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Predictive screening for regulators of conserved functional gene modules (gene batteries) in mammals

Sven Nelander, Erik Larsson, Erik Kristiansson, Robert Månsson, Olle Nerman, Mikael Sigvardsson, Petter Mostad and Per Lindahl*

BMC Genomics 2005, 6:68 doi:10.1186/1471-2164-6-68

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ModuleMiner - improved computational detection of cis-regulatory modules: are there different modes of gene regulation in embryonic development and adult tissues?

Peter Van Loo, Stein Aerts, Bernard Thienpont, Bart De Moor, Yves Moreau, Peter Marynen Genome Biology 2008, 9:R66 (7 April 2008)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central |  Editor’s summary

ModuleMiner detects cis-regulatory modules in a set of co-expressed genes in tissue-specific microarray clusters and in embryonic development datasets.

Method   Open Access Highly Accessed

Computational discovery of cis-regulatory modules in Drosophila without prior knowledge of motifs

Andra Ivan, Marc S Halfon, Saurabh Sinha Genome Biology 2008, 9:R22 (28 January 2008)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central |  Editor’s summary

Prediction of cis-regulatory modules ab initio, without any input of relevant motifs, is achieved with two novel methods.

Research article   Open Access

Positional bias of general and tissue-specific regulatory motifs in mouse gene promoters

Nicolás Bellora, Domènec Farré, M Mar Albà BMC Genomics 2007, 8:459 (13 December 2007)

Abstract | Full text | PDF | PubMed | Cited on BioMed Central

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