INCLUSive: integrated clustering, upstream sequence retrieval and motif sampling.

Gert Thijs; Yves Moreau; Frank De Smet; Janick Mathys; Magali Lescot; Stephane Rombauts; Pierre Rouze; Bart De Moor; Kathleen Marchal

doi:10.1093/bioinformatics/18.2.331

PubMed · 11847086

INCLUSive: integrated clustering, upstream sequence retrieval and motif sampling.

Gert Thijs·Yves Moreau·Frank De Smet·Janick Mathys·Magali Lescot·Stephane Rombauts·Pierre Rouze·Bart De Moor·Kathleen Marchal

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Abstract

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.

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Algorithms Cluster Analysis Computational Biology Databases, Genetic Gene Expression Profiling Multigene Family Oligonucleotide Array Sequence Analysis Software Journal Article Research Support, Non-U.S. Gov't

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Gert Thijs, Yves Moreau, Frank De Smet, Janick Mathys, Magali Lescot, Stephane Rombauts, Pierre Rouze, Bart De Moor, Kathleen Marchal. 2002. INCLUSive: integrated clustering, upstream sequence retrieval and motif sampling.. https://doi.org/10.1093/bioinformatics%2F18.2.331

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