Preprints

1. BENHAMOU W., BLANQUART F., CHOISY M., BERNGRUBER T.W., CHOQUET R. & GANDON S. (2024) Evolution of virulence in emerging epidemics: from theory to experimental evolution and back bioRxiv [DOI] [PDF]


2. MAN D.N.H., NGOC N.M., HOANG D.M., TRANG N.H., THAO D.T.P., HANG V.T.T., TAN L.V., NGA N.T.Q., DUNG N.T., HUNG L.M., THAI P.Q., VINH CHAU N.V., THWAITES G.E., CHOISY M. & RAHMAN M. (2020) Preventing laboratory-associated infections in the COVID-19 era: experience from a tertiary care infectious disease hospital in Southern Vietnam Research Square [DOI] [PDF]


3. BLANQUART F., BERNGRUBER T., CHOISY M. & GANDON S. (2020) Evolution of virulence in emerging epidemics: inference from an evolution experiment bioRxiv [DOI] [PDF]


4. PATERNINA-CAICEDO A.J., CHOISY M., GARCIA-CALAVARO C., CAMARGO-ESPAÑA G., ROJAS-SUARES J., DUEÑAS C., SMITH A. & de la HOZ-RESTREPO F.P. (2020) Social interventions can lower COVID-19 deaths in middle-income countries medRxiv [DOI] [PDF]


5. DJIDJOU-DEMASSE R., MICHALAKIS Y., CHOISY M., SOFONEA M.T. & ALIZON S. (2020) Optimal COVID-19 epidemic control until vaccine deployment medRxiv [DOI] [PDF]


6. ALTHAUS C.L., CHOISY M., ALIZON S. & the CSF group (2015) How sex acts scale with the number of sex partners: evidence from Chlamydia trachomatis data and implications for control PeerJ Preprints. [PDF]

Research articles

1. PHAM D., NGUYEN Q., NGUYEN T.P.Y., TUYEN H.T., NGOC D.T.T., PHAT V.V., CHAU V., NGUYEN L.N.P., LE T.Q.N., HUONG L.N.P., TO N.T.N., TRINH V.T., CARRIQUE-MAS J., BAKER S., THWAITES G., RABAA M., CHOISY M. & THE H.C. (2024) Genomic insights unveil the plasmid transfer mechanism and epidemiology of hypervirulent Klebsiella pneumoniae in Vietnam. Nat Commun In Press.


2. TAN Y.R., NGUYEN D.M., MUBAIRA C.A., KAJUNGU D., KUMAR D., CANLAS F.C., SUNARYOKO F.Y., MAHARJAN G.R., KHOSA H., HAUTER I., THIGA J., ANOWAR M.M., OKWEN P., KUTADZA T., CHIKANYA W., CHOISY M. & YAP P. (2024) Building citizen science intelligence for outbreak preparedness and response: A Mixed Method Study in Nine Countries to Assess Knowledge, Readiness, and Feasibility BMJ Global Health 9: e014490 [PDF]


3. SOMÉ B., GUISSOU E., DA D., RICHARD Q., CHOISY M., YAMEOGO B., HIEN D., YERBANGA S., OUEDRAOGO G.A., DABIRÉ R.K., DJIDJOU-DEMASSE R., COHUET A. & LEFÈVRE T. (2024) Mosquito aging modulates the development, virulence and transmission potential of pathogens. Proceedings B 291(2014): 20232097 [PDF] * #


4. YANG F., SERVADIO J.L., LE THANH N.T., LAM H.M., CHOISY M., THAI P.Q., NHU THAO T.T., THAO VY N.H., PHUONG H.T., NGUYEN T.D., HOAI TAM D.T., HANKS E.M., VINH H., BJORNSTAD O.N., VAN VINH CHAU N. & BONI M.F. (2023) A combination of annual and nonannual forces drive respiratory disease in the tropics BMJ Global Health 8(11): e013054 [PDF] * #


5. NHUNG N.T., DUTTA A., HIGGINSON E., KERMACK L., YEN N.T.P., PHU D.H., KIET B.T., CHOISY M., GESKUS R., BAKER S. & CARRIQUE-MAS J.J. (2023) Impact of antimicrobial use on abundance of antimicrobial resistance genes in chicken flocks in Vietnam JAC-AMR 5(4): dlad090 [PDF] * #


6. SERVADIO J.L., THAI P.Q., CHOISY M. & BONI M.F. (2023) Repeatability and timing of tropical influenza epidemics PLoS Comput. Biol. 19(7): e1011317 [PDF] * #


7. DJIDJOU-DEMASSE R., SOFONEA M.T., CHOISY M. & ALIZON S. (2023) Within-host evolutionary dynamics of antimicrobial quantitative resistance Math. Model. Nat. Phenom. 18(2023): 24 [PDF] * #


8. C.L. THWAITES, T.T. TAN, N.T.H. NY, L.A. NGUYET, N.T.D. NHAT, C.T. THUY, N.T.L. THANH, N.T. DUNG, OUCRU Sero-surveillance Network, J. CAMPBELL, P.Q. THAI, L.V. TAN, CHOISY M. & M.F. BONI (2023) Seroprotection against tetanus in Vietnam Vaccine 41(13):2208-2213 [PDF] * #


