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SARS‐CoV‐2 virulence evolution: Avirulence theory, immunity and trade‐offs

Samuel Alizon , Mircea T Sofonea
Journal of Evolutionary Biology, 2021, 34 (12), pp.1867 - 1877. ⟨10.1111/jeb.13896⟩
Journal articles hal-03289628v1
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Episome partitioning and symmetric cell divisions: Quantifying the role of random events in the persistence of HPV infections

Thomas Beneteau , Christian Selinger , Mircea T Sofonea , Samuel Alizon
PLoS Computational Biology, 2021, 17 (9), pp.e1009352. ⟨10.1371/journal.pcbi.1009352⟩
Journal articles hal-03357550v1
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Why Human Papillomavirus Acute Infections Matter

Samuel Alizon , Carmen Murall , Ignacio G Bravo
Viruses, 2017, 9 (10), pp.293. ⟨10.3390/v9100293⟩
Journal articles hal-01638068v1
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Can Ebola Virus evolve to be less virulent in humans?

Mircea T Sofonea , L. Aldakak , Luis F. V. V. Boullosa , Samuel Alizon
Journal of Evolutionary Biology, 2018, 31 (3), pp.382 - 392. ⟨10.1111/jeb.13229⟩
Journal articles hal-01897077v1
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SARS-CoV-2 Through the Lens of Computational Biology: How bioinformatics is playing a key role in the study of the virus and its origins

Samuel Alizon , Frédéric Cazals , Stéphane Guindon , Claire Lemaitre , Tristan Mary-Huard , et al.
[Research Report] CNRS. 2021, pp.1-35
Reports hal-03170023v1
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COUSIN (COdon Usage Similarity INdex): A Normalized Measure of Codon Usage Preferences

Jérôme Bourret , Samuel Alizon , Ignacio Bravo
Genome Biology and Evolution, 2019, 11 (12), pp.3523-3528. ⟨10.1093/gbe/evz262⟩
Journal articles hal-02957623v1
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Natural history, dynamics, and ecology of human papillomaviruses in genital infections of young women: protocol of the PAPCLEAR cohort study

Carmen Murall , Massilva Rahmoun , Christian Selinger , Monique Baldellou , Claire Bernat , et al.
BMJ Open, 2019, 9 (6), pp.e025129. ⟨10.1136/bmjopen-2018-025129⟩
Journal articles hal-02157154v1
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HPV cervical infections and serological status in vaccinated and unvaccinated women

Carmen Lia Murall , Bastien Reyné , Christian Selinger , Claire Bernat , Vanina Boué , et al.
Vaccine, 2020, 38 (51), pp.8167-8174. ⟨10.1016/j.vaccine.2020.10.078⟩
Journal articles hal-03001077v2

Flash flood forecasting using Support Vector Regression: An event clustering based approach

Khaled Boukharouba , Pierre Roussel , Gerard Dreyfus , Anne Johannet
2013 IEEE International Workshop on Machine Learning for Signal Processing (MLSP), Sep 2013, Southampton, United Kingdom. pp.1-6, ⟨10.1109/MLSP.2013.6661958⟩
Conference papers hal-04169332v1
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Detecting Rapid Spread of SARS-CoV-2 Variants, France, January 26–February 16, 2021

Stéphanie Haim-Boukobza , Bénédicte Roquebert , Sabine Trombert-Paolantoni , Emmanuel Lecorche , Laura Verdurme , et al.
Emerging Infectious Diseases, 2021, 27 (5), pp.1496-1499. ⟨10.3201/eid2705.210397⟩
Journal articles hal-03150819v3
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Treating symptomatic infections and the co-evolution of virulence and drug resistance

Samuel Alizon
Peer Community Journal, 2021, 1, pp.e47. ⟨10.24072/pcjournal.38⟩
Journal articles hal-03001103v2
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Searching for a link between the L-BMAA neurotoxin and amyotrophic lateral sclerosis: a study protocol of the French BMAALS programme.

Aurélie Delzor , Philippe Couratier , Farid Boumédiène , Marie Nicol , Michel Druet-Cabanac , et al.
BMJ Open, 2014, 4 (8), pp.e005528. ⟨10.1136/bmjopen-2014-005528⟩
Journal articles hal-01073863v1
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Water recovery from dew

Vadim Nikolayev , D Beysens , A Gioda , I Milimouk , E Katiushin , et al.
Journal of Hydrology, 1996, ⟨10.1016/0022-1694(95)02939-7⟩
Journal articles istex hal-01264194v1
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Adaptive radiation driven by the interplay of eco-evolutionary and landscape dynamics

R. Aguilée , D. Claessen , A. Lambert
Evolution - International Journal of Organic Evolution, 2013, 67 (5), pp.1291-1306. ⟨10.1111/evo.12008⟩
Journal articles istex hal-00838275v1
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Évolution de la virulence et COVID-19

