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

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.

Thijs, G., Moreau, Y., De Smet, F., Mathys, J., Lescot, M., Rombauts, S., Rouzé, P., De Moor, B., Marchal, K. (2002) INCLUSive: integrated clustering, upstream sequence retrieval and motif sampling. Bioinformatics 18(2):331-2.

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