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38

Mircea T. SOFONEA - epidemiology & evolution of infectious diseases


postes

2018 — maître de conférences Univ. Montpellier
2017 — 2018 chercheur post-doctorant CNRS
2014 — 2017 doctorant moniteur Univ. Montpellier


formation

2021 DU stratégies anti-infectieuses (infectiologie hospitalière) Fac. Médecine, Univ. Montpellier
2017 doctorat en évolution des systèmes infectieux Univ. Montpellier
2014 diplôme de l'École normale supérieure Paris
2013 diplôme de l'Institut Pasteur Paris
2010 classes préparatoires Lyc. Henri-IV, Paris


concours & qualifications

2018 Qualifications MCU biologie des populations, biologie des organismes & mathématiques appliquées
2014 Agrégation SVSTU (spécialité biologie & physiologie des organismes), CAPES mathématiques
2010 École normale supérieure de la rue d'Ulm
2009 Olympiades Internationales de Biologie
2008 Olympiades de Physique France


Journal articles21 documents

  • Benedicte Roquebert, Stéphanie Haim-Boukobza, Sabine Trombert-Paolantoni, Emmanuel Lecorche, Laura Verdurme, et al.. SARS-CoV-2 variants of concern are associated with lower RT-PCR amplification cycles between January and March 2021 in France. International Journal of Infectious Diseases, Elsevier, 2021, ⟨10.1016/j.ijid.2021.09.076⟩. ⟨hal-03366559⟩
  • Stéphanie Haim-Boukobza, Bénédicte Roquebert, Sabine Trombert-Paolantoni, Emmanuel Lecorche, Laura Verdurme, et al.. Detecting Rapid Spread of SARS-CoV-2 Variants, France, January 26–February 16, 2021. Emerging Infectious Diseases, Centers for Disease Control and Prevention, 2021, 27 (5), pp.1496-1499. ⟨10.1101/2021.02.20.21251927⟩. ⟨hal-03150819v2⟩
  • Ramsès Djidjou-Demasse, Samuel Alizon, Mircea Sofonea. Within-host bacterial growth dynamics with both mutation and horizontal gene transfer. Journal of Mathematical Biology, Springer Verlag (Germany), 2021, ⟨10.1007/s00285-021-01571-9⟩. ⟨hal-02500420⟩
  • Bénédicte Roquebert, Sabine Trombert-Paolantoni, Stéphanie Haim-Boukobza, Emmanuel Lecorche, Laura Verdurme, et al.. The SARS-CoV-2 B.1.351 lineage (VOC β) is outgrowing the B.1.1.7 lineage (VOC α) in some French regions in April 2021. Eurosurveillance, European Centre for Disease Prevention and Control, 2021, 26 (23), ⟨10.2807/1560-7917.es.2021.26.23.2100447⟩. ⟨hal-03289627⟩
  • Samuel Alizon, Stéphanie Haim-Boukobza, Vincent Foulongne, Laura Verdurme, Sabine Trombert-Paolantoni, et al.. Rapid spread of the SARS-CoV-2 Delta variant in some French regions, June 2021. Eurosurveillance, European Centre for Disease Prevention and Control, 2021, 26 (28), ⟨10.2807/1560-⟩. ⟨hal-03289622⟩
  • Mircea Sofonea, Bastien Reyné, Baptiste Elie, Ramsès Djidjou-Demasse, Christian Selinger, et al.. Memory is key in capturing COVID-19 epidemiological dynamics. Epidemics, Elsevier, 2021, 35, pp.100459. ⟨10.1016/j.epidem.2021.100459⟩. ⟨hal-03289624⟩
  • Mark Zwart, Stéphane Blanc, Marcelle Johnson, Susanna Manrubia, Yannis Michalakis, et al.. Unresolved advantages of multipartitism in spatially structured environments. Virus Evolution, Oxford University Press, 2021, 7 (1), ⟨10.1093/ve/veab004⟩. ⟨hal-03219672⟩
  • Quentin Richard, Samuel Alizon, Marc Choisy, Mircea Sofonea, Ramsès Djidjou-Demasse. Age-structured non-pharmaceutical interventions for optimal control of COVID-19 epidemic. PLoS Computational Biology, Public Library of Science, 2021, ⟨10.1371/journal.pcbi.1008776⟩. ⟨hal-02879512v3⟩
