Evaluation of gene prediction software using a genomic data set: application to <$O_SSF>Arabidopsis thaliana<$C_SSF>sequences. - Nathalie Pavy; Stephane Rombauts; Patrice Déhais; Catherine Mathé; Ramana V. Davuluri; Philippe Leroy; Pierre Rouzé (Bioinform., 1999)

PlantCARE, a plant cis-acting regulatory element database. - Stephane Rombauts; Patrice Déhais; Marc Van Montagu; Pierre Rouzé (Nucleic Acids Res., 1999)

EUGÈNE: An Eukaryotic Gene Finder That Combines Several Sources of Evidence. - Thomas Schiex; Annick Moisan; Pierre Rouzé (JOBIM, 2000)

A Gibbs sampling method to detect over-represented motifs in the upstream regions of co-expressed genes. - Gert Thijs; Kathleen Marchal; Magali Lescot; Stephane Rombauts; Bart De Moor; Pierre Rouzé; Yves Moreau (RECOMB, 2001)

A higher-order background model improves the detection of promoter regulatory elements by Gibbs sampling. - Gert Thijs; Magali Lescot; Kathleen Marchal; Stephane Rombauts; Bart De Moor; Pierre Rouzé; Yves Moreau (Bioinform., 2001)

Feature subset selection for splice site prediction. - Sven Degroeve; Bernard De Baets; Yves Van de Peer; Pierre Rouzé (ECCB, 2002)

INCLUSive: INtegrated Clustering, Upstream sequence retrieval and motif Sampling. - Gert Thijs; Yves Moreau; Frank De Smet; Janick Mathys; Magali Lescot; Stephane Rombauts; Pierre Rouzé; Bart De Moor; Kathleen Marchal (Bioinform., 2002)

A Gibbs Sampling Method to Detect Overrepresented Motifs in the Upstream Regions of Coexpressed Genes. - Gert Thijs; Kathleen Marchal; Magali Lescot; Stephane Rombauts; Bart De Moor; Pierre Rouzé; Yves Moreau (J. Comput. Biol., 2002)

PlantCARE, a database of plant cis-acting regulatory elements and a portal to tools for in silico analysis of promoter sequences. - Magali Lescot; Patrice Déhais; Gert Thijs; Kathleen Marchal; Yves Moreau; Yves Van de Peer; Pierre Rouzé; Stephane Rombauts (Nucleic Acids Res., 2002)

Fast feature selection using a simple estimation of distribution algorithm: a case study on splice site prediction. - Yvan Saeys; Sven Degroeve; Dirk Aeyels; Yves Van de Peer; Pierre Rouzé (ECCB, 2003)

AFLPinSilico, simulating AFLP fingerprints. - Stephane Rombauts; Yves Van de Peer; Pierre Rouzé (Bioinform., 2003)

Automatic design of gene-specific sequence tags for genome-wide functional studies. - Vincent Thareau; Patrice Déhais; Carine Serizet; Pierre Hilson; Pierre Rouzé; Sébastien Aubourg (Bioinform., 2003)

CATMA: a complete Arabidopsis GST database. - Mark L. Crowe; Carine Serizet; Vincent Thareau; Sébastien Aubourg; Pierre Rouzé; Pierre Hilson; Jim Beynon; Peter Weisbeek; Paul van Hummelen; Philippe Reymond; Javier Paz-Ares; Wilfried Nietfeld; et al. (Nucleic Acids Res., 2003)

Orphan gene finding - an exon assembly approach. - Philippe Blayo; Pierre Rouzé; Marie-France Sagot (Theor. Comput. Sci., 2003)

Evidence that microRNA precursors, unlike other non-coding RNAs, have lower folding free energies than random sequences. - Eric Bonnet; Jan Wuyts; Pierre Rouzé; Yves Van de Peer (Bioinform., 2004)

Feature selection for splice site prediction: A new method using EDA-based feature ranking. - Yvan Saeys; Sven Degroeve; Dirk Aeyels; Pierre Rouzé; Yves Van de Peer (BMC Bioinform., 2004)

SpliceMachine: predicting splice sites from high-dimensional local context representations. - Sven Degroeve; Yvan Saeys; Bernard De Baets; Pierre Rouzé; Yves Van de Peer (Bioinform., 2005)

GeneFarm, structural and functional annotation of Arabidopsis gene and protein families by a network of experts. - Sébastien Aubourg; Véronique Brunaud; Clémence Bruyère; J. Mark Cock; Richard Cooke 003; Annick Cottet; Arnaud Couloux; Patrice Déhais; Gilbert Deléage; Aymeric Duclert; Manuel Echeverria; Aimée Eschbach; et al. (Nucleic Acids Res., 2005)

In search of the small ones: improved prediction of short exons in vertebrates, plants, fungi and protists. - Yvan Saeys; Pierre Rouzé; Yves Van de Peer (Bioinform., 2007)

ProSOM: core promoter prediction based on unsupervised clustering of DNA physical profiles. - Thomas Abeel; Yvan Saeys; Pierre Rouzé; Yves Van de Peer (ISMB, 2008)