Motif Tool Manager: a web-based framework for motif discovery

Vinhthuy Phan 1,2,3,* and Nicholas A. Furlotte 2

1Department of Computer Science, The University of Memphis, Memphis, TN 38152, USA.
2The Bioinformatics Program, The University of Memphis, Memphis, TN 38152, USA.
3The W. Harry Feinstone Center for Genomics Research, The University of Memphis, Memphis, TN 38152, USA.

*To whom correspondence should be addressed. Dr. Vinhthuy Phan, E-mail: vphan{at}memphis.edu


  Abstract

Motivation: Motif Tool Manager is a web-based framework for comparing and combining different approaches to discover novel DNA motifs. It comes with a set of five well-known approaches to motif discovery. It provides an easy mechanism for adding new motif finding tools to the framework through a web-interface and a minimal setup of the tools on the server. Users can execute the tools through the web-based framework and compare results from such executions. The framework provides a basic mechanism for identifying the most similar motif candidates found by a majority of the motif finding tools.

Availability: http://cetus.cs.memphis.edu/motif

Contact: vphan{at}memphis.edu

Associate Editor: Prof. Dmitrij Frishman

Received on June 27, 2008; revised on June 27, 2008; accepted on October 24, 2008

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