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
Gert
G
ESAT_ SISTA/COSIC, KULeuven, Kasteelpark Arenberg 10, 3001 Leuven-Heverlee, Belgium. Gert.Thijs@esat.kuleuven.ac.be
Moreau
Yves
Y
De Smet
Frank
F
Mathys
Janick
J
Lescot
Magali
M
Rombauts
Stephane
S
Rouze
Pierre
P
De Moor
Bart
B
Marchal
Kathleen
K
D000465:Algorithms; D016000:Cluster Analysis; D019295:Computational Biology; D030541:Databases, Genetic; D020869:Gene Expression Profiling / Q000706:statistics & numerical data; D005810:Multigene Family; D020411:Oligonucleotide Array Sequence Analysis / Q000706:statistics & numerical data*; D012984:Software