Olivier Gascuel

According to our database, Olivier Gascuel authored at least 63 papers between 1988 and 2023.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of three.

2023

A massively parallel branch-&-bound algorithm for the balanced minimum evolution problem.

Daniele Catanzaro, Martin Frohn, Olivier Gascuel, Raffaele Pesenti

Comput. Oper. Res., October, 2023

2022

VirHunter: A Deep Learning-Based Method for Detection of Novel RNA Viruses in Plant Sequencing Data.

Grigorii Sukhorukov, Maryam Khalili, Olivier Gascuel, Thierry Candresse, Armelle Marais-Colombel, Macha Nikolski

Frontiers Bioinform., 2022

A tutorial on the balanced minimum evolution problem.

Daniele Catanzaro, Martin Frohn, Olivier Gascuel, Raffaele Pesenti

Eur. J. Oper. Res., 2022

2021

Using machine learning and big data to explore the drug resistance landscape in HIV.

Luc Blassel, Anna Tostevin, Christian Julian Villabona-Arenas, Martine Peeters, Stéphane Hué, Olivier Gascuel

PLoS Comput. Biol., 2021

COVID-Align: accurate online alignment of hCoV-19 genomes using a profile HMM.

Frédéric Lemoine, Luc Blassel, Jakub Voznica, Olivier Gascuel

Bioinform., 2021

Incorporating alignment uncertainty into Felsenstein's phylogenetic bootstrap to improve its reliability.

Jia-Ming Chang, Evan W. Floden, Javier Herrero, Olivier Gascuel, Paolo Di Tommaso, Cédric Notredame

Bioinform., 2021

2019

NGPhylogeny.fr: new generation phylogenetic services for non-specialists.

Frédéric Lemoine, Damien Correia, Vincent Lefort, Olivia Doppelt-Azeroual, Fabien Mareuil, Sarah Cohen-Boulakia, Olivier Gascuel

Nucleic Acids Res., 2019

Accounting for ambiguity in ancestral sequence reconstruction.

Adrien Oliva, Sylvain Pulicani, Vincent Lefort, Laurent Bréhélin, Olivier Gascuel, Stéphane Guindon

Bioinform., 2019

Rapidly Computing the Phylogenetic Transfer Index.

Jakub Truszkowski, Olivier Gascuel, Krister M. Swenson

Proceedings of the 19th International Workshop on Algorithms in Bioinformatics, 2019

2018

Improving pairwise comparison of protein sequences with domain co-occurrence.

Christophe Menichelli, Olivier Gascuel, Laurent Bréhélin

PLoS Comput. Biol., 2018

Renewing Felsenstein's phylogenetic bootstrap in the era of big data.

Frédéric Lemoine, Jean-Baka Domelevo Entfellner, Eduan Wilkinson, Damien Correia, Miraine Dávila Felipe, Tulio de Oliveira, Olivier Gascuel

Nat., 2018

2017

Inferring epidemiological parameters from phylogenies using regression-ABC: A comparative study.

Emma Saulnier, Olivier Gascuel, Samuel Alizon

PLoS Comput. Biol., 2017

2016

Distance-Based Phylogeny Reconstruction: Safety and Edge Radius.

Olivier Gascuel, Fabio Pardi, Jakub Truszkowski

Encyclopedia of Algorithms, 2016

Fast and accurate branch lengths estimation for phylogenomic trees.

Manuel Binet, Olivier Gascuel, Céline Scornavacca, Emmanuel J. P. Douzery, Fabio Pardi

BMC Bioinform., 2016

A 'Stochastic Safety Radius' for Distance-Based Tree Reconstruction.

Olivier Gascuel, Mike A. Steel

Algorithmica, 2016

2015

TCS: a web server for multiple sequence alignment evaluation and phylogenetic reconstruction.

Jia-Ming Chang, Paolo Di Tommaso, Vincent Lefort, Olivier Gascuel, Cédric Notredame

Nucleic Acids Res., 2015

2014

FastMG: a simple, fast, and accurate maximum likelihood procedure to estimate amino acid replacement rate matrices from large data sets.

Cuong Cao Dang, Le Sy Vinh, Olivier Gascuel, Bart Hazes, Si Quang Le

BMC Bioinform., 2014

2013

Searching for virus phylotypes.

François Chevenet, Matthieu Jung, Martine Peeters, Tulio de Oliveira, Olivier Gascuel

Bioinform., 2013

The Behavior of Admixed Populations in Neighbor-Joining Inference of Population Trees.