9. HA H.T.A., NGUYEN P.T.L., HUNG T.T.M., TUAN L.A., THUY B.T., LIEN T.H.M., THAI P.D., THANH N.H., BICH V.T.N., ANH T.H., HANH N.T.H., MINH N.T., THANH D.P., MAI S.N.T., THE H.C., TRUNG N.V., THU N.H., DUONG T.N., ANH D.D., NGOC P.T., BAÑULS A.-L., CHOISY M., VAN DOORN H.R., SUZUKI M. & HOANG T.H. (2023) Prevalence and Associated Factors of optrA-Positive-Enterococcus faecalis in Different Reservoirs around Farms in Vietnam Antibiotics 12(6): 954 [PDF] * #


10. H.E. BRINDLE, L.S. BASTOS, R. CHRISTLEY, L. CONTAMIN, L.H. DANG, D.D. ANH, N. FRENCH, M. GRIFFITHS, B. NADJM, H.R. VAN DOORN, P.Q. THAI, T.N. DUONG & CHOISY M. (2023) The spatio-temporal distribution of acute encephalitis syndrome and its association with climate and landcover in Vietnam BMC Inf Dis 23:403 [PDF] * #


11. LAZARUS J.V., ROMERO D., KOPKA C.J., KARIM S.A., ABU-RADDAD L.J., ALMEIDA G., BAPTISTA-LEITE R., BAROCAS J.A., BARRETO M.L., BAR-YAM Y., BASSAT Q., BATISTA C., BAZILIAN M., CHIOU S.-T., DEL RIO C., DORE G.J., GAO G.F., GOSTIN L.O., HELLARD M., JIMENEZ J.L., KANG G., LEE N., MATICIC M., MCKEE M., NSANZIMANA S., OLIU-BARTON M., PRADELSKI B., PYZIK O., RABIN K., RAINA S., RASHID S.F., RATHE M., SAENZ R., SINGH S., TROCK-HEMPLER M., VILLAPOL S., YAP P., BINAGWAHO A., KAMARULZAMAN A., EL-MOHANDES A. & COVID-19 Consensus Statement Panel (2022) A multinational Delphi consensus to end the COVID-19 public health threat Nature 611(7935):332-345. [PDF] * #


12. DANESH G., SAULNIER E., GASCUEL O., CHOISY M. & ALIZON S. (2022) Simulating trajectories and phylogenies from population dynamics models with TiPS Methods Ecol. Evol. 14: 487-495. [PDF] [R package] * #


13. TRAN H.H., NGUYEN T.L.P., NGO T.H.H., TRAN T.M.H., VU T.N.B., TRAN H.A., PHAM D.T., NGUYEN H.T., TRAN D.L., NGUYEN T.P.L., NGUYEN T.T.T., TRAN N.D., DANG D.A., SUZUKI M., LE V.T., BAÑULS A.-L., CHOISY M. & VAN DOORN H.R. (2022) Genomic epidemiological analysis of mcr-1-harboring Escherichia coli collected from livestock settings in Vietnam Front. Vet. Sci. 9: 1034610 [PDF] * #


14. TAN Y.-R., AGRAWAL A., MATSOSO M.P., KATZ R., DAVIS S.L.M., WINKLER A.S., HUBER A., JOSHI A., EL-MOHANDES A., MELLADO B., MUBAIRA C.A., CANLAS F.C., ASIKI G., KHOSA H., LAZARUS J.V., CHOISY M., RECAMONDE-MENDOZA M., KEIZER O., OKWEN P., ENGLISH R., STINCKWICH S., KIWUWA-MUYINGO S., KUTADZA T., SETHI T., MATHAHA T., NGUYEN V.-K., GILL A. & YAP P. (2022) A Call for Citizen Science in Pandemic Preparedness and Response BMJ Glob Health 7:e009389 [PDF]


15. BRINDLE H.E., NADJM B., CHOISY M., CHRISTLEY R., GRIFFITHS M., BAKER S., BRYANT J.E., VINH CHAU N.V., NGOC DIEP N.T., HANG V.T.T., HUNG N.V., LONG H.B., LUAT L.X., HA MY P., NGAN T.T.D., NGHIA H.D.T., NGUYEN T.T., HANH NY N.T., MY PHUC T., PHUONG P.T.H., LE V.T., THUAN N.D., TRANG H.T.T., VINH N.N., WERTHEIM H.F.L., THWAITES G.E. & VAN DOORN H.R., on behalf of the VIZIONS consortium (2022) Aetiology and Potential Animal Exposure in Central Nervous System Infections in Vietnam EcoHealth 19(4): 463-474 [PDF] * #


16. BASTARD J., NGUYEN T.N., VO B.H., BACH T.K., TEMIME L., OPATOWSKI L., CARRIQUE-MAS J. & CHOISY M. (2022) Colistin resistance in small-scale chicken farms of the Mekong delta of Vietnam is driven by recent within-farm antimicrobial use and introductions from outside the farm Transboundary and Emerging Diseases 69(5):e2185-e2194 [PDF]


17. NGUYEN T.L.P., TRAN T.M.H., TRAN H.A., PHAM D.T., LUONG M.T., NGUYEN H.T., NGUYEN T.P.L., NGUYEN T.T.T., HOANG T.A.H., NGUYEN C., TRAN N.D., DANG D.A., SUZUKI M., LE V.T., BAÑULS A.-L., CHOISY M., van DOORN H.R. & HUY HOANG T. (2022) Carriage of Plasmid-Mediated Colistin Resistance-1-Positive Escherichia coli in Humans, Animals, and Environment on Farms in Vietnam Am. J. Trop. Med. Hyg. 107(1):65-71 [PDF]


