Olivier Gascuel

72 papers A* 2A 2B 1C 5Misc 3Journal 45Unranked 8
YearRankTypeTitle / Venue / Authors
2025 J jnl
Accounting for contact tracing in epidemiological birth-death models.
PLoS Comput. Biol.
Anna Zhukova, Olivier Gascuel
2023 J jnl
A massively parallel branch-&-bound algorithm for the balanced minimum evolution problem.
Comput. Oper. Res.
Daniele Catanzaro, Martin Frohn, Olivier Gascuel, Raffaele Pesenti
2022 J jnl
A tutorial on the balanced minimum evolution problem.
Eur. J. Oper. Res.
Daniele Catanzaro, Martin Frohn, Olivier Gascuel, Raffaele Pesenti
2022 J jnl
VirHunter: A Deep Learning-Based Method for Detection of Novel RNA Viruses in Plant Sequencing Data.
Frontiers Bioinform.
Grigorii Sukhorukov, Maryam Khalili, Olivier Gascuel, Thierry Candresse, Armelle Marais-Colombel, Macha Nikolski
2021 J jnl
COVID-Align: accurate online alignment of hCoV-19 genomes using a profile HMM.
Bioinform.
Frédéric Lemoine, Luc Blassel, Jakub Voznica, Olivier Gascuel
2021 J jnl
Incorporating alignment uncertainty into Felsenstein's phylogenetic bootstrap to improve its reliability.
Bioinform.
Jia-Ming Chang, Evan W. Floden, Javier Herrero, Olivier Gascuel, Paolo Di Tommaso, Cédric Notredame
2021 J jnl
Using machine learning and big data to explore the drug resistance landscape in HIV.
PLoS Comput. Biol.
Luc Blassel, Anna Tostevin, Christian Julian Villabona-Arenas, Martine Peeters, Stéphane Hué, Olivier Gascuel
2019 J jnl
Accounting for ambiguity in ancestral sequence reconstruction.
Bioinform.
Adrien Oliva, Sylvain Pulicani, Vincent Lefort, Laurent Bréhélin, Olivier Gascuel, Stéphane Guindon
2019 J jnl
NGPhylogeny.fr: new generation phylogenetic services for non-specialists.
Nucleic Acids Res.
Frédéric Lemoine, Damien Correia, Vincent Lefort, Olivia Doppelt-Azeroual, Fabien Mareuil, Sarah Cohen-Boulakia, Olivier Gascuel
2019 C conf
Rapidly Computing the Phylogenetic Transfer Index.
WABI
Jakub Truszkowski, Olivier Gascuel, Krister M. Swenson
2018 J jnl
Improving pairwise comparison of protein sequences with domain co-occurrence.
PLoS Comput. Biol.
Christophe Menichelli, Olivier Gascuel, Laurent Bréhélin
2018 J jnl
Renewing Felsenstein's phylogenetic bootstrap in the era of big data.
Nat.
Frédéric Lemoine, Jean-Baka Domelevo Entfellner, Eduan Wilkinson, Damien Correia, Miraine Dávila Felipe, Tulio de Oliveira, Olivier Gascuel
2017 J jnl
Inferring epidemiological parameters from phylogenies using regression-ABC: A comparative study.
PLoS Comput. Biol.
Emma Saulnier, Olivier Gascuel, Samuel Alizon
2016 J jnl
A 'Stochastic Safety Radius' for Distance-Based Tree Reconstruction.
Algorithmica
Olivier Gascuel, Mike A. Steel
2016 — ch.
Distance-Based Phylogeny Reconstruction: Safety and Edge Radius.
Encyclopedia of Algorithms
Olivier Gascuel, Fabio Pardi, Jakub Truszkowski
2016 J jnl
Fast and accurate branch lengths estimation for phylogenomic trees.
BMC Bioinform.
Manuel Binet, Olivier Gascuel, Céline Scornavacca, Emmanuel J. P. Douzery, Fabio Pardi
2015 J jnl
TCS: a web server for multiple sequence alignment evaluation and phylogenetic reconstruction.
Nucleic Acids Res.
Jia-Ming Chang, Paolo Di Tommaso, Vincent Lefort, Olivier Gascuel, Cédric Notredame
2014 J jnl
FastMG: a simple, fast, and accurate maximum likelihood procedure to estimate amino acid replacement rate matrices from large data sets.
BMC Bioinform.
Cuong Cao Dang, Le Sy Vinh, Olivier Gascuel, Bart Hazes, Si Quang Le
2013 J jnl
Searching for virus phylotypes.
Bioinform.
François Chevenet, Matthieu Jung, Martine Peeters, Tulio de Oliveira, Olivier Gascuel
2013 Misc conf
The Behavior of Admixed Populations in Neighbor-Joining Inference of Population Trees.
Pacific Symposium on Biocomputing
Naama M. Kopelman, Lewi Stone, Olivier Gascuel, Noah A. Rosenberg
2012 — conf
Enhancing Protein Domain Detection Using Domain Co-occurrence and Domain Exclusion.
