Bioinformatics Vol. 18 no. 2 2002
Pages 331-332
© 2002 Oxford University Press
Applications Note |
INCLUSive: INtegrated Clustering, Upstream sequence retrieval and motif Sampling
1 ESAT_ SISTA/COSIC, KULeuven, Kasteelpark
Arenberg 10, 3001 Leuven-Heverlee, Belgium
2 Department of Plant Genetics
3 INRA Associated Laboratory, VIB, UGent,
Ledeganckstraat 35, 9000 Gent, Belgium
Received on June 20, 2001
; revised on August 20, 2001
; accepted on September 20, 2001
Summary: INCLUSive allows automatic multistep analysis of microarray data (clustering and motif finding). The clustering algorithm (adaptive quality-based clustering) groups together genes with highly similar expression profiles. The upstream sequences of the genes belonging to a cluster are automatically retrieved from GenBank and can be fed directly into Motif Sampler, a Gibbs sampling algorithm that retrieves statistically over-represented motifs in sets of sequences, in this case upstream regions of co-expressed genes.
Availability: For academic purposes at http://www.esat.kuleuven.ac.be/~dna/BioI/Software.html
Contact: Gert.Thijs{at}esat.kuleuven.ac.be
* To whom correspondence should be addressed. Email: Kathleen.Marchal{at}esat.kuleuven.ac.be.
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