GIMSAN: a Gibbs motif finder with significance analysis

Patrick Ng; Uri Keich

doi:10.1093/bioinformatics/btn408

GIMSAN: a Gibbs motif finder with significance analysis

Bioinformatics. 2008 Oct 1;24(19):2256-7. doi: 10.1093/bioinformatics/btn408. Epub 2008 Aug 14.

Authors

Patrick Ng¹, Uri Keich

Affiliation

¹ Department of Computer Science, Cornell University, Ithaca, NY 14853, USA.

PMID: 18703586
DOI: 10.1093/bioinformatics/btn408

Abstract

We present GIMSAN (GIbbsMarkov with Significance ANalysis): a novel tool for de novo motif finding. GIMSAN combines GibbsMarkov, our variant of the Gibbs Sampler, described here for the first time, with our recently introduced significance analysis.

Availability: GIMSAN is currently available as a web application and a stand-alone application on Unix and PBS (Portable Batch System) cluster through links from http://www.cs.cornell.edu/~keich.

Publication types

Research Support, Non-U.S. Gov't
Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

Algorithms*
Amino Acid Motifs
Sequence Alignment
Sequence Analysis, DNA*
Software*