BAliBASE: a benchmark alignment database for the evaluation of multiple alignment programs. - Julie Dawn Thompson; Frédéric Plewniak; Olivier Poch (Bioinform., 1999)

A comprehensive comparison of multiple sequence alignment programs. - Julie Dawn Thompson; Frédéric Plewniak; Olivier Poch (Nucleic Acids Res., 1999)

Ballast: Blast post-processing based on locally conserved segments. - Frédéric Plewniak; Julie Dawn Thompson; Olivier Poch (Bioinform., 2000)

BAliBASE (Benchmark Alignment dataBASE): enhancements for repeats, transmembrane sequences and circular permutations. - Anne Bahr; Julie Dawn Thompson; Jean-Claude Thierry; Olivier Poch (Nucleic Acids Res., 2001)

RASCAL: Rapid Scanning and Correction of Multiple Sequence Alignments. - Julie Dawn Thompson; Jean-Claude Thierry; Olivier Poch (Bioinform., 2003)

PipeAlign: a new toolkit for protein family analysis. - Frédéric Plewniak; Laurent Bianchetti; Yann Brelivet; Annaick Carles; Frédéric Chalmel; Odile Lecompte; Thiebaut Mochel; Luc Moulinier; Arnaud Muller; Jean Muller; Veronique Prigent; Raymond Ripp; et al. (Nucleic Acids Res., 2003)

GOAnno: GO annotation based on multiple alignment. - Frédéric Chalmel; Aurélie Lardenois; Julie Dawn Thompson; Jean Muller; José-Alain Sahel; Thierry Léveillard; Olivier Poch (Bioinform., 2005)

DbW: automatic update of a functional family-specific multiple alignment. - Veronique Prigent; Jean-Claude Thierry; Olivier Poch; Frédéric Plewniak (Bioinform., 2005)

Valid: Validation of Protein Sequence Quality Based on Multiple Alignment Data. - Laurent Bianchetti; Julie Dawn Thompson; Odile Lecompte; Frédéric Plewniak; Olivier Poch (J. Bioinform. Comput. Biol., 2005)

MAGOS: multiple alignment and modelling server. - Nicolas B. Garnier; Anne Friedrich; Raphael Bolze; Emmanuel Bettler; Luc Moulinier; Christophe Geourjon; Julie Dawn Thompson; Gilbert Deléage; Olivier Poch (Bioinform., 2006)

MACSIMS : multiple alignment of complete sequences information management system. - Julie Dawn Thompson; Arnaud Muller; Andrew M. Waterhouse; James B. Procter; Geoffrey J. Barton; Frédéric Plewniak; Olivier Poch (BMC Bioinform., 2006)

PromAn: an integrated knowledge-based web server dedicated to promoter analysis. - Aurélie Lardenois; Frédéric Chalmel; Laurent Bianchetti; José-Alain Sahel; Thierry Léveillard; Olivier Poch (Nucleic Acids Res., 2006)

ICDS database: interrupted CoDing sequences in prokaryotic genomes. - Emmanuel Perrodou; Caroline Deshayes; Jean Muller; Christine Schaeffer; Alain Van Dorsselaer; Raymond Ripp; Olivier Poch; Jean-Marc Reyrat; Odile Lecompte (Nucleic Acids Res., 2006)

A Geometric Representation of Protein Sequences. - Shengyin Gu; Olivier Poch; Bernd Hamann; Patrice Koehl (BIBM, 2007)

Blast sampling for structural and functional analyses. - Anne Friedrich; Raymond Ripp; Nicolas B. Garnier; Emmanuel Bettler; Gilbert Deléage; Olivier Poch; Luc Moulinier (BMC Bioinform., 2007)

PeroxisomeDB: a database for the peroxisomal proteome, functional genomics and disease. - Agatha Schlüter; Stéphane Fourcade; Enric Domènech-Estévez; Toni Gabaldón; Jaime Huerta-Cepas; Guillaume Berthommier; Raymond Ripp; Ronald J. A. Wanders; Olivier Poch; Aurora Pujol (Nucleic Acids Res., 2007)

