Feb 3, 2025
RSero: A user-friendly R package to reconstruct pathogen circulation history from seroprevalence studies
PLOS Computational Biology Nathanaël Hozé, Margarita Pons-Salort, C. Jessica E. Metcalf, Michael White, Henrik Salje, Simon...
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Jan 28, 2025
Neural circuits underlying context-dependent competition between defensive actions in Drosophila larvae
Nature Communications Maxime Lehman, Chloé Barré, Md Amit Hasan, Benjamin Flament, Sandra Autran, Neena Dhiman, Peter Soba, Jean-Baptiste...
Jan 23, 2025
Analysis of metagenomic data
Nature Reviews Methods Primers Shaopeng Liu, Judith S. Rodriguez, Viorel Munteanu, Cynthia Ronkowski, Nitesh Kumar Sharma, Mohammed...
Jan 9, 2025
Monitoring SARS-CoV-2 variants with complementary surveillance systems: risk evaluation of the Omicron JN.1 variant in France, August 2023 to January 2024
Eurosurveillance Adriana Traore, Kelly Charniga, Sophie Grellet, Garance Terpant, Héléna Da Cruz, Anais Lamy, Nathalie Thomas, Gwladys...
Jan 8, 2025
Correlates of Protection Against Symptomatic COVID-19: The CORSER 5 Case–Control Study
Open Forum Infectious Diseases Léopold Beeker, Thomas Obadia, Emma Bloch, Laura Garcia, Manon Le Fol, Tiffany Charmet, Laurence Arowas,...
Jan 7, 2025
Spatiotemporal dynamics of fetal liver hematopoietic niches
JEM Márcia Mesquita Peixoto, Francisca Soares-da-Silva, Valentin Bonnet, Yanping Zhou, Gustave Ronteix, Rita Faria Santos, Marie-Pierre...
Jan 2, 2025
Harnessing CRISPR interference to resensitize laboratory strains and clinical isolates to last resort antibiotics
Scientific Reports Angelica Frusteri Chiacchiera, Michela Casanova, Massimo Bellato, Aurora Piazza, Roberta Migliavacca, Gregory Batt,...
Nov 26, 2024
Differential stress responsiveness determines intraspecies virulence heterogeneity and host adaptation in Listeria monocytogenes
Nature Microbiology Lukas Hafner, Enzo Gadin, Lei Huang, Arthur Frouin, Fabien Laporte, Charlotte Gaultier, Afonso Vieira, Claire Maudet,...
Nov 20, 2024
Assessing the effect of model specificationand prior sensitivity on Bayesian tests oftemporal signal
PLOS COMPUTATIONAL BIOLOGY John H. Tay, Arthur Kocher, Sebastian Duchene* Abstract Our understanding of the evolution of many microbes...
Nov 14, 2024
Expanding the diversity of origin of transfer-containing sequences inmobilizable plasmids
Nature Microbiology Manuel Ares-Arroyo, Amandine Nucci & Eduardo P. C. Rocha Abstract Conjugative plasmids are important drivers of...
Nov 5, 2024
Integrating information from historical datainto mechanistic models for influenzaforecasting
PLOS COMPUTATIONAL BIOLOGY Alessio Andronico, Juliette Paireau*, Simon Cauchemez Abstract Seasonal influenza causes significant annual...
Nov 5, 2024
Rifaximin prophylaxis causes resistance to the last-resort antibiotic daptomycin
Nature Adrianna M. Turner, Lucy Li, Ian R. Monk, Jean Y. H. Lee, Danielle J. Ingle, Stephanie Portelli, Norelle L. Sherry, Nicole Isles,...
Oct 15, 2024
Emergence of the B.1.214.2 SARS‑CoV‑2 lineage with an Omicron‑like spike insertion and a unique upper airway immune signature
BMC Infectious Diseases Andrew Holtz*†, Johan Van Weyenbergh*†, Samuel L. Hong, Lize Cuypers, Áine O’Toole, Gytis Dudas, Marco Gerdol,...
Sep 24, 2024
Longitudinal genomic analysis of Neisseria gonorrhoeae transmission dynamics in Australia
Nature Communications Mona L. Taouk, George Taiaroa, Sebastian Duchene, Soo Jen Low, Charlie K. Higgs, Darren Y. J. Lee, Shivani...
Sep 17, 2024
Antigenic sin and multiple breakthrough infectionsdrive converging evolution of COVID-19 neutralizingresponses
Cell Reports Ida Paciello, Giulio Pierleoni, Elisa Pantano, Giada Antonelli, Piero Pileri, Giuseppe Maccari, Dario Cardamone, Giulia...
Sep 11, 2024
A Genetic Bridge Between Medicine and Neurodiversity for Autism
Annual Review of Genetics Claire S. Leblond, Thomas Rolland, Eli Barthome, Zakaria Mougin, Mathis Fleury, Christine Ecker, Stéf...
Sep 10, 2024
Risk of SARS-CoV-2 infection in professional settings, shops, shared transport, and leisure activities in France, 2020–2022
BMC Public Health Simon Galmiche*, Tiffany Charmet, Arthur Rakover, Olivia Chény, Faïza Omar, Christophe David, Alexandra Mailles,...
Sep 9, 2024
scConfluence: single-cell diagonal integration with regularized Inverse Optimal Transport on weakly connected features
Nature Communications Jules Samaran, Gabriel Peyré & Laura Cantini Summary The abundance of unpaired multimodal single-cell data has...
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