18. NHUNG N.T., YEN N.T.P., DUNG N.T.T., NHAN N.T.M., PHU D.H., BACH T.K., THWAITES G., GESKUS R., BAKER S., CARRIQUE-MAS J. & CHOISY M. (2022) Antimicrobial resistance in commensal Escherichia coli from humans and chickens in the Mekong Delta of Vietnam is driven by antimicrobial usage and cross-species transmission JAC-AMR 4(3):dlac054 [PDF]


19. WALKER T.M., CHOISY M., DEDICOAT M., DRENNAN P.G., WYLLIE D., YANG-TURNER F., CROOK D.W., ROBINSON E., WALKER A.S., SMITH E.G. & PETO T.E.A. (2022) Mycobacterium tuberculosis transmission in Birmingham, UK, 2009-19: an observational study Lancet Reg Health Eur 17:100361 [PDF]


20. RICHARD Q., CHOISY M., LEFEVRE .T & DJIDJOU-DEMASSE R. (2022) Human-vector malaria transmission model structured by age, time since infection and waning immunity Nonlinear Anal. Real World Appl. 63:103393-426 [PDF]


21. CHOISY M., McBRIDE A., CHAMBERS M., QUANG C.H., QUANG H.N., CHAU N.T.X., GIANG N.T., BONELL A., EVANS M., MING D., NGO-DUC T., THAI P.Q., GIANG D.H.D., THANH H.N.D., NHUNG H.N., LOWE R., MAUDE R., ELYAZAR I., SURENDRA H., ASHLEY E.A., THWAITES L., van DOORN H.R., KESTELYN E., DONDORP A., THWAITES G.E., VINH CHAU N.V. & YACOUB S. (2022) Climate change and health in Southeast Asia - defining research priorities and the role of the Wellcome Trust Africa Asia Programmes Wellcome Open Research 6:268 [PDF]


22. VINH D.N., NHAT N.T.D., DE BRUIN E., VY N.H.T., THAO T.T.N., PHUONG H.T., ANH P.H., TODD S., QUAN T.M., THANH N.T.L., LIEN N.T.N., HA N.T.H., HONG T.T.K., THAI P.Q., CHOISY M., NGUYEN T.D., SIMMONS C.P., THWAITES G.E., CLAPHAM H.E., VINH CHAU N.V., KOOPMANS M. & BONI M.F. (2021) Age-seroprevalence curves for the multi-strain structure of influenza A virus Nat Commun 12(1):6680 [DOI] [PDF]


23. VINH CHAU N.V., NGOC N.M., NGUYET LA., QUANG V.M., HAN NY N.T., KHOA D.B., PHONG N.T., TOAN L.M., THU HONG N.T., KIM TUYEN N.T., PHAT V.V., NHU L.N.T., TRUC N.H.T., TON THAT B.T., THAO H.P., TAHO T.N.P., VUONG V.T., THANH TAM T.T., TAI N.T., BAO H.T., KIM NHUNG H.T., NGOC MINH N.T., MY TIEN N.T., HUY N.C., CHOISY M., HUY MAN D.N., BICH TY D.T., ANH N.T., TAM UYEN L.T., HOANG TU T.N., YEN L.M. DUNG N.T., HUNG L.M., TRUONG N.T., THANH T.T., THWAITES G., TAN L.V. & OUCRU COVID-19 Research Group (2021) Transmission of SARS-CoV-2 Delta Variant Among Vaccinated Healthcare Workers, Vietnam EClinicalMedicine 41: 101143 [PDF]


24. VINH CHAU N.V., NGUYET L.A., TRUONG N.T., TOAN L.M., DUNG N.T., HUNG L.M., NHAN M.T., MAN D.N.H., NGOC N.M., THAO H.P., TU T.N.H., MAI H.K., HUNG D.T., NY N.T.H., THANH L.K., ANH N.T., HONG N.T.T., NHU L.N.T., YEN L.M., CHOISY M., THANH T.T., THWAITES G., TAN L.V. & OUCRU COVID-19 Research Group (2021) Immunogenicity of Oxford-AstraZeneca COVID-19 vaccine in Vietnamese healthcare workers Am. J. Trop. Med. Hyg. 106(2): 556-561 [PDF]


25. SELINGER C., CHOISY M. & ALIZON S. (2021) Predicting COVID-19 incidence in French hospitals using human contact network analytics International Journal of Infectious Diseases: 111:100-107 [PDF]


26. VAN N.T.B., VI O.T., YEN N.T.P., NHUNG N.T., CUONG N.V., KIET B.T., HOANG N.V., HIEN V.B., THWAITES G., CAMPBELL J., CHOISY M. & CARRIQUE-MAS J. (2021) Minimum inhibitory concentrations of commercial essential oils against common chicken pathogenic bacteria and their relationship with antibiotic resistance J. Appl. Microbiol. 132:1025-1035. [PDF].


27. CUONG N.V., NGUYEN P., CAM L., NGUYEN T.B.V., DOAN H.P., BACH T.K., VO B.H., PADUNGTOD P., THWAITES G., CHOISY M. & CARRIQUE-MAS J. (2021) Feasibility study of a field survey to measure antimicrobial usage in humans and animals in the Mekong Delta region of Vietnam JAC-Antimicrobial Resistance 3(3): dlab107. [PDF].


28. CUONG N.V., BACH T.K., DOAN H.P., NGUYEN T.B.V., VO B.H., THWAITES G., CARRIQUE-MAS J. & CHOISY M. (2021) Effects of prophylactic and therapeutic antimicrobial uses in small-scale chicken flocks Zoonoses Public Health: 68(5):483-492 [PDF].