Introduction du nouveau centre de données biomédicales Décrypthon. - Hoan Nguyen; Guillaume Berthommier; Anne Friedrich; Laetitia Poidevin; Raymond Ripp; Luc Moulinier; Olivier Poch (CORIA, 2008)

RReportGenerator: automatic reports from routine statistical analysis using R. - Wolfgang Raffelsberger; Yannick Krause; Luc Moulinier; David Kieffer; Anne-Laure Morand; Laurent Brino; Olivier Poch (Bioinform., 2008)

A new protein linear motif benchmark for multiple sequence alignment software. - Emmanuel Perrodou; Claudia Chica; Olivier Poch; Toby J. Gibson; Julie Dawn Thompson (BMC Bioinform., 2008)

A maximum likelihood approximation method for Dirichlet's parameter estimation. - Nicolas Wicker; Jean Muller; Ravi Kiran Reddy Kalathur; Olivier Poch (Comput. Stat. Data Anal., 2008)

Analyse de données transcriptomiques: Modélisation floue de profils d'expression différentielle et analyse fonctionnelle. - Sidahmed Benabderrahmane; Marie-Dominique Devignes; Malika Smaïl-Tabbone; Amedeo Napoli; Olivier Poch; Ngoc-Hoan Nguyen; Wolfgang Raffelsberger (INFORSID, 2009)

Knowledge-based expert systems and a proof-of-concept case study for multiple sequence alignment construction and analysis. - Mohamed Radhouene Aniba; Sophie Siguenza; Anne Friedrich; Frédéric Plewniak; Olivier Poch; Aron Marchler-Bauer; Julie Dawn Thompson (Briefings Bioinform., 2009)

Comparison of eukaryotic phylogenetic profiling approaches using species tree aware methods. - Valentín Ruano-Rubio; Olivier Poch; Julie Dawn Thompson (BMC Bioinform., 2009)

Décrypthon Grid - Grid Resources Dedicated to Neuromuscular Disorders. - Nicolas Bard; Raphael Bolze; Eddy Caron; Frédéric Desprez; Michaël Heymann; Anne Friedrich; Luc Moulinier; Ngoc-Hoan Nguyen; Olivier Poch; Thierry Toursel (HealthGrid, 2010)

IntelliGO: a new vector-based semantic similarity measure including annotation origin. - Sidahmed Benabderrahmane; Malika Smaïl-Tabbone; Olivier Poch; Amedeo Napoli; Marie-Dominique Devignes (BMC Bioinform., 2010)

Multidimensional Fitting for Multivariate Data Analysis. - Claude Berge; Nicolas Froloff; Ravi Kiran Reddy Kalathur; Myriam Maumy; Olivier Poch; Wolfgang Raffelsberger; Nicolas Wicker (J. Comput. Biol., 2010)

Ontology-based functional classification of genes: Evaluation with reference sets and overlap analysis. - Sidahmed Benabderrahmane; Marie-Dominique Devignes; Malika Smaïl-Tabbone; Amedeo Napoli; Olivier Poch (BIBM Workshops, 2011)

OrthoInspector: comprehensive orthology analysis and visual exploration. - Benjamin Linard; Julie Dawn Thompson; Olivier Poch; Odile Lecompte (BMC Bioinform., 2011)

M-ORBIS: Mapping of mOleculaR Binding sItes and Surfaces. - Laurent-Philippe Albou; Olivier Poch; Dino Moras (Nucleic Acids Res., 2011)

MSV3d: database of human MisSense variants mapped to 3D protein structure. - Tien-Dao Luu; Alin-Mihai Rusu; Vincent Walter; Raymond Ripp; Luc Moulinier; Jean Muller; Thierry Toursel; Julie Dawn Thompson; Olivier Poch; Hoan Nguyen (Database J. Biol. Databases Curation, 2012)

Functional classification of genes using semantic distance and fuzzy clustering approach: evaluation with reference sets and overlap analysis. - Marie-Dominique Devignes; Sidahmed Benabderrahmane; Malika Smaïl-Tabbone; Amedeo Napoli; Olivier Poch (Int. J. Comput. Biol. Drug Des., 2012)

