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Bioinformatics Advance Access originally published online on February 2, 2006
Bioinformatics 2006 22(9):1152-1153; doi:10.1093/bioinformatics/btl038
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© The Author 2006. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org

FANMOD: a tool for fast network motif detection

Sebastian Wernicke * and Florian Rasche

Institut für Informatik, Friedrich-Schiller-Universität Jena Ernst-Abbe-Platz 2, 07743 Jena, Germany

*To whom correspondence should be addressed.

Summary: Motifs are small connected subnetworks that a network displays in significantly higher frequencies than would be expected for a random network. They have recently gathered much attention as a concept to uncover structural design principles of complex biological networks. FANMOD is a tool for fast network motif detection; it relies on recently developed algorithms to improve the efficiency of network motif detection by some orders of magnitude over existing tools. This facilitates the detection of larger motifs in bigger networks than previously possible. Additional benefits of FANMOD are the ability to analyze colored networks, a graphical user interface and the ability to export results to a variety of machine- and human-readable file formats including comma-separated values and HTML.

Availability: The tool is freely available online at http://www.minet.uni-jena.de/~wernicke/motifs/ and runs under Linux, Mac OS and Windows.

Contact: wernicke{at}minet.uni-jena.de

Received on January 3, 2006; revised on February 1, 2006; accepted on February 1, 2006

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