29. CUONG N.V., KIET B.T., HIEN B.V., TRUONG B.D., THWAITES G., CHOISY M. & CARRIQUE-MAS J. (2021) Antimicrobial use through consumption of medicated feeds in chicken flocks in the Mekong Delta of Vietnam: A three-year study before a ban on antimicrobial growth promoters. PLoS ONE 16(4):e0250082 [PDF].


30. VU T.V.D., CHOISY M., DO T.T.N., NGUYEN V.M.H., CAMPBELL J.I., LE T.H., NGUYEN V.T., WERTHEIM H.F.L., NGUYEN V.K., van DOORN H.R. & the VINARES consortium (2021) Antimicrobial susceptibility testing results from 13 hospitals in Viet Nam - the VINARES project, 2016-2017 Antimicrob. Resist. Infect. Control. 10(1):78-88. [PDF].


31. PHUONG H.V.M., TUNG T.S., TRANG U.T.H., HANG N.L.K., SON N.V., HIEN P.T., THANH L.T., CUONG V.D., THANH T.T., NHAN N.T.T., DUONG T.N., NGHIA N.D., TU T.A., CHOISY M., Rabaa M.A., VAN DOORN H.R., ANH D.D. & MAI L.Q. (2021) Novel Mutation of SARS-CoV-2, Vietnam, July 2020. Emerg. Infect. Dis. 27(5):1519-1521. [PDF]


32. RICHARD Q., ALIZON S., CHOISY M., SOFONEA M.T. & DJIDJOU-DEMASSE R. (2021) Age-structured non-pharmaceutical interventions for optimal control of COVID-19 epidemic PLoS Comput. Biol. 17(3):e1008776. [PDF]


33. NGUYEN T.B.V., NGUYEN V.C., NGUYEN T.N., NGUYEN T.P.Y., LE V., BACH T.K., NGUYEN V.H., VO B.H., HO T.V.T., CHANSIRIPORNCHAI N., THWAITES G.E., CHOISY M. & CARRIQUE-MAS J.J. (2021) A Seroepidemiological Investigation on Major Viral and Bacterial Pathogens in Small-Scale Chicken Flocks in the Mekong Delta Region of Vietnam. Thai J Vet Med 51(4):729-733 [PDF]


34. PHAM T.Q., RABAA M., DUONG L.H., DANG T.Q., TRAN Q.D., QUACH H.L., HOANG N.A., PHUNG D.C., NGU N.D., TRAN A.T., LA N.Q., TRAN M.P., VINH C., NGUYEN K.C., DANG D.A., TRAN D.N., THWAITES G.E., van DOORN H.R. & CHOISY M. (2021) The first 100 days of SARS-CoV-2 control in Vietnam Clin. Infect. Dis. 72(9):e334-42 [PDF] [Editorial Commentary]


35. NGUYEN V.V.C., VO T.L., NGUYEN T.D., LAM M.Y., NGO N.Q.M., LE M.H., NGHIEM M.N., NGUYEN T.D., DINH N.H.M., LAM A.N., LE T.H.N., LE N.T.N., NGUYEN T.H.N., NGUYEN T.T.H., KESTELYN E., NGUYEN T.P.D., TRAN C.X., TRAN T.H., NGUYEN T.P., TRAN N.H.T., GESKUS R.B., TRAN T.T., NGUYEN T.T., NGUYEN T.B., TANG C.T., THWAITES G.E., LE V.T. & OUCRU COVID-19 Research Group (2020). The Natural History and Transmission Potential of Asymptomatic Severe Acute Respiratory Syndrome Coronavirus 2 Infection Clin. Infect. Dis. 71(10):2679-87 [PDF]


36. CALVEZ E., POMMELET V., SOMLOR S., POMPON J., VIENGPHOUTHONG S., BOUNMANY P., CHINDAVONG T.A., XAYBOUNSOU T., PRASAYASITH P., KEOSENHOM S., BREY P.T., TELLE O, CHOISY M., MARCOMBE S., & GRANDADAM M. (2020) Trends of the dengue serotype-4 circulation with epidemiological phylogenetic and entomological insights in Laos between 2015 and 2019. Pathogens 9(9):728. [PDF]


37. CLAPHAM H., HAY J., ROUTLEDGE I., TAKAHASHI S., CHOISY M., CUMMINGS D., GRENFELL B., METCALF C.J., MINA M., RODRIGUEZ-BARRAQUER I., SALJE H. & TAM C. (2020) Sero-epidemiological study designs for understanding SARS-CoV-2 transmission and immunity Emerg. Infect. Dis. 26(9):1978-1986. [PDF].


38. BONELL A., CONTAMIN L., PHAM Q.T., HOANG T.T.T., van DOORN H.R., WHITE R., NADJM B. & CHOISY M. (2020) Does sunlight drive seasonality of TB in Vietnam? A retrospective environmental ecological study of tuberculosis seasonality in Vietnam from 2010-2015 BMC Infect. Dis. 20:184. [PDF]


39. CARRIQUE-MAS J., CHOISY M., CUONG N.V., THWAITES G. & BAKER S. (2020) An estimation of total antimicrobial usage in humans and animals in Vietnam. Antimicrob. Resist. Infect. Control 9:16. [PDF]