Naama M. Kopelman, Lewi Stone, Olivier Gascuel, Noah A. Rosenberg

Proceedings of the Biocomputing 2013: Proceedings of the Pacific Symposium, 2013

2012

Fitting hidden Markov models of protein domains to a target species: application to Plasmodium falciparum.

Nicolas Terrapon, Olivier Gascuel, Eric Maréchal, Laurent Bréhélin

BMC Bioinform., 2012

Enhancing Protein Domain Detection Using Domain Co-occurrence and Domain Exclusion.

Amel Ghouila, Olivier Gascuel, Sadok Ben Yahia, Laurent Bréhélin

Proceedings of the 23rd International Workshop on Database and Expert Systems Applications, 2012

2011

ReplacementMatrix: a web server for maximum-likelihood estimation of amino acid replacement rate matrices.

Cuong Cao Dang, Vincent Lefort, Le Sy Vinh, Si Quang Le, Olivier Gascuel

Bioinform., 2011

2009

Consistency of Topological Moves Based on the Balanced Minimum Evolution Principle of Phylogenetic Inference.

Magnus Bordewich, Olivier Gascuel, Katharina T. Huber, Vincent Moulton

IEEE ACM Trans. Comput. Biol. Bioinform., 2009

Detection of new protein domains using co-occurrence: application to <i>Plasmodium falciparum</i>.

Nicolas Terrapon, Olivier Gascuel, Eric Maréchal, Laurent Bréhélin

Bioinform., 2009

2008

Distance-Based Phylogeny Reconstruction (Optimal Radius).

Richard Desper, Olivier Gascuel

Proceedings of the Encyclopedia of Algorithms - 2008 Edition, 2008

Phylogeny.fr: robust phylogenetic analysis for the non-specialist.

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

Nucleic Acids Res., 2008

Fast NJ-like algorithms to deal with incomplete distance matrices.

Alexis Criscuolo, Olivier Gascuel

BMC Bioinform., 2008

PlasmoDraft: a database of <i>Plasmodium falciparum </i>gene function predictions based on postgenomic data.

Laurent Bréhélin, Jean-François Dufayard, Olivier Gascuel

BMC Bioinform., 2008

Empirical profile mixture models for phylogenetic reconstruction.

Si Quang Le, Olivier Gascuel, Nicolas Lartillot

Bioinform., 2008

Using repeated measurements to validate hierarchical gene clusters.

Laurent Bréhélin, Olivier Gascuel, Olivier Martin

Bioinform., 2008

2007

Duplication and Inversion History of a Tandemly Repeated Genes Family.

Mathieu Lajoie, Denis Bertrand, Nadia El-Mabrouk, Olivier Gascuel

J. Comput. Biol., 2007

Reconstructing the duplication history of tandemly repeated sequences.

Olivier Gascuel, Denis Bertrand, Olivier Elemento

Proceedings of the Mathematics of Evolution and Phylogeny., 2007

The minimum evolution distance-based approach of phylogenetic inference.

Richard Desper, Olivier Gascuel

Proceedings of the Mathematics of Evolution and Phylogeny., 2007

2006

A simple method to predict protein-binding from aligned sequences - application to MHC superfamily and ß2-microglobulin.

Elodie Duprat, Marie-Paule Lefranc, Olivier Gascuel

Bioinform., 2006

Evolution of Tandemly Repeated Sequences Through Duplication and Inversion.

Denis Bertrand, Mathieu Lajoie, Nadia El-Mabrouk, Olivier Gascuel

Proceedings of the Comparative Genomics, 2006

2005

Topological Rearrangements and Local Search Method for Tandem Duplication Trees.

Denis Bertrand, Olivier Gascuel

IEEE ACM Trans. Comput. Biol. Bioinform., 2005

PHYML Online - a web server for fast maximum likelihood-based phylogenetic inference.

Stéphane Guindon, Franck Lethiec, Patrice Duroux, Olivier Gascuel

Nucleic Acids Res., 2005

An exact and polynomial distance-based algorithm to reconstruct single copy tandem duplication trees.

Olivier Elemento, Olivier Gascuel

J. Discrete Algorithms, 2005

Improving the efficiency of SPR moves in phylogenetic tree search methods based on maximum likelihood.

Wim Hordijk, Olivier Gascuel

Bioinform., 2005

Discrimination of yeast genes involved in methionine and phosphate metabolism on the basis of upstream motifs.

