Olivier Gascuel

Publication Activity (10 Years)

Years Active: 1988-2023
Publications (10 Years): 15

Top Topics

Pairwise Comparison

Sequence Alignment

Comparative Study

Top Venues

PLoS Comput. Biol.

Nucleic Acids Res.

Publications

Daniele Catanzaro, Martin Frohn, Olivier Gascuel, Raffaele Pesenti
A massively parallel branch-&-bound algorithm for the balanced minimum evolution problem. Comput. Oper. Res. 158 (2023)
Daniele Catanzaro, Martin Frohn, Olivier Gascuel, Raffaele Pesenti
A tutorial on the balanced minimum evolution problem. Eur. J. Oper. Res. 300 (1) (2022)
Grigorii Sukhorukov, Maryam Khalili, Olivier Gascuel, Thierry Candresse, Armelle Marais-Colombel, Macha Nikolski
VirHunter: A Deep Learning-Based Method for Detection of Novel RNA Viruses in Plant Sequencing Data. Frontiers Bioinform. 2 (2022)
Luc Blassel, Anna Tostevin, Christian Julian Villabona-Arenas, Martine Peeters, Stéphane Hué, Olivier Gascuel
Using machine learning and big data to explore the drug resistance landscape in HIV. PLoS Comput. Biol. 17 (8) (2021)
Jia-Ming Chang, Evan W. Floden, Javier Herrero, Olivier Gascuel, Paolo Di Tommaso, Cédric Notredame
Incorporating alignment uncertainty into Felsenstein's phylogenetic bootstrap to improve its reliability. Bioinform. 37 (11) (2021)
Frédéric Lemoine, Luc Blassel, Jakub Voznica, Olivier Gascuel
COVID-Align: accurate online alignment of hCoV-19 genomes using a profile HMM. Bioinform. 37 (12) (2021)
Adrien Oliva, Sylvain Pulicani, Vincent Lefort, Laurent Bréhélin, Olivier Gascuel, Stéphane Guindon
Accounting for ambiguity in ancestral sequence reconstruction. Bioinform. 35 (21) (2019)
Frédéric Lemoine, Damien Correia, Vincent Lefort, Olivia Doppelt-Azeroual, Fabien Mareuil, Sarah Cohen-Boulakia, Olivier Gascuel
NGPhylogeny.fr: new generation phylogenetic services for non-specialists. Nucleic Acids Res. 47 (Webserver-Issue) (2019)
Jakub Truszkowski, Olivier Gascuel, Krister M. Swenson
Rapidly Computing the Phylogenetic Transfer Index. WABI (2019)
Frédéric Lemoine, Jean-Baka Domelevo Entfellner, Eduan Wilkinson, Damien Correia, Miraine Dávila Felipe, Tulio de Oliveira, Olivier Gascuel
Renewing Felsenstein's phylogenetic bootstrap in the era of big data. Nat. 556 (7702) (2018)
Christophe Menichelli, Olivier Gascuel, Laurent Bréhélin
Improving pairwise comparison of protein sequences with domain co-occurrence. PLoS Comput. Biol. 14 (1) (2018)
Emma Saulnier, Olivier Gascuel, Samuel Alizon
Inferring epidemiological parameters from phylogenies using regression-ABC: A comparative study. PLoS Comput. Biol. 13 (3) (2017)
Olivier Gascuel, Mike A. Steel
A 'Stochastic Safety Radius' for Distance-Based Tree Reconstruction. Algorithmica 74 (4) (2016)
Manuel Binet, Olivier Gascuel, Céline Scornavacca, Emmanuel J. P. Douzery, Fabio Pardi
Fast and accurate branch lengths estimation for phylogenomic trees. BMC Bioinform. 17 (2016)
Jia-Ming Chang, Paolo Di Tommaso, Vincent Lefort, Olivier Gascuel, Cédric Notredame
TCS: a web server for multiple sequence alignment evaluation and phylogenetic reconstruction. Nucleic Acids Res. 43 (Webserver-Issue) (2015)
Cuong Cao Dang, Le Sy Vinh, Olivier Gascuel, Bart Hazes, Si Quang Le
FastMG: a simple, fast, and accurate maximum likelihood procedure to estimate amino acid replacement rate matrices from large data sets. BMC Bioinform. 15 (2014)
François Chevenet, Matthieu Jung, Martine Peeters, Tulio de Oliveira, Olivier Gascuel
Searching for virus phylotypes. Bioinform. 29 (5) (2013)
