• 2024
  Lemoine F, Gascuel O, The Bayesian Phylogenetic Bootstrap, Application to Short Trees and Branches., Mol Biol Evol 2024 Nov; (): .
• 2024
  Fourati S, Reslan A, Bourret J, Casalegno JS, Rahou Y, Chollet L, Pillet S, Tremeaux P, Dossou NC, Gault E, Salmona M, Imbert-Marcille BM, Mirand A, Larrat S, Moisan A, Marot S, Schnuriger A, Veyrenche N, Engelmann I, Handala L, Henry A, Stephan V, Brichler S, Avettand-Fenoel V, Zemali N, Lefeuvre C, Pronier C, Deroche L, Jaffar-Bandjee MC, Mouna L, Francois C, Regueme A, Hartard C, Rogez S, Gallais F, Ly A, Rodriguez C, Dos Santos G, Simon-Loriere E, Schwartz O, Buchrieser J, Pawlotsky JM, Lemoine F, Audureau E, Rameix-Welti MA, Genotypic and phenotypic characterisation of respiratory syncytial virus after nirsevimab breakthrough infections: a large, multicentre, observational, real-world study., Lancet Infect Dis 2024 Oct; (): .
• 2024
  Delphine Planas, Isabelle Staropoli, Cyril Planchais, Emilie Yab, Banujaa Jeyarajah, Yannis Rahou, Matthieu Prot, Florence Guivel-Benhassine, Frederic Lemoine, Vincent Enouf, Etienne Simon-Loriere, Hugo Mouquet, Marie-Anne Rameix-Welti, Olivier Schwartz, Escape of SARS-CoV-2 Variants KP.1.1, LB.1, and KP.3.3 From Approved Monoclonal Antibodies, Pathogens and Immunity, 2024, 10 (1), pp.1-11. ⟨10.20411/pai.v10i1.752⟩.
• 2024
  Inizan C, Courtot A, Sturmach C, Griffon AF, Biron A, Bruel T, Enouf V, Demaneuf T, Munier S, Schwartz O, Gourinat AC, Médevielle G, Jouan M, van der Werf S, Madec Y, Albert-Dunais V, Dupont-Rouzeyrol M, Levels and functionality of Pacific Islanders’ hybrid humoral immune response to BNT162b2 vaccination and delta/omicron infection: A cohort study in New Caledonia., PLoS Med 2024 Sep; 21(9): e1004397.
• 2024
  Marchment G, Brancotte B, Schmit M, Lemoine F, Cohen-Boulakia S, BioFlow-Insight: facilitating reuse of Nextflow workflows with structure reconstruction and visualization., NAR Genom Bioinform 2024 Sep; 6(3): lqae092.
• 2024
  Brault A, Pontais I, Enouf V, Debeuret C, Bloch E, Paireau J, Rameix-Welti MA, White M, Baudemont G, Lina B, Parent du Châtelet I, Casalegno JS, Vaux S, Cauchemez S, Effect of nirsevimab on hospitalisations for respiratory syncytial virus bronchiolitis in France, 2023-24: a modelling study., Lancet Child Adolesc Health 2024 Aug; (): .
• 2024
  Planchais C, Fernández I, Chalopin B, Bruel T, Rosenbaum P, Beretta M, Dimitrov JD, Conquet L, Donati F, Prot M, Porrot F, Planas D, Staropoli I, Guivel-Benhassine F, Baquero E, van der Werf S, Haouz A, Simon-Lorière E, Montagutelli X, Maillère B, Rey FA, Guardado-Calvo P, Nozach H, Schwartz O, Mouquet H, Broad sarbecovirus neutralization by combined memory B cell antibodies to ancestral SARS-CoV-2., iScience 2024 Jul; 27(7): 110354.
• 2024
  Planas D, Staropoli I, Michel V, Lemoine F, Donati F, Prot M, Porrot F, Guivel-Benhassine F, Jeyarajah B, Brisebarre A, Dehan O, Avon L, Bolland WH, Hubert M, Buchrieser J, Vanhoucke T, Rosenbaum P, Veyer D, Péré H, Lina B, Trouillet-Assant S, Hocqueloux L, Prazuck T, Simon-Loriere E, Schwartz O, Distinct evolution of SARS-CoV-2 Omicron XBB and BA.2.86/JN.1 lineages combining increased fitness and antibody evasion., Nat Commun 2024 Mar; 15(1): 2254.
• 2024
  Morel M, Zhukova A, Lemoine F, Gascuel O, Accurate Detection of Convergent Mutations in Large Protein Alignments with ConDor., Genome Biol Evol 2024 Mar; (): .