Samuel Alizon , Yannis Michalakis , Mircea T Sofonea
[Rapport de recherche] 12, Centre National de la Recherche Scientifique (CNRS); Institut de recherche pour le développement (IRD); Université de Montpellier (UM), FRA. 2020
Reports hal-02950712v1
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Predicting COVID-19 incidence in French hospitals using human contact network analytics

Christian Selinger , Marc Choisy , Samuel Alizon
International Journal of Infectious Diseases, 2021, 111, pp.100 - 107. ⟨10.1016/j.ijid.2021.08.029⟩
Journal articles hal-03267059v2
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Epithelial stratification shapes infection dynamics

Carmen Lia Murall , Robert Jackson , Ingeborg Zehbe , Nathalie Boulle , Michel Segondy , et al.
PLoS Computational Biology, 2019, 15 (1), pp.e1006646. ⟨10.1371/journal.pcbi.1006646⟩
Journal articles hal-02069914v1
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Population management using gene drive: molecular design, models of spread dynamics and assessment of ecological risks

Nicolas O. Rode , Arnaud A Estoup , Denis Bourguet , Virginie Courtier-Orgogozo , Florence Débarre
Conservation Genetics, 2019, 20 (4), pp.671-690. ⟨10.1007/s10592-019-01165-5⟩
Journal articles hal-02338278v1
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Limites et délais dans l’estimation du nombre de reproduction

Samuel Alizon , Bastien Reyné , Mircea T Sofonea
[Rapport de recherche] 5, Centre National de la Recherche Scientifique (CNRS); Institut de recherche pour le développement (IRD); Université de Montpellier (UM), FRA. 2020
Reports hal-02882697v1
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Age-structured non-pharmaceutical interventions for optimal control of COVID-19 epidemic

Quentin Richard , Samuel Alizon , Marc Choisy , Mircea T Sofonea , Ramsès Djidjou-Demasse
PLoS Computational Biology, 2021, ⟨10.1371/journal.pcbi.1008776⟩
Journal articles hal-02879512v3
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Emerging dynamics from high-resolution spatial numerical epidemics

Olivier Thomine , Samuel Alizon , Corentin Boennec , Marc Barthelemy , Mircea T Sofonea
eLife, 2021, 10, ⟨10.7554/elife.71417⟩
Journal articles hal-03415297v1

Évolution, écologie et pandémies

Samuel Alizon
Points Sciences, 2020, 2757887238
Books hal-03045497v1
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Inexpensive Research in the Golden Open-Access Era

Samuel Alizon
Trends in Ecology and Evolution, 2018, 33 (5), pp.301 - 303. ⟨10.1016/j.tree.2018.02.005⟩
Journal articles hal-01788084v1

[Arrhythmias of primary hypertrophic cardiomyopathy].

D Babuty , Laurent Fauchier , D Nguyen , C Giraudeau , O Marie , et al.
Archives des Maladies du Coeur et des Vaisseaux, 2003, 96 Spec No 7, pp.7-15
Journal articles hal-03679621v1
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Two waves and a high tide: the COVID-19 epidemic in France

Mircea T Sofonea , Corentin Boennec , Yannis Michalakis , Samuel Alizon
2021
Preprints, Working Papers, ... hal-03322646v1
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Anticipating COVID-19 intensive care unit capacity strain: A look back at epidemiological projections in France

Mircea T Sofonea , Samuel Alizon
Anaesthesia Critical Care & Pain Medicine, 2021, ⟨10.1016/j.accpm.2021.100943⟩
Journal articles hal-03366541v1
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SARS-CoV-2 viral RNA levels are not 'viral load

Yannis Michalakis , Mircea T Sofonea , Samuel Alizon , Ignacio G. Bravo
Trends in Microbiology, 2021, 29 (11), pp.970-972. ⟨10.1016/j.tim.2021.08.008⟩
Journal articles hal-03419147v1
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Can we eradicate viral pathogens?

Samuel Alizon , Paul E Turner
Journal of Evolutionary Biology, 2021, 34 (12), pp.1851-1854. ⟨10.1111/jeb.13958⟩
Journal articles hal-03500287v1
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De Delta à Omicron, scénarios de tendances hospitalières pour l'hiver 2021-2022

Samuel Alizon , Mircea T Sofonea
[Rapport de recherche] 16, CNRS - Centre National de la Recherche Scientifique; IRD - Institut de recherche pour le developpement; Université de Montpellier. 2021
Reports hal-03502127v1
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Evolution of host life-history traits in a spatially structured host-parasite system

Florence Débarre , Sébastien Lion , Minus Van Baalen , Sylvain Gandon
The American Naturalist, 2012, 179 (1), pp.52-63. ⟨10.1086/663199⟩
Journal articles hal-02122398v1