Genome Biology

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A novel approach to identifying regulatory motifs in distantly related genomes

Ruth Van Hellemont, Pieter Monsieurs, Gert Thijs, Bart De Moor, Yves Van de Peer and Kathleen Marchal*

Genome Biology 2005, 6:R113 doi:10.1186/gb-2005-6-13-r113

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Research article   Open Access

A generic approach to identify Transcription Factor-specific operator motifs; Inferences for LacI-family mediated regulation in Lactobacillus plantarum WCFS1

Christof Francke, Robert Kerkhoven, Michiel Wels, Roland J Siezen BMC Genomics 2008, 9:145 (27 March 2008)

Research article   Open Access

Evolutionary hierarchies of conserved blocks in 5'-noncoding sequences of dicot rbcS genes

Katie E Weeks, Nadia A Chuzhanova, Iain S Donnison, Ian M Scott BMC Evolutionary Biology 2007, 7:51 (2 April 2007)

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Identification of novel regulatory modules in dicotyledonous plants using expression data and comparative genomics

Klaas Vandepoele, Tineke Casneuf, Yves Van de Peer Genome Biology 2006, 7:R103 (7 November 2006)

A strategy combining classical motif overrepresentation in co-regulated genes with comparative footprinting is applied to identify 80 transcription factor binding sites and 139 regulatory modules in Arabidopsis thaliana.

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Shuffling of cis-regulatory elements is a pervasive feature of the vertebrate lineage

Remo Sanges, Eva Kalmar, Pamela Claudiani, Maria D'Amato, Ferenc Muller, Elia Stupka Genome Biology 2006, 7:R56 (19 July 2006)

Alignment of orthologous vertebrate loci reveals that a significant proportion of conserved cis-regulatory elements have undergone shuffling during evolution.