40. ANH D.D., CHOISY M., CLAPHAM H.E., CUONG H.Q., DUNG V.T.V., DUONG T.N., HANG T.N., HA H.T.T., HIEN N.T., HOA T.T.N., HUNG T.T.M., HUONG V.T.L., HUYEN D.T.T., KHANH N.C., LEWYCKA S.O., LINLEY E., MAI L.T.Q., NADJM B., NGHIA N.D., PEBODY R., PHUONG H.V.M., TAN L.M., TAN L.V., THAI P.Q., THANH L.V., THANH N.T.L., THUY N.T.T., THUONG N.T., THANH L.T., THAO N.T.T., TUAN N.A., UYEN P.T.N. & van DOORN H.R. (2020) Plans for nationwide serosurveillance network in Vietnam. Emerg. Infect. Dis. 26(1):e190641 [PDF]


41. VAN N.T.B., YEN N.T.P., NHUNG N., CUONG N., KIET B., HOANG, N.V., HIEN V., NIWAT C., CHOISY M., RIBAS A., CAMPBELL J., THWAITES G. & CARRIQUE-MAS J. (2019) Characterization of viral, bacterial, and parasitic causes of disease in small-scale chicken flocks in the Mekong Delta of Vietnam. Poultry Science. 99(2):783-790. [PDF]


42. VIET D.V.T., NGA D.T.T., RYDELL U., NILSSON L.E., OLSON L., LARSSON M., HANBERGER H., CHOISY M., TRINH D., VAN DOORN H.R., KINH NGUYEN V., TRUNG NGUYEN V. & WERTHEIM H.F.L. (2019) Antimicrobial susceptibility testing and antibiotic consumption results from 16 hospitals in Viet Nam: the VINARES project, 2012-2013 J. Glob. Antimicrob. Resist. 18:269-278. [PDF]


43. CHOISY M., NGUYEN V.C., TRUONG D.B., BACH T.K., BO V.H., HO V.T., CHANSIRIPORNCHAI N., SETYAWAN E., THWAITES G., RUSHTON J. & CARRIQUE-MAS J. (2019) Assessing antimicrobial misuse in small-scale chicken farms in Vietnam from an observational study BMC Vet. Res. 15:206. [PDF]


44. NGUYEN V.C., DOAN H.P., NGUYEN T.B.V., TRUONG D.B., BACH T.K., BO V.H., HO T.V.T., CHOISY M., PADUNGTOD P., THWAITES G. & CARRIQUE-MAS J. (2019) High resolution monitoring of antimicrobial consumption in Vietnamese small-scale chicken farms highlights discrepancies between study metrics Frontiers in Vet. Sci. 6:174. [PDF]


45. NGUYEN V.T., LE T.H., VU M.D., DANG T.H., TRAN M.H., VU N.L., PHAN V.L., LEWYCKA S.O., CHOISY M., BRYANT J.E., NADJM B., VAN DOORN H.R., RICHARDS A.L. & NGUYEN V.K. (2019) Clinical presentation and molecular diagnosis of rickettsial diseases in northern Vietnam, 2015-2017 Emerg. Infect. Dis. 25(4): 633-641. [PDF]


46. CHOISY M., TRINH S.T., NGUYEN T.N.D., NGUYEN T.H., MAI Q.L., PHAM Q.T., TRAN N.D., DANG D.A., HORBY P.W., BONI M.F., BRYANT J., LEWYCKA S.O., NADJM B., VAN DOORN H.R. & WERTHEIM H.F.L. (2019) Sero-prevalence surveillance to predict vaccine-preventable disease outbreaks; a lesson from the 2014 measles epidemic in northern Vietnam Open Forum Infect. Dis. 6(3): ofz030. [PDF]


47. CARRIQUES-MAS J., NGUYEN T.B.V., NGUYEN V.C., TRUONG D.B., BACH T.K., PHAM T.H.T., NGUYEN N.L., GIAO V.T.Q., VO B.H., PAWIN P.,CHOISY M., SETYAWAN E., RUSHTON J. & THWAITES G.E. (2019) Mortality, disease and associated antimicrobial use in small-holder chicken flocks in the Mekong Delta of Vietnam Prev. Vet. Med. 165: 15-22. [PDF]


48. LAI S, JOHANSSON M.A., YIN W., WARDROP N.A., VAN PANHUIS W.G., WESOLOWSKI A., KRAEMER M.U.G, BOGOCH I., KAIN D., FINDLATER A., CHOISY M., HUANG Z., MU D., LI Y., HE Y., CHEN Q., KHAN K., TATEM A.J. & YU H. (2018) Seasonal and interannual risks of dengue introduction from South-East Asia into China, 2005-2015 PLoS Negl Trop Dis 12(11): e0006743. [PDF]


49. ABBATE J.L, EZENWA V.O., GUÉGAN J.-F., CHOISY M., NACHER M. & ROCHE B. (2018) Disentangling complex parasite interactions: protection against cerebral malaria by one helminth species is jeopardized by co-infection PLoS Negl Trop Dis 12(5): e0006483. [PDF]


50. HO T.H., THOMPSON C., LE N.T.N., HOANG M.T.V., NGUYEN T.D., TRAN M.P., VO M.Q., NGUYEN T.H., HA M.T., NGUYEN V.V.C., WOLBERS M., THWAITES G.E., CHOISY M. & BAKER S. (2018) Retrospective analysis assessing the spatial and temporal distribution of paediatric acute respiratory tract infections in Ho Chi Minh City, Vietnam BMJ Open 8(1): e016349. [PDF]


51. LEFÈVRE T., OHM J., DABIRÉ K., COHUET A., CHOISY M., THOMAS M. & CATOR L. (2017) Transmission traits of malaria parasites within the mosquito: genetic variation, phenotypic plasticity, and consequences for control Evolutionary Applications 11(4): 456-469. [PDF]


