An evolutionary model to predict the frequency of antibiotic resistance under seasonal antibiotic use, and an application to Streptococcus pneumoniae
Blanquart, François, Lehtinen, Sonja, Fraser, Christophe
Published in Proceedings of the Royal Society. B, Biological sciences (31.05.2017)
Published in Proceedings of the Royal Society. B, Biological sciences (31.05.2017)
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Journal Article
A practical guide to measuring local adaptation
Blanquart, François, Kaltz, Oliver, Nuismer, Scott L., Gandon, Sylvain
Published in Ecology letters (01.09.2013)
Published in Ecology letters (01.09.2013)
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Journal Article
Easy and accurate reconstruction of whole HIV genomes from short-read sequence data with shiver
Wymant, Chris, Blanquart, François, Golubchik, Tanya, Gall, Astrid, Bakker, Margreet, Bezemer, Daniela, Croucher, Nicholas J, Hall, Matthew, Hillebregt, Mariska, Ong, Swee Hoe, Ratmann, Oliver, Albert, Jan, Bannert, Norbert, Fellay, Jacques, Fransen, Katrien, Gourlay, Annabelle, Grabowski, M Kate, Gunsenheimer-Bartmeyer, Barbara, Günthard, Huldrych F, Kivelä, Pia, Kouyos, Roger, Laeyendecker, Oliver, Liitsola, Kirsi, Meyer, Laurence, Porter, Kholoud, Ristola, Matti, van Sighem, Ard, Berkhout, Ben, Cornelissen, Marion, Kellam, Paul, Reiss, Peter, Fraser, Christophe
Published in Virus evolution (01.01.2018)
Published in Virus evolution (01.01.2018)
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Journal Article
Self-reported neurocognitive complaints in the Swiss HIV Cohort Study: a viral genome-wide association study
Zeeb, Marius, Pasin, Chloé, Cavassini, Matthias, Bieler-Aeschlimann, Mélanie, Frischknecht, Paul, Kusejko, Katharina, Fellay, Jacques, Blanquart, François, Metzner, Karin J, Neumann, Kathrin, Jörimann, Lisa, Tschumi, Jasmin, Bernasconi, Enos, Huber, Michael, Kovari, Helen, Leuzinger, Karoline, Notter, Julia, Perreau, Matthieu, Rauch, Andri, Ramette, Alban, Stöckle, Marcel, Yerly, Sabine, Günthard, Huldrych F, Kouyos, Roger D
Published in Brain communications (2024)
Published in Brain communications (2024)
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Journal Article
Bottlenecks can constrain and channel evolutionary paths
Gamblin, Jasmine, Gandon, Sylvain, Blanquart, François, Lambert, Amaury
Published in Genetics (Austin) (26.05.2023)
Published in Genetics (Austin) (26.05.2023)
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Journal Article
The evolution of antibiotic resistance in a structured host population
Blanquart, François, Lehtinen, Sonja, Lipsitch, Marc, Fraser, Christophe
Published in Journal of the Royal Society interface (01.06.2018)
Published in Journal of the Royal Society interface (01.06.2018)
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Journal Article
Quantifying the relationship between SARS-CoV-2 viral load and infectiousness
Marc, Aurélien, Kerioui, Marion, Blanquart, François, Bertrand, Julie, Mitjà, Oriol, Corbacho-Monné, Marc, Marks, Michael, Guedj, Jeremie
Published in eLife (27.09.2021)
Published in eLife (27.09.2021)
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Journal Article
Evolution of antibiotic resistance is linked to any genetic mechanism affecting bacterial duration of carriage
Lehtinen, Sonja, Blanquart, François, Croucher, Nicholas J., Turner, Paul, Lipsitch, Marc, Fraser, Christophe
Published in Proceedings of the National Academy of Sciences - PNAS (31.01.2017)
Published in Proceedings of the National Academy of Sciences - PNAS (31.01.2017)
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Journal Article
Properties of selected mutations and genotypic landscapes under Fisher's geometric model
Blanquart, François, Achaz, Guillaume, Bataillon, Thomas, Tenaillon, Olivier
Published in Evolution (01.12.2014)
Published in Evolution (01.12.2014)
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Journal Article
What drives parallel evolution?: How population size and mutational variation contribute to repeated evolution
Bailey, Susan F, Blanquart, François, Bataillon, Thomas, Kassen, Rees
Published in BioEssays (01.01.2017)
Published in BioEssays (01.01.2017)
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Journal Article
On the evolutionary ecology of multidrug resistance in bacteria
Lehtinen, Sonja, Blanquart, François, Lipsitch, Marc, Fraser, Christophe
Published in PLoS pathogens (13.05.2019)
Published in PLoS pathogens (13.05.2019)
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Journal Article
Using early detection data to estimate the date of emergence of an epidemic outbreak
Jijón, Sofía, Czuppon, Peter, Blanquart, François, Débarre, Florence
Published in PLoS computational biology (08.03.2024)
Published in PLoS computational biology (08.03.2024)
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Journal Article
Epistatic interactions between the high pathogenicity island and other iron uptake systems shape Escherichia coli extra-intestinal virulence
Royer, Guilhem, Clermont, Olivier, Marin, Julie, Condamine, Bénédicte, Dion, Sara, Blanquart, François, Galardini, Marco, Denamur, Erick
Published in Nature communications (20.06.2023)
Published in Nature communications (20.06.2023)
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Journal Article
Phylogenetic estimation of the viral fitness landscape of HIV-1 set-point viral load
Zhao, Lele, Wymant, Chris, Blanquart, François, Golubchik, Tanya, Gall, Astrid, Bakker, Margreet, Bezemer, Daniela, Hall, Matthew, Ong, Swee Hoe, Albert, Jan, Bannert, Norbert, Fellay, Jacques, Grabowski, M Kate, Gunsenheimer-Bartmeyer, Barbara, Günthard, Huldrych F, Kivelä, Pia, Kouyos, Roger D, Laeyendecker, Oliver, Meyer, Laurence, Porter, Kholoud, van Sighem, Ard, van der Valk, Marc, Berkhout, Ben, Kellam, Paul, Cornelissen, Marion, Reiss, Peter, Fraser, Christophe, Ferretti, Luca
Published in Virus evolution (2022)
Published in Virus evolution (2022)
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Journal Article
Selection for infectivity profiles in slow and fast epidemics, and the rise of SARS-CoV-2 variants
Blanquart, François, Hozé, Nathanaël, Cowling, Benjamin John, Débarre, Florence, Cauchemez, Simon
Published in eLife (19.05.2022)
Published in eLife (19.05.2022)
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Journal Article
Factors favouring the evolution of multidrug resistance in bacteria
Jacopin, Eliott, Lehtinen, Sonja, Débarre, Florence, Blanquart, François
Published in Journal of the Royal Society interface (01.07.2020)
Published in Journal of the Royal Society interface (01.07.2020)
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Journal Article