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2020 – today
- 2023
[j44]Daniele Catanzaro
, Martin Frohn, Olivier Gascuel, Raffaele Pesenti:
A massively parallel branch-&-bound algorithm for the balanced minimum evolution problem. Comput. Oper. Res. 158: 106308 (2023)- 2022
- [j43]Daniele Catanzaro, Martin Frohn, Olivier Gascuel, Raffaele Pesenti:
A tutorial on the balanced minimum evolution problem. Eur. J. Oper. Res. 300(1): 1-19 (2022) - [j42]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) - 2021
- [j41]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): 1506-1514 (2021) - [j40]Frédéric Lemoine, Luc Blassel, Jakub Voznica, Olivier Gascuel:
COVID-Align: accurate online alignment of hCoV-19 genomes using a profile HMM. Bioinform. 37(12): 1761-1762 (2021) - [j39]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)
2010 – 2019
- 2019
- [j38]Adrien Oliva, Sylvain Pulicani, Vincent Lefort, Laurent Bréhélin, Olivier Gascuel, Stéphane Guindon:
Accounting for ambiguity in ancestral sequence reconstruction. Bioinform. 35(21): 4290-4297 (2019) - [j37]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): W260-W265 (2019) - [c20]Jakub Truszkowski, Olivier Gascuel, Krister M. Swenson:
Rapidly Computing the Phylogenetic Transfer Index. WABI 2019: 20:1-20:12 - 2018
- [j36]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): 452-456 (2018) - [j35]Christophe Menichelli, Olivier Gascuel, Laurent Bréhélin:
Improving pairwise comparison of protein sequences with domain co-occurrence. PLoS Comput. Biol. 14(1) (2018) - 2017
- [j34]Emma Saulnier, Olivier Gascuel, Samuel Alizon:
Inferring epidemiological parameters from phylogenies using regression-ABC: A comparative study. PLoS Comput. Biol. 13(3) (2017) - 2016
- [j33]Olivier Gascuel, Mike A. Steel:
A 'Stochastic Safety Radius' for Distance-Based Tree Reconstruction. Algorithmica 74(4): 1386-1403 (2016) - [j32]Manuel Binet, Olivier Gascuel, Céline Scornavacca, Emmanuel J. P. Douzery, Fabio Pardi:
Fast and accurate branch lengths estimation for phylogenomic trees. BMC Bioinform. 17: 23 (2016) - [r2]Olivier Gascuel, Fabio Pardi, Jakub Truszkowski:
Distance-Based Phylogeny Reconstruction: Safety and Edge Radius. Encyclopedia of Algorithms 2016: 567-571 - 2015
- [j31]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): W3-W6 (2015) - 2014
- [j30]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: 341 (2014) - 2013
- [j29]François Chevenet, Matthieu Jung, Martine Peeters, Tulio de Oliveira, Olivier Gascuel:
Searching for virus phylotypes. Bioinform. 29(5): 561-570 (2013) - [c19]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: 273-284 - 2012
- [j28]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: 67 (2012) - [c18]Amel Ghouila, Olivier Gascuel, Sadok Ben Yahia, Laurent Bréhélin:
Enhancing Protein Domain Detection Using Domain Co-occurrence and Domain Exclusion. DEXA Workshops 2012: 223-228 - 2011
- [j27]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): 2758-2760 (2011)
2000 – 2009
- 2009
- [j26]Nicolas Terrapon, Olivier Gascuel, Eric Maréchal, Laurent Bréhélin:
Detection of new protein domains using co-occurrence: application to Plasmodium falciparum. Bioinform. 25(23): 3077-3083 (2009) - [j25]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): 110-117 (2009) - 2008
- [j24]Laurent Bréhélin, Olivier Gascuel, Olivier Martin:
Using repeated measurements to validate hierarchical gene clusters. Bioinform. 24(5): 682-688 (2008) - [j23]Si Quang Le, Olivier Gascuel, Nicolas Lartillot:
Empirical profile mixture models for phylogenetic reconstruction. Bioinform. 24(20): 2317-2323 (2008) - [j22]Laurent Bréhélin, Jean-François Dufayard, Olivier Gascuel:
PlasmoDraft: a database of Plasmodium falciparum gene function predictions based on postgenomic data. BMC Bioinform. 9 (2008) - [j21]Alexis Criscuolo, Olivier Gascuel:
Fast NJ-like algorithms to deal with incomplete distance matrices. BMC Bioinform. 9 (2008) - [j20]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): 465-469 (2008) - [r1]Richard Desper, Olivier Gascuel:
Distance-Based Phylogeny Reconstruction (Optimal Radius). Encyclopedia of Algorithms 2008 - 2007
- [j19]Mathieu Lajoie, Denis Bertrand, Nadia El-Mabrouk, Olivier Gascuel:
Duplication and Inversion History of a Tandemly Repeated Genes Family. J. Comput. Biol. 14(4): 462-478 (2007) - [p2]Richard Desper, Olivier Gascuel:
The minimum evolution distance-based approach of phylogenetic inference. Mathematics of Evolution and Phylogeny 2007 - [p1]Olivier Gascuel, Denis Bertrand, Olivier Elemento:
Reconstructing the duplication history of tandemly repeated sequences. Mathematics of Evolution and Phylogeny 2007 - [e3]Olivier Gascuel:
Mathematics of Evolution and Phylogeny. Oxford University Press 2007, ISBN 978-0-19-923134-8 [contents] - 2006
- [j18]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): 453-459 (2006) - [c17]Denis Bertrand, Mathieu Lajoie, Nadia El-Mabrouk, Olivier Gascuel:
Evolution of Tandemly Repeated Sequences Through Duplication and Inversion. Comparative Genomics 2006: 129-140 - 2005
- [j17]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): 3490-3500 (2005) - [j16]Wim Hordijk, Olivier Gascuel:
Improving the efficiency of SPR moves in phylogenetic tree search methods based on maximum likelihood. Bioinform. 21(24): 4338-4347 (2005) - [j15]Olivier Elemento, Olivier Gascuel:
An exact and polynomial distance-based algorithm to reconstruct single copy tandem duplication trees. J. Discrete Algorithms 3(2-4): 362-374 (2005) - [j14]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): 557-559 (2005) - [j13]Denis Bertrand, Olivier Gascuel:
Topological Rearrangements and Local Search Method for Tandem Duplication Trees. IEEE ACM Trans. Comput. Biol. Bioinform. 2(1): 15-28 (2005) - 2004
- [j12]Olivier Gascuel, Andy McKenzie:
Performance Analysis of Hierarchical Clustering Algorithms. J. Classif. 21(1): 3-18 (2004) - [c16]Denis Bertrand, Olivier Gascuel:
Topological Rearrangements and Local Search Method for Tandem Duplication Trees. WABI 2004: 374-387 - 2003
- [j11]François Denis, Olivier Gascuel:
On the consistency of the minimum evolution principle of phylogenetic inference. Discret. Appl. Math. 127(1): 63-77 (2003) - [j10]Christophe Fagot, Olivier Gascuel, Patrick Girard, Christian Landrault:
A Ring Architecture Strategy for BIST Test Pattern Generation. J. Electron. Test. 19(3): 223-231 (2003) - [c15]Olivier Elemento, Olivier Gascuel:
An Exact and Polynomial Distance-Based Algorithm to Reconstruct Single Copy Tandem Duplication Trees. CPM 2003: 96-108 - 2002
- [j9]Richard Desper, Olivier Gascuel:
Fast and Accurate Phylogeny Reconstruction Algorithms Based on the Minimum-Evolution Principle. J. Comput. Biol. 9(5): 687-705 (2002) - [c14]Olivier Elemento, Olivier Gascuel:
An efficient and accurate distance based algorithm to reconstruct tandem duplication trees. ECCB 2002: 92-99 - [c13]Richard Desper, Olivier Gascuel:
Fast and Accurate Phylogeny Reconstruction Algorithms Based on the Minimum-Evolution Principle. WABI 2002: 357-374 - 2001