DEXA Workshops
Amel Ghouila, Olivier Gascuel, Sadok Ben Yahia, Laurent Bréhélin
2012 J jnl
Fitting hidden Markov models of protein domains to a target species: application to Plasmodium falciparum.
BMC Bioinform.
Nicolas Terrapon, Olivier Gascuel, Eric Maréchal, Laurent Bréhélin
2011 J jnl
ReplacementMatrix: a web server for maximum-likelihood estimation of amino acid replacement rate matrices.
Bioinform.
Cuong Cao Dang, Vincent Lefort, Le Sy Vinh, Si Quang Le, Olivier Gascuel
2009 J jnl
Consistency of Topological Moves Based on the Balanced Minimum Evolution Principle of Phylogenetic Inference.
IEEE ACM Trans. Comput. Biol. Bioinform.
Magnus Bordewich, Olivier Gascuel, Katharina T. Huber, Vincent Moulton
2009 J jnl
Detection of new protein domains using co-occurrence: application to
Bioinform.
Nicolas Terrapon, Olivier Gascuel, Eric Maréchal, Laurent Bréhélin
2008 — ch.
Distance-Based Phylogeny Reconstruction (Optimal Radius).
Encyclopedia of Algorithms
Richard Desper, Olivier Gascuel
2008 J jnl
Empirical profile mixture models for phylogenetic reconstruction.
Bioinform.
Si Quang Le, Olivier Gascuel, Nicolas Lartillot
2008 J jnl
Fast NJ-like algorithms to deal with incomplete distance matrices.
BMC Bioinform.
Alexis Criscuolo, Olivier Gascuel
2008 J jnl
Phylogeny.fr: robust phylogenetic analysis for the non-specialist.
Nucleic Acids Res.
Alexis Dereeper, Valentin Guignon, Guillaume Blanc, Stéphane Audic, S. Buffet, François Chevenet, Jean-François Dufayard, Stéphane Guindon, Vincent Lefort, Magali Lescot, Jean-Michel Claverie, Olivier Gascuel
2008 J jnl
PlasmoDraft: a database of
BMC Bioinform.
Laurent Bréhélin, Jean-François Dufayard, Olivier Gascuel
2008 J jnl
Using repeated measurements to validate hierarchical gene clusters.
Bioinform.
Laurent Bréhélin, Olivier Gascuel, Olivier Martin
2007 J jnl
Duplication and Inversion History of a Tandemly Repeated Genes Family.
J. Comput. Biol.
Mathieu Lajoie, Denis Bertrand, Nadia El-Mabrouk, Olivier Gascuel
2007 — book
Mathematics of Evolution and Phylogeny.
Olivier Gascuel
2007 — ch.
Reconstructing the duplication history of tandemly repeated sequences.
Mathematics of Evolution and Phylogeny
Olivier Gascuel, Denis Bertrand, Olivier Elemento
2007 — ch.
The minimum evolution distance-based approach of phylogenetic inference.
Mathematics of Evolution and Phylogeny
Richard Desper, Olivier Gascuel
2006 J jnl
A simple method to predict protein-binding from aligned sequences - application to MHC superfamily and ß2-microglobulin.
Bioinform.
Elodie Duprat, Marie-Paule Lefranc, Olivier Gascuel
2006 — conf
Evolution of Tandemly Repeated Sequences Through Duplication and Inversion.
Comparative Genomics
Denis Bertrand, Mathieu Lajoie, Nadia El-Mabrouk, Olivier Gascuel
2005 J jnl
An exact and polynomial distance-based algorithm to reconstruct single copy tandem duplication trees.
J. Discrete Algorithms
Olivier Elemento, Olivier Gascuel
2005 J jnl
Discrimination of yeast genes involved in methionine and phosphate metabolism on the basis of upstream motifs.
Bioinform.
Didier Gonze, Sylvie Pinloche, Olivier Gascuel, Jacques van Helden
2005 J jnl
Improving the efficiency of SPR moves in phylogenetic tree search methods based on maximum likelihood.
Bioinform.
Wim Hordijk, Olivier Gascuel
2005 J jnl
PHYML Online - a web server for fast maximum likelihood-based phylogenetic inference.
Nucleic Acids Res.
Stéphane Guindon, Franck Lethiec, Patrice Duroux, Olivier Gascuel
2005 J jnl
Topological Rearrangements and Local Search Method for Tandem Duplication Trees.
IEEE ACM Trans. Comput. Biol. Bioinform.
Denis Bertrand, Olivier Gascuel
2004 J jnl
Performance Analysis of Hierarchical Clustering Algorithms.
J. Classif.
Olivier Gascuel, Andy McKenzie
2004 C conf
Topological Rearrangements and Local Search Method for Tandem Duplication Trees.
WABI
Denis Bertrand, Olivier Gascuel
2003 J jnl
A Ring Architecture Strategy for BIST Test Pattern Generation.
J. Electron. Test.
Christophe Fagot, Olivier Gascuel, Patrick Girard, Christian Landrault
2003 B conf
An Exact and Polynomial Distance-Based Algorithm to Reconstruct Single Copy Tandem Duplication Trees.