KD4v: comprehensible knowledge discovery system for missense variant. - Tien-Dao Luu; Alin Rusu; Vincent Walter; Benjamin Linard; Laetitia Poidevin; Raymond Ripp; Luc Moulinier; Jean Muller; Wolfgang Raffelsberger; Nicolas Wicker; Odile Lecompte; Julie Dawn Thompson; et al. (Nucleic Acids Res., 2012)

PARSEC: PAtteRn SEarch and Contextualization. - Alexis Allot; Yannick-Noël Anno; Laetitia Poidevin; Raymond Ripp; Olivier Poch; Odile Lecompte (Bioinform., 2013)

SIBIS: a Bayesian model for inconsistent protein sequence estimation. - Walyd Khenoussi; Renaud Vanhoutrève; Olivier Poch; Julie Dawn Thompson (Bioinform., 2014)

A comprehensive study of small non-frameshift insertions/deletions in proteins and prediction of their phenotypic effects by a machine learning method (KD4i). - Carlos Bermejo-Das-Neves; Hoan-Ngoc Nguyen; Olivier Poch; Julie Dawn Thompson (BMC Bioinform., 2014)

Heterogeneous biological data integration with declarative query language. - Hoan Nguyen; Laurent Michel; Julie Dawn Thompson; Olivier Poch (IBM J. Res. Dev., 2014)

Intelligent Integrative Knowledge Bases: Bridging Genomics, Integrative Biology and Translational Medicine. - Hoan Nguyen; Julie Dawn Thompson; Patrick Schutz; Olivier Poch (Interactive Knowledge Discovery and Data Mining in Biomedical Informatics, 2014)

OrthoInspector 2.0: Software and database updates. - Benjamin Linard; Alexis Allot; Raphael Schneider; Can Morel; Raymond Ripp; Marc Bigler; Julie Dawn Thompson; Olivier Poch; Odile Lecompte (Bioinform., 2015)

LEON-BIS: multiple alignment evaluation of sequence neighbours using a Bayesian inference system. - Renaud Vanhoutrève; Arnaud Kress; Baptiste Legrand; Hélène Gass; Olivier Poch; Julie Dawn Thompson (BMC Bioinform., 2016)

PROBE: analysis and visualization of protein block-level evolution. - Arnaud Kress; Odile Lecompte; Olivier Poch; Julie Dawn Thompson (Bioinform., 2018)

Evolutionary conservation and functional implications of circular code motifs in eukaryotic genomes. - Gopal Dila; Christian J. Michel; Olivier Poch; Raymond Ripp; Julie Dawn Thompson (Biosyst., 2019)

OrthoInspector 3.0: open portal for comparative genomics. - Yannis Nevers; Arnaud Kress; Audrey Defosset; Raymond Ripp; Benjamin Linard; Julie Dawn Thompson; Olivier Poch; Odile Lecompte (Nucleic Acids Res., 2019)

Understanding the causes of errors in eukaryotic protein-coding gene prediction: a case study of primate proteomes. - Corentin Meyer; Nicolas Scalzitti; Anne Jeannin-Girardon; Pierre Collet; Olivier Poch; Julie Dawn Thompson (BMC Bioinform., 2020)

Potential role of the X circular code in the regulation of gene expression. - Julie Dawn Thompson; Raymond Ripp; Claudine Mayer; Olivier Poch; Christian J. Michel (Biosyst., 2021)

Spliceator: multi-species splice site prediction using convolutional neural networks. - Nicolas Scalzitti; Arnaud Kress; Romain Orhand; Thomas Weber; Luc Moulinier; Anne Jeannin-Girardon; Pierre Collet; Olivier Poch; Julie Dawn Thompson (BMC Bioinform., 2021)

Real or fake? Measuring the impact of protein annotation errors on estimates of domain gain and loss events. - Arnaud Kress; Olivier Poch; Odile Lecompte; Julie Dawn Thompson (Frontiers Bioinform., 2023)

StopKB: a comprehensive knowledgebase for nonsense suppression therapies. - Nicolas Haas; Julie Dawn Thompson; Jean-Paul Renaud; Kirsley Chennen; Olivier Poch (Database J. Biol. Databases Curation, 2024)