Didier Gonze, Sylvie Pinloche, Olivier Gascuel, Jacques van Helden

Bioinform., 2005

2004

Performance Analysis of Hierarchical Clustering Algorithms.

Olivier Gascuel, Andy McKenzie

J. Classif., 2004

2003

A Ring Architecture Strategy for BIST Test Pattern Generation.

Christophe Fagot, Olivier Gascuel, Patrick Girard, Christian Landrault

J. Electron. Test., 2003

On the consistency of the minimum evolution principle of phylogenetic inference.

François Denis, Olivier Gascuel

Discret. Appl. Math., 2003

2002

Fast and Accurate Phylogeny Reconstruction Algorithms Based on the Minimum-Evolution Principle.

Richard Desper, Olivier Gascuel

J. Comput. Biol., 2002

An efficient and accurate distance based algorithm to reconstruct tandem duplication trees.

Olivier Elemento, Olivier Gascuel

Proceedings of the European Conference on Computational Biology (ECCB 2002), 2002

2001

Hidden Markov Models with Patterns to Learn Boolean Vector Sequences and Application to the Built-In Self-Test for Integrated Circuits.

Laurent Bréhélin, Olivier Gascuel, Gilles Caraux

IEEE Trans. Pattern Anal. Mach. Intell., 2001

2000

Inferring evolutionary trees with strong combinatorial evidence.

Vincent Berry, Olivier Gascuel

Theor. Comput. Sci., 2000

Data Model and Classification by Trees: The Minimum Variance Reduction (MVR) Method.

Olivier Gascuel

J. Classif., 2000

Hidden Markov and Independence Models with Patterns for Sequential BIST.

Laurent Bréhélin, Olivier Gascuel, Gilles Caraux, Patrick Girard, Christian Landrault

Proceedings of the 18th IEEE VLSI Test Symposium (VTS 2000), 30 April, 2000

Phylogenetic Reconstruction Algorithms Based on Weighted 4-Trees.

Vincent Ranwez, Olivier Gascuel

Proceedings of the Computational Biology, 2000

Hidden Markov Models with Patterns and Their Application to Integrated Circuit Testing.

Laurent Bréhélin, Olivier Gascuel, Gilles Caraux

Proceedings of the Machine Learning: ECML 2000, 11th European Conference on Machine Learning, Barcelona, Catalonia, Spain, May 31, 2000

1999

On calculating efficient LFSR seeds for built-in self test.

Christophe Fagot, Olivier Gascuel, Patrick Girard, Christian Landrault

Proceedings of the 4th European Test Workshop, 1999

1998

Twelve Numerical, Symbolic and Hybrid Supervised Classification Methods.

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

Int. J. Pattern Recognit. Artif. Intell., 1998

1996

Negative Robust Learning Results from Horn Claus Programs.

Pascal Jappy, Richard Nock, Olivier Gascuel

Proceedings of the Machine Learning, 1996

Concerning the NJ algorithm and its unweighted version, UNJ.

Olivier Gascuel

Proceedings of the Mathematical Hierarchies and Biology, 1996

1995

On Learning Decision Committees.

Richard Nock, Olivier Gascuel

Proceedings of the Machine Learning, 1995

1994

Learning from Recursive, Tree Structured Examples.

Pascal Jappy, Marie-Catherine Daniel-Vatonne, Olivier Gascuel, Colin de la Higuera

Proceedings of the Machine Learning: ECML-94, 1994

1993

Commentaires sur une histoire de discrétisation.

Olivier Gascuel

Monde des Util. Anal. Données, 1993

SDL, A Stochastic Algorithm for Learning Decision Lists with Limited Complexity.

Fernando de Carvalho Gomes, Olivier Gascuel

Ann. Math. Artif. Intell., 1993

1992

Distribution-free performance bounds with the resubstitution error estimate.

Olivier Gascuel, Gilles Caraux

Pattern Recognit. Lett., 1992

Statistical Significance in Inductive Learning.

Olivier Gascuel, Gilles Caraux

Proceedings of the 10th European Conference on Artificial Intelligence, 1992

1988

A simple method for predicting the secondary structure of globular proteins: implications and accuracy.

Olivier Gascuel, J. L. Golmard

Comput. Appl. Biosci., 1988

Data Analysis Using a Learning Program, a Case Study: An Application of PLAGE to a Biological Sequence Analysis.

Olivier Gascuel, Antoine Danchin

Proceedings of the 8th European Conference on Artificial Intelligence, 1988