Object-Oriented Knowledge Bases for the Analysis of Prokaryotic and Eukaryotic Genomes. - Guy Perrière; Frank Dorkeld; François Rechenmann; Christian Gautier (ISMB, 1993)

Building Large Knowledge Bases in Molecular Biology. - Olivier Schmeltzer; Claudine Médigue; P. Uvietta; François Rechenmann; Frank Dorkeld; Guy Perrière; Christian Gautier (ISMB, 1993)

Building Integrated Systems for Data Representation and Analysis in Molecular Biology. - Guy Perrière; François Chevenet; Frank Dorkeld; Thierry Vermat; Christian Gautier (HICSS (5), 1994)

LALNVIEW: a graphical viewer for pairwise sequence alignments. - Laurent Duret; Elisabeth Gasteiger; Guy Perrière (Comput. Appl. Biosci., 1996)

Correspondence discriminant analysis: a multivariate method for comparing classes of protein and nucleic acid sequences. - Guy Perrière; J. R. Lobry; Jean Thioulouse (Comput. Appl. Biosci., 1996)

On-line tools for sequence retrieval and multivariate statistics in molecular biology. - Guy Perrière; Jean Thioulouse (Comput. Appl. Biosci., 1996)

NRSub: a non-redundant database for Bacillus subtilis. - Guy Perrière; Ivan Moszer; Takashi Gojobori (Nucleic Acids Res., 1996)

The NRSub database: update 1997. - Guy Perrière; Ivan Moszer; Takashi Gojobori (Nucleic Acids Res., 1997)

The non-redundant Bacillus subtilis (NRSub) database: update 1998. - Guy Perrière; Manolo Gouy; Takashi Gojobori (Nucleic Acids Res., 1998)

HOBACGEN: A database of homologous genes in bacteria. - Guy Perrière; Laurent Duret (German Conference on Bioinformatics, 1999)

JaDis: computing distances between nucleic acid sequences. - Isabelle Gonçalves; Marc Robinson-Rechavi; Guy Perrière; Dominique Mouchiroud (Bioinform., 1999)

The Enhanced Microbial Genomes Library. - Guy Perrière; Philippe Bessières; Bernard Labedan (Nucleic Acids Res., 1999)

EMGLib: the Enhanced Microbial Genomes Library (update 2000). - Guy Perrière; Philippe Bessières; Bernard Labedan (Nucleic Acids Res., 2000)

Between-group analysis of microarray data. - Aedín C. Culhane; Guy Perrière; Elizabeth C. Considine; Thomas G. Cotter; Desmond G. Higgins (Bioinform., 2002)

NUREBASE: database of nuclear hormone receptors. - Jorge Duarte; Guy Perrière; Vincent Laudet; Marc Robinson-Rechavi (Nucleic Acids Res., 2002)

Cross-platform comparison and visualisation of gene expression data using co-inertia analysis. - Aedín C. Culhane; Guy Perrière; Desmond G. Higgins (BMC Bioinform., 2003)

Use of correspondence discriminant analysis to predict the subcellular location of bacterial proteins. - Guy Perrière; Jean Thioulouse (Comput. Methods Programs Biomed., 2003)

RTKdb: database of receptor tyrosine kinase. - Julien Grassot; Guy Mouchiroud; Guy Perrière (Nucleic Acids Res., 2003)

Integrated databanks access and sequence/structure analysis services at the PBIL. - Guy Perrière; Christophe Combet; Simon Penel; Christophe Blanchet; Jean Thioulouse; Christophe Geourjon; Julien Grassot; Céline Charavay; Manolo Gouy; Laurent Duret; Gilbert Deléage (Nucleic Acids Res., 2003)

Super-tree Approach for Studying the Phylogeny of Prokaryotes: New Results on Completely Sequenced Genomes. - Alexandra Calteau; Vincent Daubin; Guy Perrière (International Conference on Computational Science, 2004)

Update of NUREBASE: nuclear hormone receptor functional genomics. - David Ruau; Jorge Duarte; Tarik Ourjdal; Guy Perrière; Vincent Laudet; Marc Robinson-Rechavi (Nucleic Acids Res., 2004)

The European ribosomal RNA database. - Jan Wuyts; Guy Perrière; Yves Van de Peer (Nucleic Acids Res., 2004)

Online synonymous codon usage analyses with the ade4 and seqinR packages. - D. Charif; Jean Thioulouse; J. R. Lobry; Guy Perrière (Bioinform., 2005)

MADE4: an R package for multivariate analysis of gene expression data. - Aedín C. Culhane; Jean Thioulouse; Guy Perrière; Desmond G. Higgins (Bioinform., 2005)

Tree pattern matching in phylogenetic trees: automatic search for orthologs or paralogs in homologous gene sequence databases. - Jean-François Dufayard; Laurent Duret; Simon Penel; Manolo Gouy; François Rechenmann; Guy Perrière (Bioinform., 2005)

Optimized between-group classification: a new jackknife-based gene selection procedure for genome-wide expression data. - Florent Baty; Michel P. Bihl; Guy Perrière; Aedín C. Culhane; Martin H. Brutsche (BMC Bioinform., 2005)

HoSeqI: automated homologous sequence identification in gene family databases. - Anne-Muriel Arigon; Guy Perrière; Manolo Gouy (Bioinform., 2006)

Integrating transcription factor binding site information with gene expression datasets. - Ian B. Jeffery; Stephen F. Madden; Paul A. McGettigan; Guy Perrière; Aedín C. Culhane; Desmond G. Higgins (Bioinform., 2007)

Databases of homologous gene families for comparative genomics. - Simon Penel; Anne-Muriel Arigon; Jean-François Dufayard; Anne-Sophie Sertier; Vincent Daubin; Laurent Duret; Manolo Gouy; Guy Perrière (BMC Bioinform., 2009)

TPMS: a set of utilities for querying collections of gene trees. - Thomas Bigot; Vincent Daubin; Florent Lassalle; Guy Perrière (BMC Bioinform., 2013)

leBIBI QBPP : a set of databases and a webtool for automatic phylogenetic analysis of prokaryotic sequences. - Jean-Pierre Flandrois; Guy Perrière; Manolo Gouy (BMC Bioinform., 2015)