52. DELABOUGLISE A., CHOISY M., PHAN D.T., ANTOINE-MOUSSIAUX N., PEYRE M., VU D.T., PFEIFFER D.U. & FOURNIÉ G. (2017) Economic factors influencing zoonotic disease dynamics: demand for poultry meat and seasonal transmission of avian influenza in Vietnam Scientific Reports 7(1): 5905. [PDF]


53. CHOISY M., KEOMALAPHET S., XAYDALASOUK K., QUET F., LATTHAPHASAVANG V. & BUISSON Y. (2017) Prevalence of hepatitis B virus (HBV) infection among pregnant women attending antenatal clinics in Vientiane, Laos, 2008-2014 Hepatitis Research and Treatment 2017: 1284273. [PDF]


54. BOITHIAS L., CHOISY M., SOULIYASENG N., JOURDREN M., QUET F., BUISSON Y., THAMMAHACKSA C., SILVERA N., SENGTAHEUANGHOUNG O., PIERRET A., ROCHELLE-NEWALL E., BECERRA S. & RIBOLZI 0. (2016) Hydrological regime and water shortage as drivers of the seasonal incidence of diarrheal diseases in a tropical montane environment PLoS Negl Trop Dis 10(12): e0005195. [PDF]


55. NGUYỄN T.V.A., BAÑULS A.-L., TRAN T.H.T., PHAM K.L.T., NGUYỄN T.S., NGUYỄN H.V., NGUYỄN N.L.T., NGUYỄN N.L.T., DANG D.A., MARKS G.B. & CHOISY M. (2016) Mycobacterium tuberculosis lineages and anti-tuberculosis drug resistance in reference hospitals across Vietnam BMC Microbiology 16(1): 167. [PDF]


56. MAI D.T., PEACOCK T.P., BICH V.T.N., FABRIZIO T., DANG N.H., THO N.D., DIEP N.T., MINH N., HOA L.N.M., TRANG H.T.T., CHOISY M., INUI K., NEWMAN S., TRUNG N.V., van DOORN F.R., TO T.L., IQBAL M. & BRYANT J.E. (2016) Prevalence and diversity of H9N2 avian influenza in chickens of Northern Vietnam, 2014 Infect. Genet. Evol. 44: 530-540. [PDF]


57. CHAZEL M., MARCHANDIN H., KECK N., TERRU D., CARRIÈRE C., PONSADA M., JACOMO V., PANTEIX G., BOUZINBI N., BAÑULS A.-L., CHOISY M., AUBREY A. & GODREUIL S. (2016) Evaluation of the SLOMYCO Sensititre® Panel for testing the antimicrobial susceptibility of Mycobacterium marinum isolates Ann. Clin. Microbiol. Antimicrob. 15: 30. [PDF]


58. PEYRE M., CHOISY M., SOBHY H., KILANY W.H., GÉLY M., TRIPODI A., DAUPHIN G., SAAD M., ROGER F., LUBROTH J. & JOBRE Y. (2016) Added value of avian influenza (H5) day old chick vaccination for disease control in Egypt Avian Diseases 60(1 Suppl): 245-252. [PDF]


59. van PANHUIS W.G., CHOISY M., XIONG X., CHOK N.S., AKARASEWI P., IAMSIRITHAWORN S., LAM S.K., CHONG C.K., LAM F.C., PHOMMASAK B., VONGPHRACHANH P., BOUAPHANH K., REKOL H., HIEN N.T., DUONG T.N., THAI P.Q., CHUANG J.-H., LIU Y.-L., NG L.C., SHI Y., TAYAG E.A., ROQUE V.G., SUY L.L.L., JARMAN R.G., GIBBONS R.V., VELASCO J.M.S., YOON I.-K., BURKE D.S. & CUMMINGS D.A.T. (2015) Region-wide synchrony and traveling waves of dengue across eight countries in Southeast Asia Proc. Natl. Acad. Sci. USA 112(42): 13069-13074. [PDF]


60. TRANG N.V., CHOISY M., NAKAGOMI T., CHINH N.T.M., DOAN Y.H., YAMASHIRO T., BRYANT J.E., NAKAGOMI O. & ANH D.D. (2015) Determination of cut-off cycle threshold values in routine RT-PCR assays to assist differential diagnosis of norovirus in children hospitalized for acute gastroenteritis Epidemiology & Infection 143(15): 3292-3299. [PDF] [R code]


61. LE VIET T., CHOISY M., BRYANT J.E., VU T.D., PHAM Q.T., LE Q.M., HORBY P., NGUYEN T.H. & WERTHEIM H.F.L. (2015) A Dengue outbreak on a floating village at Cat Ba island in Vietnam BMC Public Health 15: 940. [PDF]


62. THAI P.Q., CHOISY M., DUONG T.N., THIEM V.D., YEN N.T., HIEN N.T., WEISS D.J., BONI M.F. & HORBY P. (2015) Seasonality of absolute humidity explains seasonality of influenza-like illness in Vietnam Epidemics 13: 65-73. [PDF]


63. HOA L.N.M., BRYANT J.E., CHOISY M., NGUYET L.A., BAO N.T., TRANG N.H., CHUC N.T.K., TOAN T.K., SAITO T., TAKEMAE N., HORBY P.W., WERTHEIM H.F.L. & FOX A. (2015) Population susceptibility to a variant swine-origin influenza virus A/H3N2 in Vietnam, 2011-2012 Epidemiology & Infection 143(14): 2959-2964. [PDF]


