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Inferring transcriptional modules from ChIP-chip, motif and microarray data.

ABSTRACT: 'ReMoDiscovery' is an intuitive algorithm to correlate regulatory programs with regulators and corresponding motifs to a set of co-expressed genes. It exploits in a concurrent way three independent data sources: ChIP-chip data, motif information and gene expression profiles. When compared to published module discovery algorithms, ReMoDiscovery is fast and easily tunable. We evaluated our method on yeast data, where it was shown to generate biologically meaningful findings and allowed the prediction of potential novel roles of transcriptional regulators.

SUBMITTER: Lemmens K

PROVIDER: S-EPMC1779513 | biostudies-literature | 2006

REPOSITORIES: biostudies-literature

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Inferring transcriptional modules from ChIP-chip, motif and microarray data.

Lemmens Karen K Dhollander Thomas T De Bie Tijl T Monsieurs Pieter P Engelen Kristof K Smets Bart B Winderickx Joris J De Moor Bart B Marchal Kathleen K

Genome biology 20060505 5

'ReMoDiscovery' is an intuitive algorithm to correlate regulatory programs with regulators and corresponding motifs to a set of co-expressed genes. It exploits in a concurrent way three independent data sources: ChIP-chip data, motif information and gene expression profiles. When compared to published module discovery algorithms, ReMoDiscovery is fast and easily tunable. We evaluated our method on yeast data, where it was shown to generate biologically meaningful findings and allowed the predict ...[more]

PMID: 16677396

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