, January 2017 — Special Issue: Mathematical and Computational Evolutionary Biology-2015. Systematic Biology vol. 66, n° 1, p. 1-2
ISSN
1063-5157
, July 2024 — Deep learning of SARS-CoV-2 outbreak phylodynamics with contact tracing data. Deep learning has emerged as a powerful tool for phylodynamic analysis, addressing common computational limitations affecting… , , Type: 10.1101/2024.06.10.24308687
, 2022 — Deep learning from phylogenies to uncover the epidemiological dynamics of outbreaks. Nature Communications , n° 3896,
, 2011 — Survey of Branch Support Methods Demonstrates Accuracy, Power, and Robustness of Fast Likelihood-based Approximation Schemes. Systematic Biology vol. 60, n° 5, p. 685-699
ISSN
1063-5157
, 2011 — Mitochondrial genes support a common origin of rodent malaria parasites and Plasmodium falciparum’s relatives infecting great apes. Bmc Evolutionary Biology vol. 11, , p. 70
ISSN
1471-2148
, 2015 — TCS : a web server for multiple sequence alignment evaluation and phylogenetic reconstruction. Nucleic Acids Research vol. 43, W1, W3–W6
ISSN
0305-1048
, 2021 — Drug resistance mutations in HIV: new bioinformatics approaches and challenges. Current Opinion in Virology vol. 51, , p. 56-64
ISSN
18796257
, 2021 — Using machine learning and big data to explore the drug resistance landscape in HIV. Plos Computational Biology vol. 17, n° 8, p. 1008873
, September 2021 — Gotree/Goalign: toolkit and Go API to facilitate the development of phylogenetic workflows.. NAR genomics and bioinformatics vol. 3, n° 3, lqab075–lqab075 MEDLINE:34396097
, August 2021 — Using machine learning and big data to explore the drug resistance landscape in HIV.. Plos Computational Biology vol. 17, n° 8, p. 1008873 MEDLINE:34437532
, August 2021 — Cuban history of CRF19 recombinant subtype of HIV-1. Plos Pathogens vol. 17, n° 8, e1009786 WOS:000685263600004
ISSN
1553-7366
, 2021 — COVID -Align: accurate online alignment of hCoV-19 genomes using a profile HMM. Bioinformatics (Oxford, England) vol. 37, n° 12, p. 1761-1762 MEDLINE:33045068
ISSN
1367-4803, 1460-2059
, 2021 — Origin, evolution and global spread of SARS-CoV-2. Comptes Rendus Biologies vol. 344, n° 1, p. 57-75 WOS:000667242200006
ISSN
1631-0691
, October 2020 — The seventh pandemic of cholera in Europe revisited by microbial genomics. Nature Communications vol. 11, n° 1, p. 5347 WOS:000617728200006
ISSN
2041-1723
, June 2020 — Sampling bias and incorrect rooting make phylogenetic network tracing of SARS-COV-2 infections unreliable. Proceedings of the National Academy of Sciences of the United States of America vol. 117, n° 23, p. 12522-12523 WOS:000545947700008
ISSN
0027-8424
, May 2020 — A Darwinian Uncertainty Principle. Systematic Biology vol. 69, n° 3, p. 521-529 WOS:000537435800007
ISSN
1063-5157
, September 2019 — A Fast Likelihood Method to Reconstruct and Visualize Ancestral Scenarios. Molecular Biology and Evolution vol. 36, n° 9, p. 2069-2085 WOS:000493043800018
ISSN
0737-4038
, August 2019 — PastView : a user-friendly interface to explore ancestral scenarios. Bmc Evolutionary Biology vol. 19, n° 1, p. 163 WOS:000479274100002
ISSN
1471-2148
, July 2019 — NGPhylogeny .fr: new generation phylogenetic services for non-specialists. Nucleic Acids Research vol. 47, W1, W260–W265 WOS:000475901600037
ISSN
0305-1048
, July 2019 — Distribution and asymptotic behavior of the phylogenetic transfer distance. Journal of Mathematical Biology vol. 79, n° 2, p. 485-508 WOS:000476518700003
ISSN
0303-6812