  • Thomas Beneteau, Christian Selinger, Mircea Sofonea, Samuel Alizon. Episome partitioning and symmetric cell divisions: Quantifying the role of random events in the persistence of HPV infections. PLoS Computational Biology, Public Library of Science, 2021, 17 (9), pp.e1009352. ⟨10.1371/journal.pcbi.1009352⟩. ⟨hal-03357550⟩
  • Olivier Thomine, Samuel Alizon, Corentin Boennec, Marc Barthelemy, Mircea Sofonea. Emerging dynamics from high-resolution spatial numerical epidemics. eLife, eLife Sciences Publication, 2021, 10, ⟨10.7554/elife.71417⟩. ⟨hal-03415297⟩
  • Bastien Reyné, Christian Selinger, Mircea Sofonea, Stéphanie Miot, Amandine Pisoni, et al.. Analysing different exposures identifies that wearing masks and establishing COVID-19 areas reduce secondary-attack risk in aged-care facilities. International Journal of Epidemiology, Oxford University Press (OUP), 2021, ⟨10.1093/ije/dyab121⟩. ⟨hal-03289625⟩
  • Samuel Alizon, Mircea Sofonea. SARS‐CoV‐2 virulence evolution: Avirulence theory, immunity and trade‐offs. Journal of Evolutionary Biology, Wiley, 2021, ⟨10.1111/jeb.13896⟩. ⟨hal-03289628⟩
  • Yannis Michalakis, Mircea Sofonea, Samuel Alizon, Ignacio G. Bravo. SARS-CoV-2 viral RNA levels are not 'viral load'. Trends in Microbiology, Elsevier, 2021, 29 (11), pp.970-972. ⟨10.1016/j.tim.2021.08.008⟩. ⟨hal-03419147⟩
  • Mircea Sofonea, Samuel Alizon. Anticipating COVID-19 intensive care unit capacity strain: A look back at epidemiological projections in France. Anaesthesia Critical Care & Pain Medicine, Elsevier Masson, 2021, ⟨10.1016/j.accpm.2021.100943⟩. ⟨hal-03366541⟩
  • Mircea Sofonea, Corentin Boennec, Yannis Michalakis, Samuel Alizon. Two waves and a high tide: the COVID-19 epidemic in France. Anaesthesia Critical Care & Pain Medicine, Elsevier Masson, 2021, 40 (3), pp.100881. ⟨10.1016/j.accpm.2021.100881⟩. ⟨hal-03289626⟩
  • Mircea Sofonea. A global asymptotic stability condition for a dimorphic Lotka-Volterra model with explicit indirect interactions. Applicable Analysis, Taylor & Francis, 2019, ⟨10.1080/00036811.2018.1437417⟩. ⟨hal-03366505⟩
  • Samuel Alizon, Carmen Lia Murall, Emma Saulnier, Mircea Sofonea. Detecting within-host interactions from genotype combination prevalence data. Epidemics, Elsevier, 2019, 29, pp.100349. ⟨10.1016/j.epidem.2019.100349⟩. ⟨hal-02387765⟩
  • Mircea Sofonea, L. Aldakak, Luis F. V. V. Boullosa, Samuel Alizon. Can Ebola Virus evolve to be less virulent in humans?. Journal of Evolutionary Biology, Wiley, 2018, 31 (3), pp.382 - 392. ⟨10.1111/jeb.13229⟩. ⟨hal-01897077⟩
  • Romain Gallet, Frédéric Fabre, Gael Thébaud, Mircea Sofonea, Anne Sicard, et al.. Small bottleneck size in a highly multipartite virus during a complete infection cycle. Journal of Virology, American Society for Microbiology, 2018, 92 (14), pp.e00139-18. ⟨10.1128/JVI.00139-18⟩. ⟨hal-01847886⟩
  • Mircea Sofonea, Samuel Alizon, Yannis Michalakis. Exposing the diversity of multiple infection patterns. Journal of Theoretical Biology, Elsevier, 2017, 419, pp.278 - 289. ⟨10.1016/j.jtbi.2017.02.011⟩. ⟨hal-01567902⟩
  • Mircea Sofonea, Samuel Alizon, Yannis Michalakis. From within-host interactions to epidemiological competition: a general model for multiple infections. Philosophical Transactions of the Royal Society B: Biological Sciences, Royal Society, The, 2015, 370 (1675), pp.20140303. ⟨10.1098/rstb.2014.0303⟩. ⟨hal-01571806⟩