64. ÐỖ T.T.T., MARTENS P., LƯU N.H., WRIGHT P. & CHOISY M. (2014) Climatic-driven seasonality of emerging dengue fever in Hanoi, Vietnam BMC Public Health 14: 1078. [PDF]


65. CHOISY M. & DE ROODE J.C. (2014) The ecology and evolution of animal medication: genetically fixed response versus phenotypic plasticity. The American Naturalist 184 (Suppl. 1): S31-46. [PDF] [Movie]


66. ROCHE B., BROUTIN H., CHOISY M., GODREUIL S., CONSTANTIN DE MAGNY G., CHEVALEYRE Y., ZUCKER J.-D., BREBAN R., CAZELLES B. & SIMARD F. (2014) The niche reduction approach: an opportunity for optimal control of infectious diseases in low-income countries? BMC Public Health 14: 753-761. [PDF]


67. GASCUEL F., CHOISY M., DUPLANTIER J.-M., DÉBARRE F. & BROUAT C. (2013) Host resistance, population structure and the long-term persistence of bubonic plague: contributions of a modelling approach in the Malagasy focus. PLoS Comput Biol 9 (5): e1003039. [PDF]


68. BERNGRUBER W.T., FROISSART R., CHOISY M. & GANDON S. (2013) Evolution of virulence in emerging epidemics. PLoS Pathog 9 (3): e1003209. [PDF]


69. VALE P.F., CHOISY M. & LITTLE T.J. (2013) Host nutrition alters the variance in parasite transmission potential. Biology Letters 9 (2): 20121145. [PDF]. Seen in The Times, The Herald, and on CBS.


70. KOUOKAM E., ZUCKER J.-D., FONDJO F. & CHOISY M. (2013) Disease control in an age-structured population. ISRN Epidemiology 2013: 703230. [PDF]


71. VALE P.F., CHOISY M., FROISSART R., SANJUÁN R. & GANDON S. (2012) The distribution of mutational fitness effects of phage ΦX174 on different hosts. Evolution 66 (11): 3495-3507. [PDF] [SOM]


72. NGUYỄN T.V.A., CHOISY M., NGUYỄN D.H., TRẤN T.H.T., PHẠM K.L.T., ĐINH P.T.T., PHILIPPE J., NGUYỄN T.S., HỒ M.L., TRẦN S.V., BAÑULS A.-L. & ĐĂNG D.A. (2012) High prevalence of Beijing and EAI4-VNM genotypes among M. tuberculosis isolates in northern Vietnam: sampling effect, rural and urban disparities. PLoS ONE 7 (9): e45553. [PDF]


73. CHOISY M. & ROHANI P. (2012) Changing spatial epidemiology of pertussis in continental USA. Proc. R. Soc. B 279 (1747): 4574-4581. [PDF] [SEM] [Movies]


74. BROUTIN V., BAÑULS A.-L., AUBRY A., KECK N., CHOISY M., BERNADET J.-F., MICHEL C., RAYMOND J.-C., LIBERT C., BARNAUD A., STRAGIER P., PORTAELS F., TERRU D., BELON C., DEREURE O., GUTIERREZ C., BOSCHIROLI M.-L., VAN DE PERRE P., CAMBAU E. & GODREUIL S. (2012) Genetic diversity and population structure of Mycobacterium marinum: New insights into host and environmental specificities. Journal of Clinical Microbiology 50 (11): 3627-3634. [PDF]


75. GIMONNEAU G., POMBI M., CHOISY M., MORAND S., DABIRE R. & SIMARD F. (2012) Larval habitat segregation between the molecular forms of the mosquito Anopheles gambiae in a rice field area of Burkina Faso, West Africa. Medical and Veterinary Entomology 26 (1): 9-17. [PDF]


76. FAYE B., BAÑULS A.-L., BUCHETON B., DIONE M.M., BASSANGANAM O., HIDE M., DEREURE J., CHOISY M., NDIAYE J.L., KONATÉ O., CLAIRE M., SENGHOR M.W., FAYE M.N., SY I., NIANG A.A., MOLEZ J.-F., VICTOIR K., MARTY P., DELAUNAY P., KNECHT R., MELLUL S., DIEDHIOU S. & GAYE O. (2010) Canine visceral leishmaniasis caused by Leishmania infantum in Senegal: risk of emergence in humans? Microbes and Infection 12 (14-15): 1219-1225. [PDF]


77. CHOISY M. & DE ROODE J.C. (2010) Mixed infections and the evolution of virulence: effects of resource competition, parasite plasticity and impaired host immunity. The American Naturalist 175 (5): E105-E118. [PDF]


78. GODREUIL S., RENAUD, F., CHOISY M., DEPINA J., GARNOTEL E., MORILLON M., VAN DE PERRE P. & BAÑULS A.L. (2010) Highly structured genetic diversity of Mycobacterium tuberculosis population in Djibouti. Clinical Microbiology and Infection 16: 1023-1026. [PDF]


79. PRUGNOLLE F., CHOISY M. & DE MEEÛS T. (2008) Clonality v0.4: a randomization-based program to test for heterozygosity-genet size relationships in clonal organisms. Molecular Ecology Resources 8 (5): 954-956. [PDF]


80. NETTLE D., GRACE J.B., CHOISY M., CORNELL H.V., GUÉGAN J.-F. & HOCHBERG M.E. (2007) Cultural diversity, economic development and societal instability. PLoS ONE 2 (9): e929. [PDF]


