Dr Marc Choisy

Marc Choisy, PhD

Head of the Mathematical Modelling Group


I have MSc degrees in Applied Mathematics (University of Montpellier, 2001) as well as in Ecology and Evolutionary Biology (University of Montpellier, 2000). I received a PhD in Integrative Biology from the University of Montpellier in 2004. I am interested in developing mathematical models to understand the within-host and between-host dynamics of infectious diseases, as well as to fit these models to real data. These models help unravel biological mechanisms and contribute to decision making on the prevention and control of infectious diseases. My research interests are the following:

  • Sero-surveillance and vaccine-preventable diseases (VPD): I develop models in order to optimize vaccine policies. These models are based on the use of data generated by a national sero-surveillance system based on 20 hospitals across Vietnam that I co-lead with Dr Rogier van Doorn, director of the Hanoi unit of OUCRU.
  • Antimicrobial resistance (AMR): topics that I am interested in are (i) optimization of empirical treatments, (ii) interactions between AMR and VPD, (iii) relationship between AMR and AMU (antimicrobial usage), co-evolution between virulence and resistance. I collaborate with OUCRU Hanoi (Dr Rogier van Doorn) on a national hospital-based surveillance system, with project ViParc (led by Dr Juan Carrique-Mas) on AMR in chicken farms of the Mekong delta and the Molecular Epidemiology group (Dr Pham Thanh Duy) on Klebsiella pneumonia.
  • Climate change and infectious diseases: I use machine-learning forecasting-based approaches in order to understand the effects of environmental and climatic variables on the epidemiology of infectious diseases. This includes dengue fever, respiratory infections and diarrheal diseases.
  • COVID-19: I develop models aiming at mitigating the COVID-19 burden on hospitals’ ICUs (intensive care units) and optimizing vaccine policies.


 5 key recent publications

Bonell A, Contamin L, Thai PQ, Thuy HTT, van Doorn HR, White R, … & Choisy M Does sunlight drive seasonality of TB in Vietnam? A retrospective environmental ecological study of tuberculosis seasonality in Vietnam from 2010 to 2015. BMC Infect Dis. 2020 Dec;20(1):184. https://doi.org/10.1186/s12879-020-4908-0

Choisy M, Trinh ST, Nguyen TND, Nguyen TH, Mai QL, Pham QT, et al. Sero-Prevalence Surveillance to Predict Vaccine-Preventable Disease Outbreaks; A Lesson from the 2014 Measles Epidemic in Northern Vietnam. Open Forum Infectious Diseases. 2019 Mar 1;6(3):ofz030. https://doi.org/10.1093/ofid/ofz030

Choisy M, Van Cuong N, Bao TD, Kiet BT, Hien BV, Thu HV, et al. Assessing antimicrobial misuse in small-scale chicken farms in Vietnam from an observational study. BMC Vet Res. 2019 Dec;15(1):206. https://doi.org/10.1186/s12917-019-1947-0

Thai PQ, Rabaa MA, Luong DH, Tan DQ, Quang TD, Quach H-L, … & Choisy M The First 100 Days of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Control in Vietnam. Clinical Infectious Diseases. 2021 May 4;72(9):e334–42. https://doi.org/10.1093/cid/ciaa1130

Van Cuong N, Kiet BT, Phu DH, Van NTB, Hien VB, Thwaites G, … & Choisy M Effects of prophylactic and therapeutic antimicrobial uses in small‐scale chicken flocks. Zoonoses Public Health. 2021 Aug;68(5):483–92. https://doi.org/10.1111/zph.12839


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