Preprints, Working Papers, ...8 documents

  • Mircea Sofonea, Corentin Boennec, Yannis Michalakis, Samuel Alizon. Two waves and a high tide: the COVID-19 epidemic in France. 2021. ⟨hal-03322646⟩
  • Samuel Alizon, Christian Selinger, Mircea Sofonea, Stéphanie Haim-Boukobza, Jean-Marc Giannoli, et al.. Epidemiological and clinical insights from SARS-CoV-2 RT-PCR cycle amplification values. 2021. ⟨hal-03175551⟩
  • Thomas Bénéteau, Elie Baptiste, Mircea Sofonea, Samuel Alizon. Estimating dates of origin and end of COVID-19 epidemics. 2021. ⟨hal-03120811⟩
  • Ramsès Djidjou-Demasse, Mircea Sofonea, Marc Choisy, Samuel Alizon. Within-host evolutionary dynamics of antimicrobial quantitative resistance. 2021. ⟨hal-03194023v3⟩
  • Ramsès Djidjou-Demasse, Christian Selinger, Mircea Sofonea. Épidémiologie mathématique & modélisation de la pandémie de COVID-19 : enjeux et diversité. 2020. ⟨hal-02924338⟩
  • Gonché Danesh, Baptiste Elie, Yannis Michalakis, Mircea Sofonea, Antonin Bal, et al.. Early phylodynamics analysis of the COVID-19 epidemic in France. 2020. ⟨hal-03001114⟩
  • Mircea Sofonea, Bastien Reyné, Baptiste Elie, Ramsès Djidjou-Demasse, Christian Selinger, et al.. Epidemiological monitoring and control perspectives: application of a parsimonious modelling framework to the COVID-19 dynamics in France. 2020. ⟨hal-02619546⟩
  • Bastien Reyné, Gonché Danesh, Samuel Alizon, Mircea Sofonea. Rt2: computing and visualising COVID-19 epidemics temporal reproduction number. 2020. ⟨hal-03045490⟩

Reports8 documents

  • Mircea Sofonea, Samuel Alizon. Immunité de groupe et contrôle de l’épidémie de COVID-19. [Rapport Technique] 2, Centre National de la Recherche Scientifique (CNRS); Institut de Recherche pour le Développement (IRD); Université de Montpellier (UM), FRA. 2020. ⟨hal-02882682⟩
  • Samuel Alizon, Yannis Michalakis, Mircea Sofonea. Évolution de la virulence et COVID-19. [Rapport de recherche] 12, Centre National de la Recherche Scientifique (CNRS); Institut de recherche pour le développement (IRD); Université de Montpellier (UM), FRA. 2020. ⟨hal-02950712⟩
  • Thomas Bénéteau, Baptiste Elie, Samuel Alizon, Mircea Sofonea. Stochasticité et épidémie de COVID-19. [Rapport de recherche] 8, Centre National de la Recherche Scientifique (CNRS); Institut de Recherche pour le Développement (IRD); Université de Montpellier (UM), FRA. 2020. ⟨hal-02950660⟩
  • Samuel Alizon, Mircea Sofonea, Yannis Michalakis. Modéliser l'épidémie de COVID-19 (résumé). [Rapport de recherche] 7, Centre National de la Recherche Scientifique (CNRS); Institut de recherche pour le développement (IRD); Université de Montpellier (UM), FRA. 2020. ⟨hal-02950651⟩
  • Samuel Alizon, Bastien Reyné, Mircea Sofonea. Limites et délais dans l’estimation du nombre de reproduction. [Rapport de recherche] 5, Centre National de la Recherche Scientifique (CNRS); Institut de recherche pour le développement (IRD); Université de Montpellier (UM), FRA. 2020. ⟨hal-02882697⟩
  • Yannis Michalakis, Mircea Sofonea, Samuel Alizon. Les effets sexe spécifiques de COVID-19 en France et l’implication potentielle des déficits en G6PD. [Rapport de recherche] 11, Centre National de la Recherche Scientifique (CNRS); Institut de recherche pour le développement (IRD); Université de Montpellier (UM), FRA. 2020. ⟨hal-02950702⟩
  • Samuel Alizon, Mircea Sofonea. Analyse de l’épidémie de COVID-19 en France et scénarios de contrôle. [Rapport de recherche] 9, Centre National de la Recherche Scientifique (CNRS); Institut de recherche pour le développement (IRD); Université de Montpellier (UM), FRA. 2020. ⟨hal-02950665⟩
  • Yannis Michalakis, Mircea Sofonea, Samuel Alizon. Les effets sexe spécifiques de COVID-19 en France pourraient-ils être expliqués par des comorbidités ?. [Rapport de recherche] 10, Centre National de la Recherche Scientifique (CNRS); Institut de recherche pour le développement (IRD); Université de Montpellier (UM), FRA. 2020. ⟨hal-02950676⟩

Theses1 document