81. CHOISY M., GUÉGAN J.-F. & ROHANI P. (2006) Dynamics of infectious diseases and pulse vaccination: teasing apart the embedded resonances effects. Physica D 223 (1): 26-35. [PDF]


82. CHOISY M. & ROHANI P. (2006) Harvesting can increase severity of wildlife disease epidemics. Proc. R. Soc. B 273 (1597): 2025-2034. [PDF] [comment from The New Scientist]


83. CHOISY M., HIDE M., BAÑULS A.-L. & GUÉGAN J.-F. (2004) Rocking the curve. Trends in Microbiology 12 (12): 534-536. [PDF]


84. PRUGNOLLE F., CHOISY M., THÉRON A., DURAND P. & DE MEEÛS T. (2004) Sex-specific correlation between heterozygosity and clone size in the trematode Schistosoma mansoni. Molecular Ecology 13 : 2859-2864. [PDF]


85. FARGETTE D., PINEL A., ABUBAKAR Z., TRAORÉ O., BRUGIDOU C., FATOGOMA S., HÉBRARD H., CHOISY M., YACOUBA S., FAUQUET C. & KONATÉ G. (2004) Inferring the evolutionary history of Rice Yellow Mottle Virus from genomic, phylogenetic, and phylogeographic studies. Journal of Virology 78(7): 3252-3261. [PDF]


86. CHOISY M., FRANCK P. & CORNUET J.M. (2004) Estimating admixture proportions with microsatellites: comparison of methods based on simulated data. Molecular Ecology 13 : 955-968. [PDF] [Color Figures]


87. CHOISY M., WOELK C.H., GUÉGAN J.-F. & ROBERTSON D.L. (2004) Comparative study of adaptive molecular evolution in different HIV clades. Journal of Virology 78 (4): 1962-1970.[PDF] [Supplementary Materials] [Corrected Fig. 2]


88. CHOISY M., BROWN S.P., LAFFERTY K.D. & THOMAS F. (2003) Evolution of trophic transmission in parasites: Why add intermediate hosts? The American Naturalist 162 (2): 172-181.[PDF]

Book chapters

1. CHOISY M. (2016) The control of infectious diseases in a regional context. In Shared Challenges for Development within ASEAN -- Applied and Analytical Methods. (LAGRÉE S. ed), Knowledge Publishing House. Pp. 105-121. [PDF]


2. CHOISY M., SITBOULANG P., VONGPANHYA M., SAIYAVONG C., KHAMPHAPHONGPHANH B., PHOMMASACK B., QUET F., BUISSON Y., ZUCKER J.D. & VAN PANHUIS W.G. (2015) Rescuing public health data. In Socio-Ecological Dimensions of Infectious Diseases in Southeast Asia. (MORAND S., DUJARDIN J.P., LEFAIT-ROBIN R. & APIWATHNASORN C. eds), Springer, Singapore. Pp. 171-190. [PDF]


3. CHOISY M. (2015) Origine et évolution du VIH. In Santé, Médecine et Sciences de l'Évolution : les Maladies Infectieuses. (VITTECOQ M., PRUGNOLLE F., ROCHE B., RENAUD F. & THOMAS F. eds), De Boeck Solal, Bruxelles, Belgique. Pp. 35-46. [PDF]


4. CHOISY M. (2010) Modélisation mathématique en épidémiologie. In Écologie de la santé et conservation. (GAUTHIER-CLERC M. & THOMAS F. eds), De Boeck Université, Bruxelles, Belgique. Pp. 159-182. [PDF]


5. CHOISY M. & CAZELLES B. (2008) Conséquences des dynamiques épidémiques en santé publique : Rôle des modèles mathématiques. In Introduction à l'Épidémiologie Intégrative des maladies infectieuses et parasitaires. (GUÉGAN J.F. & CHOISY M. eds), De Boeck Université, Bruxelles, Belgique. Pp. 3-40. [PDF]


6. CHOISY M., GUÉGAN J.-F. & ROHANI P. (2007) Mathematical modeling of infectious disease dynamics. In Encyclopedia of Infectious Diseases - Modern Methods (TIBAYRENC M. ed), John Wiley and Sons, Chichester, USA. Pp. 379-404. [PDF]


7. DE MEEÛS T., THÉRON A., PRUGNOLLE F., DURAND P., CAILLAUD D., CHOISY M., ROZE D., JARNE P., JABBOUR-ZAHAD R., ALONSO S., POINTIER J.P. & BOISSIER J. (2006) Les co-structures génétiques d'un parasite (Schistosoma mansoni) et de ses hôtes (mammifères et mollusques) dans la mangrove dulçaquicole de Guadeloupe : échelles spatiale, fonctionnelle et coévolutive. In Ecosystèmes tropicaux : actes du 2ème colloque de restitution du programme de recherche (BONHÊME I., APPORA V., ATRAMENTOWICZ M. & GILLON Y. eds), ECOFOR, Paris, France. Pp. 61-68. [PDF]


8. CONSTANTIN DE MAGNY G. & CHOISY M. (2004) Mathematical and technological tools: when cholera meets the satellite. In Biodiversity and Global Change. Social Issues and Scientific Challenges (BARBAULT R. & CHEVASSUS-AU-LOUIS B. eds), ADPF, Paris, France. Pp. 123-125. [PDF]

Edited book

1. GUÉGAN J.-F. & CHOISY M. (eds.) (2008) Introduction à l'Épidémiologie Intégrative des maladies infectieuses et parasitaires. De Boeck Université, 552 Pp.

© 2006-2024 Marc Choisy
Last modified: April 23 2024