Naama M. Kopelman, Lewi Stone, Olivier Gascuel, Noah A. Rosenberg
The Behavior of Admixed Populations in Neighbor-Joining Inference of Population Trees. Pacific Symposium on Biocomputing (2013)
Nicolas Terrapon, Olivier Gascuel, Eric Maréchal, Laurent Bréhélin
Fitting hidden Markov models of protein domains to a target species: application to Plasmodium falciparum. BMC Bioinform. 13 (2012)
Amel Ghouila, Olivier Gascuel, Sadok Ben Yahia, Laurent Bréhélin
Enhancing Protein Domain Detection Using Domain Co-occurrence and Domain Exclusion. DEXA Workshops (2012)
Cuong Cao Dang, Vincent Lefort, Le Sy Vinh, Si Quang Le, Olivier Gascuel
ReplacementMatrix: a web server for maximum-likelihood estimation of amino acid replacement rate matrices. Bioinform. 27 (19) (2011)
Magnus Bordewich, Olivier Gascuel, Katharina T. Huber, Vincent Moulton
Consistency of Topological Moves Based on the Balanced Minimum Evolution Principle of Phylogenetic Inference. IEEE ACM Trans. Comput. Biol. Bioinform. 6 (1) (2009)
Nicolas Terrapon, Olivier Gascuel, Eric Maréchal, Laurent Bréhélin
. Bioinform. 25 (23) (2009)
Alexis Criscuolo, Olivier Gascuel
Fast NJ-like algorithms to deal with incomplete distance matrices. BMC Bioinform. 9 (2008)
Laurent Bréhélin, Olivier Gascuel, Olivier Martin
Using repeated measurements to validate hierarchical gene clusters. Bioinform. 24 (5) (2008)
Laurent Bréhélin, Jean-François Dufayard, Olivier Gascuel
gene function predictions based on postgenomic data. BMC Bioinform. 9 (2008)
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
Phylogeny.fr: robust phylogenetic analysis for the non-specialist. Nucleic Acids Res. 36 (Web-Server-Issue) (2008)
Si Quang Le, Olivier Gascuel, Nicolas Lartillot
Empirical profile mixture models for phylogenetic reconstruction. Bioinform. 24 (20) (2008)
Mathieu Lajoie, Denis Bertrand, Nadia El-Mabrouk, Olivier Gascuel
Duplication and Inversion History of a Tandemly Repeated Genes Family. J. Comput. Biol. 14 (4) (2007)
Elodie Duprat, Marie-Paule Lefranc, Olivier Gascuel
A simple method to predict protein-binding from aligned sequences - application to MHC superfamily and ß2-microglobulin. Bioinform. 22 (4) (2006)
Denis Bertrand, Mathieu Lajoie, Nadia El-Mabrouk, Olivier Gascuel
Evolution of Tandemly Repeated Sequences Through Duplication and Inversion. Comparative Genomics (2006)
Olivier Elemento, Olivier Gascuel
An exact and polynomial distance-based algorithm to reconstruct single copy tandem duplication trees. J. Discrete Algorithms 3 (2-4) (2005)
Wim Hordijk, Olivier Gascuel
Improving the efficiency of SPR moves in phylogenetic tree search methods based on maximum likelihood. Bioinform. 21 (24) (2005)
Denis Bertrand, Olivier Gascuel
Topological Rearrangements and Local Search Method for Tandem Duplication Trees. IEEE ACM Trans. Comput. Biol. Bioinform. 2 (1) (2005)
Stéphane Guindon, Franck Lethiec, Patrice Duroux, Olivier Gascuel
PHYML Online - a web server for fast maximum likelihood-based phylogenetic inference. Nucleic Acids Res. 33 (Web-Server-Issue) (2005)
Didier Gonze, Sylvie Pinloche, Olivier Gascuel, Jacques van Helden
Discrimination of yeast genes involved in methionine and phosphate metabolism on the basis of upstream motifs. Bioinform. 21 (17) (2005)
Denis Bertrand, Olivier Gascuel
Topological Rearrangements and Local Search Method for Tandem Duplication Trees. WABI (2004)
Olivier Gascuel, Andy McKenzie
Performance Analysis of Hierarchical Clustering Algorithms. J. Classif. 21 (1) (2004)
Olivier Elemento, Olivier Gascuel
