The Gibbs Motif Sampler Homepage
Welcome to the Gibbs Motif Sampler Homepage.
The Gibbs Motif Sampler will allow you to identify motifs,
conserved regions, in DNA or protein sequences. This software was
developed by Eric C. Rouchka and Bill Thompson based on work by
C. E. Lawrence, J. S. Liu, L. A. McCue,
A. F. Neuwald, L. A. Newberg and others
(References) as part of the
Bayesian
Bioinformatics Program at the Biometrics Laboratory of
Wadsworth Center.
Gibbs source code and binaries for Linux, MS Windows (using Cygwin), Solaris, Solaris.x86 and MAC OS-X are available here.
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Gibbs is descibed in:
-
Thompson WA, Newberg LA, Conlan S, McCue LA, and Lawrence CE. (2007)
The Gibbs Centroid Sampler.
Nucleic Acids Res.
PubMed: 17483517.
doi: 10.1093/nar/gkm265.
-
Newberg LA, Thompson WA, Conlan S, Smith TM, McCue LA, and Lawrence CE. (2007)
A phylogenetic Gibbs sampler that yields centroid solutions for cis regulatory site prediction.
Bioinformatics.
PubMed: 17488758.
doi: 10.1093/bioinformatics/btm241.
-
Thompson W, Rouchka EC, and Lawrence CE. (2003)
Gibbs Recursive Sampler: finding transcription factor binding sites.
Nucleic Acids Res. 31(13):3580-3585.
PubMed: 12824370.
doi: 10.1093/nar/gkg608.
-
Thompson W, Palumbo MJ, Wasserman WW, Liu JS, and Lawrence CE. (2004)
Decoding human regulatory circuits.
Genome Res. 14(10A):1967-1974.
PubMed: 15466295.
doi:10.1101/gr.2589004.
- Supplementary data for these papers are available here.
Where to go from here:
