Jean-François Dufayard
Jean-François Dufayard
Chercheur en génomique comparative et phylogénie, CIRAD, Montpellier
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New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0
S Guindon, JF Dufayard, V Lefort, M Anisimova, W Hordijk, O Gascuel
Systematic biology 59 (3), 307-321, 2010
Phylogeny. fr: robust phylogenetic analysis for the non-specialist
A Dereeper, V Guignon, G Blanc, S Audic, S Buffet, F Chevenet, ...
Nucleic acids research 36 (suppl_2), W465-W469, 2008
Survey of branch support methods demonstrates accuracy, power, and robustness of fast likelihood-based approximation schemes
M Anisimova, M Gil, JF Dufayard, C Dessimoz, O Gascuel
Systematic biology 60 (5), 685-699, 2011
Estimating maximum likelihood phylogenies with PhyML
S Guindon, F Delsuc, JF Dufayard, O Gascuel
Bioinformatics for DNA sequence analysis, 113-137, 2009
The genome sequence of the orchid Phalaenopsis equestris
J Cai, X Liu, K Vanneste, S Proost, WC Tsai, KW Liu, LJ Chen, Y He, Q Xu, ...
Nature genetics 47 (1), 65-72, 2015
Tree pattern matching in phylogenetic trees: automatic search for orthologs or paralogs in homologous gene sequence databases
JF Dufayard, L Duret, S Penel, M Gouy, F Rechenmann, G Perrière
Bioinformatics 21 (11), 2596-2603, 2005
Databases of homologous gene families for comparative genomics
S Penel, AM Arigon, JF Dufayard, AS Sertier, V Daubin, L Duret, M Gouy, ...
BMC bioinformatics 10 (6), 1-13, 2009
The banana genome hub
G Droc, D Lariviere, V Guignon, N Yahiaoui, D This, O Garsmeur, ...
Database 2013, bat035, 2013
Evolutionary dynamics of the leucine-rich repeat receptor-like kinase (LRR-RLK) subfamily in angiosperms
I Fischer, A Diévart, G Droc, JF Dufayard, N Chantret
Plant physiology 170 (3), 1595-1610, 2016
Identification of the Hevea brasiliensisAP2/ERF superfamily by RNA sequencing
C Duan, X Argout, V Gébelin, M Summo, JF Dufayard, J Leclercq, ...
BMC genomics 14 (1), 1-22, 2013
PhyML: fast and accurate phylogeny reconstruction by maximum likelihood
S Guindon, JF Dufayard, W Hordijk, V Lefort, O Gascuel
Infection Genetics and Evolution 9 (3), 384-385, 2009
New insights on leucine-rich repeats receptor-like kinase orthologous relationships in angiosperms
JF Dufayard, M Bettembourg, I Fischer, G Droc, E Guiderdoni, C Périn, ...
Frontiers in Plant Science, 381, 2017
Some ethylene biosynthesis and AP2/ERF genes reveal a specific pattern of expression during somatic embryogenesis in Hevea brasiliensis
P Piyatrakul, RA Putranto, F Martin, M Rio, F Dessailly, J Leclercq, ...
BMC Plant Biology 12, 1-20, 2012
In silico analysis of usher encoding genes in Klebsiella pneumoniae and characterization of their role in adhesion and colonization
F Khater, D Balestrino, N Charbonnel, JF Dufayard, S Brisse, C Forestier
PloS one 10 (3), e0116215, 2015
SNiPlay3: a web-based application for exploration and large scale analyses of genomic variations
A Dereeper, F Homa, G Andres, G Sempere, G Sarah, Y Hueber, ...
Nucleic Acids Research 43 (W1), W295-W300, 2015
Impact of recurrent gene duplication on adaptation of plant genomes
I Fischer, J Dainat, V Ranwez, S Glémin, JF Dufayard, N Chantret
BMC Plant Biology 14 (1), 1-15, 2014
Genomicus in 2022: comparative tools for thousands of genomes and reconstructed ancestors
NTT Nguyen, P Vincens, JF Dufayard, H Roest Crollius, A Louis
Nucleic Acids Research 50 (D1), D1025-D1031, 2022
PlasmoDraft: a database of Plasmodium falciparum gene function predictions based on postgenomic data
L Bréhélin, JF Dufayard, O Gascuel
BMC bioinformatics 9, 1-15, 2008
GreenPhylDB v5: a comparative pangenomic database for plant genomes
V Guignon, A Toure, G Droc, JF Dufayard, M Conte, M Rouard
Nucleic Acids Research 49 (D1), D1464-D1471, 2021
The South Green portal: a comprehensive resource for tropical and Mediterranean crop genomics
V Guignon, Y Hueber, M Rouard, S Bocs, D Couvin, F De Lamotte, G Droc, ...
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