CPM
Olivier Elemento, Olivier Gascuel
2003 J jnl
On the consistency of the minimum evolution principle of phylogenetic inference.
Discret. Appl. Math.
François Denis, Olivier Gascuel
2002 C conf
An efficient and accurate distance based algorithm to reconstruct tandem duplication trees.
ECCB
Olivier Elemento, Olivier Gascuel
2002 C conf
Fast and Accurate Phylogeny Reconstruction Algorithms Based on the Minimum-Evolution Principle.
WABI
Richard Desper, Olivier Gascuel
2002 J jnl
Fast and Accurate Phylogeny Reconstruction Algorithms Based on the Minimum-Evolution Principle.
J. Comput. Biol.
Richard Desper, Olivier Gascuel
2001 C ed.
Algorithms in Bioinformatics, First International Workshop, WABI 2001, Aarhus, Denmark, August 28-31, 2001, Proceedings
WABI
Olivier Gascuel, Bernard M. E. Moret
2001 — ed.
Computational Biology, First International Conference on Biology, Informatics, and Mathematics, JOBIM 2000, Montpellier, France, May 3-5, 2000, Selected Papers
JOBIM
Olivier Gascuel, Marie-France Sagot
2001 J jnl
Hidden Markov Models with Patterns to Learn Boolean Vector Sequences and Application to the Built-In Self-Test for Integrated Circuits.
IEEE Trans. Pattern Anal. Mach. Intell.
Laurent Bréhélin, Olivier Gascuel, Gilles Caraux
2000 J jnl
Data Model and Classification by Trees: The Minimum Variance Reduction (MVR) Method.
J. Classif.
Olivier Gascuel
2000 — conf
Hidden Markov Models with Patterns and Their Application to Integrated Circuit Testing.
ECML
Laurent Bréhélin, Olivier Gascuel, Gilles Caraux
2000 Misc conf
Hidden Markov and Independence Models with Patterns for Sequential BIST.
VTS
Laurent Bréhélin, Olivier Gascuel, Gilles Caraux, Patrick Girard, Christian Landrault
2000 J jnl
Inferring evolutionary trees with strong combinatorial evidence.
Theor. Comput. Sci.
Vincent Berry, Olivier Gascuel
2000 — conf
Phylogenetic Reconstruction Algorithms Based on Weighted 4-Trees.
JOBIM
Vincent Ranwez, Olivier Gascuel
1999 — conf
On calculating efficient LFSR seeds for built-in self test.
ETW
Christophe Fagot, Olivier Gascuel, Patrick Girard, Christian Landrault
1998 — conf
A Ring Architecture Strategy for BIST Test Pattern Generation.
Asian Test Symposium
Christophe Fagot, Olivier Gascuel, Patrick Girard, Christian Landrault
1998 J jnl
Twelve Numerical, Symbolic and Hybrid Supervised Classification Methods.
Int. J. Pattern Recognit. Artif. Intell.
Olivier Gascuel, Bernadette Bouchon-Meunier, Gilles Caraux, Patrick Gallinari, Alain Guénoche, Yann Guermeur, Yves Lechevallier, Christophe Marsala, Laurent Miclet, Jacques Nicolas, Richard Nock, Mohammed Ramdani, Michèle Sebag, Basavanneppa Tallur, Gilles Venturini, Patrick Vitte
1997 Misc conf
Inferring Evolutionary Trees with Strong Combinatorial Evidence.
COCOON
Vincent Berry, Olivier Gascuel
1996 — conf
Concerning the NJ algorithm and its unweighted version, UNJ.
Mathematical Hierarchies and Biology
Olivier Gascuel
1996 A* conf
Negative Robust Learning Results from Horn Claus Programs.
ICML
Pascal Jappy, Richard Nock, Olivier Gascuel
1995 A* conf
On Learning Decision Committees.
ICML
Richard Nock, Olivier Gascuel
1994 — conf
Learning from Recursive, Tree Structured Examples.
ECML
Pascal Jappy, Marie-Catherine Daniel-Vatonne, Olivier Gascuel, Colin de la Higuera
1993 J jnl
Commentaires sur une histoire de discrétisation.
Monde des Util. Anal. Données
Olivier Gascuel
1993 J jnl
SDL, A Stochastic Algorithm for Learning Decision Lists with Limited Complexity.
Ann. Math. Artif. Intell.
Fernando de Carvalho Gomes, Olivier Gascuel
1992 J jnl
Distribution-free performance bounds with the resubstitution error estimate.
Pattern Recognit. Lett.
Olivier Gascuel, Gilles Caraux
1992 A conf
Statistical Significance in Inductive Learning.
ECAI
Olivier Gascuel, Gilles Caraux
1988 J jnl
A simple method for predicting the secondary structure of globular proteins: implications and accuracy.
Comput. Appl. Biosci.
Olivier Gascuel, J. L. Golmard
1988 A conf
Data Analysis Using a Learning Program, a Case Study: An Application of PLAGE to a Biological Sequence Analysis.
ECAI
Olivier Gascuel, Antoine Danchin