• 2023
  Saunders N, Fernandez I, Planchais C, Michel V, Rajah MM, Baquero Salazar E, Postal J, Porrot F, Guivel-Benhassine F, Blanc C, Chauveau-Le Friec G, Martin A, Grzelak L, Oktavia RM, Meola A, Ahouzi O, Hoover-Watson H, Prot M, Delaune D, Cornelissen M, Deijs M, Meriaux V, Mouquet H, Simon-Lorière E, van der Hoek L, Lafaye P, Rey F, Buchrieser J, Schwartz O, TMPRSS2 is a functional receptor for human coronavirus HKU1., Nature 2023 Oct; (): .
• 2023
  Sarah Temmam, Xavier Montagutelli, Cécile Herate, Flora Donati, Béatrice Regnault, Mikael Attia, Eduard Baquero Salazar, Delphine Chretien, Laurine Conquet, Grégory Jouvion, Juliana Pipoli da Fonseca, Thomas Cokelaer, Faustine Amara, Francis Relouzat, Thibaut Naninck, Julien Lemaitre, Nathalie Derreudre-Bosquet, Quentin Pascal, Massimiliano Bonomi, Thomas Bigot, Sandie Munier, Felix Rey, Roger Le Grand, Sylvie van der Werf, Marc Eloit, SARS‐CoV‐2‐related bat virus behavior in human‐relevant models sheds light on the origin of COVID‐19, EMBO Reports, 2023, 24 (4), pp.e56055. ⟨10.15252/embr.202256055⟩.
• 2023
  Chen KY, Karuppusamy J, O'Neill MB, Opuu V, Bahin M, Foulon S, Ibanez P, Quintana-Murci L, Ozawa T, van der Werf S, Nghe P, Naffakh N, Griffiths A, Isel C , High-throughput droplet-based analysis of influenza A virus genetic reassortment by single-virus RNA sequencing., Proc Natl Acad Sci U S A 2023 Feb; 120(6): e2211098120.
• 2021
  Singh M, Chazal M, Quarato P, Bourdon L, Malabat C, Vallet T, Vignuzzi M, van der Werf S, Behillil S, Donati F, Sauvonnet N, Nigro G, Bourgine M, Jouvenet N, Cecere G, , A virus-derived microRNA targets immune response genes during SARS-CoV-2 infection., EMBO Rep 2021 Dec; (): e54341.
• 2021
  de Melo GD, Lazarini F, Levallois S, Hautefort C, Michel V, Larrous F, Verillaud B, Aparicio C, Wagner S, Gheusi G, Kergoat L, Kornobis E, Donati F, Cokelaer T, Hervochon R, Madec Y, Roze E, Salmon D, Bourhy H, Lecuit M, Lledo PM, , COVID-19-related anosmia is associated with viral persistence and inflammation in human olfactory epithelium and brain infection in hamsters., Sci Transl Med 2021 Jun; 13(596): .
• 2020
  Ludivine Grzelak, Sarah Temmam, Cyril Planchais, Caroline Demeret, Laura Tondeur, Christèle Huon, Florence Guivel-Benhassine, Isabelle Staropoli, Maxime Chazal, Jeremy Dufloo, Delphine Planas, Julian Buchrieser, Maaran Michael Rajah, Remy Robinot, Françoise Porrot, Mélanie Albert, Kuang-Yu Chen, Bernadette Crescenzo-Chaigne, Flora Donati, François Anna, Philippe Souque, Marion Gransagne, Jacques Bellalou, Mireille Nowakowski, Marija Backovic, Lila Bouadma, Lucie Le Fevre, Quentin Le Hingrat, Diane Descamps, Annabelle Pourbaix, Cédric Laouénan, Jade Ghosn, Yazdan Yazdanpanah, Camille Besombes, Nathalie Jolly, Sandrine Pellerin-Fernandes, Olivia Cheny, Marie-Noëlle Ungeheuer, Guillaume Mellon, Pascal Morel, Simon Rolland, Felix Rey, Sylvie Behillil, Vincent Enouf, Audrey Lemaitre, Marie-Aude Créach, Stéphane Pêtres, Nicolas Escriou, Pierre Charneau, Arnaud Fontanet, Bruno Hoen, Timothée Bruel, Marc Eloit, Hugo Mouquet, Olivier Schwartz, Sylvie van Der Werf, A comparison of four serological assays for detecting anti–SARS-CoV-2 antibodies in human serum samples from different populations, Science Translational Medicine, 2020, 12 (559), pp.eabc3103. ⟨10.1126/scitranslmed.abc3103⟩.
• 2020
  Gámbaro F, Behillil S, Baidaliuk A, Donati F, Albert M, Alexandru A, Vanpeene M, Bizard M, Brisebarre A, Barbet M, Derrar F, van der Werf S, Enouf V, Simon-Loriere E, , Introductions and early spread of SARS-CoV-2 in France, 24 January to 23 March 2020., Euro Surveill. 2020 07; 25(26): .