Improved inference of time-varying reproduction numbers during infectious disease outbreaks
Epidemics R.N. Thompson, J.E. Stockwin, R.D. van Gaalen, J.A. Polonsky, Z.N. Kamvar, P.A. Demarsh, E. Dahlqwist, S. Li, E. Miguel, T....
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Dec 15, 2019
Impact of Zika Virus Emergence in French Guiana: A Large General Population Seroprevalence Survey
Journal of Infectious Diseases Flamand C, Bailly S, Fritzell C, Berthelot L, Vanhomwegen J, Salje H, Paireau J, Matheus S, Enfissi A,...
Dec 15, 2019
Determining factors for pertussis vaccination policy: A study in 5 EU countries
MedRXiv Anabelle Wong, Annick Opinel, Simon Jean-Baptiste Combes, Julie Toubiana, Sylvain Brisse Pertussis vaccination policy varies...
Nov 28, 2019
ImJoy: an open-source computational platform for the deep learning era
Nature Methods Wei Ouyang, Florian Mueller, Martin Hjelmare, Emma Lundberg & Christophe Zimmer Deep learning methods have shown...
Nov 11, 2019
Unlinked rRNA genes are widespread among bacteria and archaea
The ISME Journal Tess E. Brewer, Mads Albertsen, Arwyn Edwards, Rasmus H. Kirkegaard, Eduardo P. C. Rocha & Noah Fierer Ribosomes are...
Sep 11, 2019
Highly pathogenic avian influenza H5N8 in south-west France 2016–2017
Epidemics Alessio Andronic, Aurélie Courcoul, Anne Bronner, Axelle Scoizec, Sophie Lebouquin-Leneveu, Claire Guinat, Mathilde C.Paul,...
Aug 7, 2019
Genomic Evidence for Local Adaptation of Hunter-Gatherers to the African Rainforest
Current Biology Marie Lopez, Jeremy Choin, Martin Sikora, Paul Verdu, Etienne Patin, Lluís Quintana-Murci. African rainforests support...
Aug 1, 2019
PastView: a user-friendly interface to explore ancestral scenarios
BMC Evolutionary Biology François Chevenet, Guillaume Castel, Emmanuelle Jousselin, and Olivier Gascuel. BACKGROUND: Ancestral character...
Jul 18, 2019
Diversification of the type IV filament superfamily into machines for adhesion, protein secretion
Plos Biology Rémi Denise, Sophie S. Abby, Eduardo P. C. Rocha Processes of molecular innovation require tinkering and shifting in the...
Jun 30, 2019
Assessing Zika Virus Transmission Within Households During an Outbreak in Martinique, 2015-2016
American Journal of Epidemiology Anthony Cousien, Sylvie Abel, Alice Monthieux, Alessio Andronico, Isabelle Calmont, Minerva Cervantes,...
May 23, 2019
A Fast Likelihood Method to Reconstruct and Visualize Ancestral Scenarios
Mol Biol Evol. Ishikawa SA, Zhukova A, Iwasaki W, Gascuel O. The reconstruction of ancestral scenarios is widely used to study the...
May 22, 2019
Dynamics of a type 2 secretion system pseudopilus unraveled by complementary approaches
J Biomol NMR Bardiaux B, Cordier F, Brier S, López-Castilla A, Izadi-Pruneyre N, Nilges M. Secretion pili, bacterial fibers responsible...
May 19, 2019
Real-time analysis of the behaviour of groups of mice via a depth-sensing camera
Nature Biomedical Engineering Fabrice de Chaumont, Elodie Ey, Nicolas Torquet, Thibault Lagache, Stéphane Dallongeville, Albane Imbert,...
May 13, 2019
Comparative Analysis of eleven Healthcare-Associated outbreaks of Middle east Respiratory syndrome
Scientific Reports Sibylle Bernard-stoecklin, Birgit Nikolay, Abdullah Assiri, Abdul Aziz Bin saeed, peter Karim Ben embarek, Hassan el...
May 8, 2019
Transmission of Nipah Virus - 14 Years of Investigations in Bangladesh
The New England Journal of Medicine Birgit Nikolay, Dr.rer.nat., Henrik Salje, Ph.D., M. Jahangir Hossain, M.B., B.S., A.K.M. Dawlat...
Apr 28, 2019
Distribution and asymptotic behavior of the phylogenetic transfer distance
Journal of Mathematical Biology Dávila Felipe M, Domelevo Entfellner JB, Lemoine F, Truszkowski J, Gascuel O. The transfer distance (TD)...
Apr 26, 2019
NGPhylogeny.fr: new generation phylogenetic services for non-specialists
Nucleic Acids Research Frédéric Lemoine, Damien Correia, Vincent Lefort, Olivia Doppelt-Azeroual, Fabien Mareuil, Sarah Cohen-Boulakia,...
Apr 21, 2019
Spatio-temporal dynamics of dengue in Brazil: Seasonal travelling waves
PLoS Neglected Tropical Diseases Churakov M, Villabona-Arenas CJ, Kraemer MUG, Salje H, Cauchemez S. Dengue continues to be the most...
Mar 28, 2019
Epidemiological characteristics of an urban plague epidemic in Madagascar, August-November, 2017
The Lancet. Infectious Diseases Rindra Randremanana, PhD,a,* Voahangy Andrianaivoarimanana, PhD,b,* Birgit Nikolay, PhD,d,* Beza...
Mar 27, 2019
Graph analysis of fragmented long-read bacterial genome assemblies
Bioinformatics Marijon P, Chikhi R, Varré JS. Abstract MOTIVATION: Long-read genome assembly tools are expected to reconstruct bacterial...
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