- [j8]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): 997-1008 (2001) - [e2]Olivier Gascuel, Marie-France Sagot:
Computational Biology, First International Conference on Biology, Informatics, and Mathematics, JOBIM 2000, Montpellier, France, May 3-5, 2000, Selected Papers. Lecture Notes in Computer Science 2066, Springer 2001, ISBN 3-540-42242-0 [contents] - [e1]Olivier Gascuel, Bernard M. E. Moret:
Algorithms in Bioinformatics, First International Workshop, WABI 2001, Aarhus, Denmark, August 28-31, 2001, Proceedings. Lecture Notes in Computer Science 2149, Springer 2001, ISBN 3-540-42516-0 [contents] - 2000
- [j7]Olivier Gascuel:
Data Model and Classification by Trees: The Minimum Variance Reduction (MVR) Method. J. Classif. 17(1): 67-99 (2000) - [j6]Vincent Berry, Olivier Gascuel:
Inferring evolutionary trees with strong combinatorial evidence. Theor. Comput. Sci. 240(2): 271-298 (2000) - [c12]Laurent Bréhélin, Olivier Gascuel, Gilles Caraux:
Hidden Markov Models with Patterns and Their Application to Integrated Circuit Testing. ECML 2000: 75-87 - [c11]Vincent Ranwez, Olivier Gascuel:
Phylogenetic Reconstruction Algorithms Based on Weighted 4-Trees. JOBIM 2000: 84-98 - [c10]Laurent Bréhélin, Olivier Gascuel, Gilles Caraux, Patrick Girard, Christian Landrault:
Hidden Markov and Independence Models with Patterns for Sequential BIST. VTS 2000: 359-368
1990 – 1999
- 1999
- [c9]Christophe Fagot, Olivier Gascuel, Patrick Girard, Christian Landrault:
On calculating efficient LFSR seeds for built-in self test. ETW 1999: 7-14 - 1998
- [j5]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): 517-571 (1998) - [c8]Christophe Fagot, Olivier Gascuel, Patrick Girard, Christian Landrault:
A Ring Architecture Strategy for BIST Test Pattern Generation. Asian Test Symposium 1998: 418-423 - 1997
- [c7]Vincent Berry, Olivier Gascuel:
Inferring Evolutionary Trees with Strong Combinatorial Evidence. COCOON 1997: 111-123 - 1996
- [c6]Olivier Gascuel:
Concerning the NJ algorithm and its unweighted version, UNJ. Mathematical Hierarchies and Biology 1996: 149-170 - [c5]Pascal Jappy, Richard Nock, Olivier Gascuel:
Negative Robust Learning Results from Horn Claus Programs. ICML 1996: 258-265 - 1995
- [c4]Richard Nock, Olivier Gascuel:
On Learning Decision Committees. ICML 1995: 413-420 - 1994
- [c3]Pascal Jappy, Marie-Catherine Daniel-Vatonne, Olivier Gascuel, Colin de la Higuera:
Learning from Recursive, Tree Structured Examples. ECML 1994: 367-370 - 1993
- [j4]Fernando de Carvalho Gomes, Olivier Gascuel:
SDL, A Stochastic Algorithm for Learning Decision Lists with Limited Complexity. Ann. Math. Artif. Intell. 10(3): 281-302 (1993) - [j3]Olivier Gascuel:
Commentaires sur une histoire de discrétisation. Monde des Util. Anal. Données 11: 28-29 (1993) - 1992
- [j2]Olivier Gascuel, Gilles Caraux:
Distribution-free performance bounds with the resubstitution error estimate. Pattern Recognit. Lett. 13(11): 757-764 (1992) - [c2]Olivier Gascuel, Gilles Caraux:
Statistical Significance in Inductive Learning. ECAI 1992: 435-439
1980 – 1989
- 1988
- [j1]Olivier Gascuel, J. L. Golmard:
A simple method for predicting the secondary structure of globular proteins: implications and accuracy. Comput. Appl. Biosci. 4(3): 357-365 (1988) - [c1]Olivier Gascuel, Antoine Danchin:
Data Analysis Using a Learning Program, a Case Study: An Application of PLAGE to a Biological Sequence Analysis. ECAI 1988: 390-395
Coauthor Index
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