An Exact and Polynomial Distance-Based Algorithm to Reconstruct Single Copy Tandem Duplication Trees. CPM (2003)
François Denis, Olivier Gascuel
On the consistency of the minimum evolution principle of phylogenetic inference. Discret. Appl. Math. 127 (1) (2003)
Christophe Fagot, Olivier Gascuel, Patrick Girard, Christian Landrault
A Ring Architecture Strategy for BIST Test Pattern Generation. J. Electron. Test. 19 (3) (2003)
Richard Desper, Olivier Gascuel
Fast and Accurate Phylogeny Reconstruction Algorithms Based on the Minimum-Evolution Principle. WABI (2002)
Richard Desper, Olivier Gascuel
Fast and Accurate Phylogeny Reconstruction Algorithms Based on the Minimum-Evolution Principle. J. Comput. Biol. 9 (5) (2002)
Olivier Elemento, Olivier Gascuel
An efficient and accurate distance based algorithm to reconstruct tandem duplication trees. ECCB (2002)
Laurent Bréhélin, Olivier Gascuel, Gilles Caraux
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. 23 (9) (2001)
Vincent Berry, Olivier Gascuel
Inferring evolutionary trees with strong combinatorial evidence. Theor. Comput. Sci. 240 (2) (2000)
Laurent Bréhélin, Olivier Gascuel, Gilles Caraux
Hidden Markov Models with Patterns and Their Application to Integrated Circuit Testing. ECML (2000)
Olivier Gascuel
Data Model and Classification by Trees: The Minimum Variance Reduction (MVR) Method. J. Classif. 17 (1) (2000)
Vincent Ranwez, Olivier Gascuel
Phylogenetic Reconstruction Algorithms Based on Weighted 4-Trees. JOBIM (2000)
Laurent Bréhélin, Olivier Gascuel, Gilles Caraux, Patrick Girard, Christian Landrault
Hidden Markov and Independence Models with Patterns for Sequential BIST. VTS (2000)
Christophe Fagot, Olivier Gascuel, Patrick Girard, Christian Landrault
On calculating efficient LFSR seeds for built-in self test. ETW (1999)
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
Twelve Numerical, Symbolic and Hybrid Supervised Classification Methods. Int. J. Pattern Recognit. Artif. Intell. 12 (4) (1998)
Christophe Fagot, Olivier Gascuel, Patrick Girard, Christian Landrault
A Ring Architecture Strategy for BIST Test Pattern Generation. Asian Test Symposium (1998)
Vincent Berry, Olivier Gascuel
Inferring Evolutionary Trees with Strong Combinatorial Evidence. COCOON (1997)
Pascal Jappy, Richard Nock, Olivier Gascuel
Negative Robust Learning Results from Horn Claus Programs. ICML (1996)
Olivier Gascuel
Concerning the NJ algorithm and its unweighted version, UNJ. Mathematical Hierarchies and Biology (1996)
Richard Nock, Olivier Gascuel
On Learning Decision Committees. ICML (1995)
Pascal Jappy, Marie-Catherine Daniel-Vatonne, Olivier Gascuel, Colin de la Higuera
Learning from Recursive, Tree Structured Examples. ECML (1994)
Fernando de Carvalho Gomes, Olivier Gascuel
SDL, A Stochastic Algorithm for Learning Decision Lists with Limited Complexity. Ann. Math. Artif. Intell. 10 (3) (1993)
Olivier Gascuel
Commentaires sur une histoire de discrétisation. Monde des Util. Anal. Données 11 (1993)
Olivier Gascuel, Gilles Caraux
Statistical Significance in Inductive Learning. ECAI (1992)
Olivier Gascuel, Gilles Caraux
Distribution-free performance bounds with the resubstitution error estimate. Pattern Recognit. Lett. 13 (11) (1992)
Olivier Gascuel, J. L. Golmard
A simple method for predicting the secondary structure of globular proteins: implications and accuracy. Comput. Appl. Biosci. 4 (3) (1988)
Olivier Gascuel, Antoine Danchin
Data Analysis Using a Learning Program, a Case Study: An Application of PLAGE to a Biological Sequence Analysis. ECAI (1988)