Skip to Main content
Number of documents

42

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 articles26 documents

  • Mircea Sofonea, Simon Cauchemez, Pierre-Yves Boëlle. Epidemic models: why and how to use them. Anaesthesia Critical Care & Pain Medicine, Elsevier Masson, 2022, 41 (2), pp.101048. ⟨10.1016/j.accpm.2022.101048⟩. ⟨hal-03638186⟩
  • Samuel Alizon, Christian Selinger, Mircea Sofonea, Stéphanie Haim-Boukobza, Jean-Marc Giannoli, et al.. Epidemiological and clinical insights from SARS-CoV-2 RT-PCR crossing threshold values, France, January to November 2020. Eurosurveillance, European Centre for Disease Prevention and Control, 2022, 27 (6), pp.2100406. ⟨10.2807/1560-7917.ES.2022.27.6.2100406⟩. ⟨hal-03175551v3⟩
  • Bastien Reyné, Quentin Richard, Christian Selinger, Mircea Sofonea, Ramsès Djidjou-Demasse, et al.. Non-Markovian modelling highlights the importance of age structure on Covid-19 epidemiological dynamics. Mathematical Modelling of Natural Phenomena, EDP Sciences, 2022, 17, pp.7. ⟨10.1051/mmnp/2022008⟩. ⟨hal-03629334⟩
  • Baptiste Elie, Bénédicte Roquebert, Mircea Sofonea, Sabine Trombert-Paolantoni, Vincent Foulongne, et al.. Variant‐specific SARS‐CoV‐2 within‐host kinetics. Journal of Medical Virology, Wiley-Blackwell, In press, ⟨10.1002/jmv.27757⟩. ⟨hal-03651890⟩
  • 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⟩
  • 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⟩
  • 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⟩
  • 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⟩
  • 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. ⟨10.3201/eid2705.210397⟩. ⟨hal-03150819v3⟩
  • 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, 50 (6), pp.1788-1794. ⟨10.1093/ije/dyab121⟩. ⟨hal-03289625⟩
  • 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⟩
  • 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⟩
  • Samuel Alizon, Mircea Sofonea. SARS‐CoV‐2 virulence evolution: Avirulence theory, immunity and trade‐offs. Journal of Evolutionary Biology, Wiley, 2021, 34 (12), pp.1867 - 1877. ⟨10.1111/jeb.13896⟩. ⟨hal-03289628⟩
  • 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⟩
  • 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⟩
  • 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⟩
  • 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⟩
  • Gonché Danesh, Baptiste Elie, Yannis Michalakis, Mircea Sofonea, Antonin Bal, et al.. Early phylodynamics analysis of the COVID-19 epidemic in France. Peer Community Journal, Peer Community In/Centre Mersenne, 2021, 1, pp.e45. ⟨10.24072/pcjournal.40⟩. ⟨hal-03001114v2⟩
  • 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⟩
  • 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, 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⟩
  • 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, ...6 documents

  • Ramsès Djidjou-Demasse, Mircea Sofonea, Marc Choisy, Samuel Alizon. Within-host evolutionary dynamics of antimicrobial quantitative resistance. 2021. ⟨hal-03194023v4⟩
  • Mircea Sofonea, Corentin Boennec, Yannis Michalakis, Samuel Alizon. Two waves and a high tide: the COVID-19 epidemic in France. 2021. ⟨hal-03322646⟩
  • Thomas Bénéteau, Elie Baptiste, Mircea Sofonea, Samuel Alizon. Estimating dates of origin and end of COVID-19 epidemics. 2021. ⟨hal-03120811⟩
  • Ramsès Djidjou-Demasse, Christian Selinger, Mircea Sofonea. Épidémiologie mathématique & modélisation de la pandémie de COVID-19 : enjeux et diversité. 2020. ⟨hal-02924338⟩
  • Bastien Reyné, Gonché Danesh, Samuel Alizon, Mircea Sofonea. Rt2: computing and visualising COVID-19 epidemics temporal reproduction number. 2020. ⟨hal-03045490⟩
  • 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⟩

Reports9 documents

  • Samuel Alizon, Mircea Sofonea. De Delta à Omicron, scénarios de tendances hospitalières pour l'hiver 2021-2022. [Rapport de recherche] 16, CNRS - Centre National de la Recherche Scientifique; IRD - Institut de recherche pour le developpement; Université de Montpellier. 2021. ⟨hal-03502127⟩
  • 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, 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⟩
  • 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⟩
  • 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⟩
  • 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⟩
  • 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. 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⟩
  • 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⟩

Theses1 document