Joseph Lewnard

Assistant Professor




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Personal Academic Website

Research/Topics of Interest

Pathogens/Diseases of Main Interest/Expertise

Countries of Work/Collaboration



Cheng Q, Collender PA, Heaney AK, McLoughlin A, Yang Y, Zhang Y, Head JR, Dasan R, Liang S, Lv Q, Liu Y, Yang C, Chang HH, Waller LA, Zelner J, Lewnard JA, Remais JV. (2022). Optimizing laboratory-based surveillance networks for monitoring multi-genotype or multi-serotype infections. PLoS computational biology, 18(9)

Hitchings MDT, Lewnard JA, Dean NE, Ko AI, Ranzani OT, Andrews JR, Cummings DAT. (2022). Use of recently vaccinated individuals to detect bias in test-negative case-control studies of COVID-19 vaccine effectiveness. Epidemiology (Cambridge, Mass.)

Bruxvoort KJ, Lewnard JA, Chen LH, Tseng HF, Chang J, Marrazzo J, Qian L. (2022). Prevention of Neisseria gonorrhoeae with meningococcal B vaccine: a matched cohort study in Southern California. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America

Brennhofer SA, Platts-Mills JA, Lewnard JA, Liu J, Houpt ER, Rogawski McQuade ET. (2022). Antibiotic use attributable to specific aetiologies of diarrhoea in children under 2 years of age in low-resource settings: a secondary analysis of the MAL-ED birth cohort. BMJ open, 12(4)

Lewnard JA, Mahmud A, Narayan T, Wahl B, Selvavinayagam TS, Mohan B C, Laxminarayan R. (2021). All-cause mortality during the COVID-19 pandemic in Chennai, India: an observational study. The Lancet. Infectious diseases

Fu H, Lewnard JA, Frost I, Laxminarayan R, Arinaminpathy N. (2021). Modelling the global burden of drug-resistant tuberculosis avertable by a post-exposure vaccine. Nature communications, 12(1)

Laxminarayan R, B CM, G VT, Arjun Kumar KV, Wahl B, Lewnard JA. (2021). SARS-CoV-2 infection and mortality during the first epidemic wave in Madurai, south India: a prospective, active surveillance study. The Lancet. Infectious diseases, 21(12)

Lewnard JA, Bruxvoort KJ, Fischer H, Hong VX, Grant LR, Jódar L, Gessner BD, Tartof SY. (2021). Prevention of COVID-19 among older adults receiving pneumococcal conjugate vaccine suggests interactions between Streptococcus pneumoniae and SARS-CoV-2 in the respiratory tract. The Journal of infectious diseases

Lo NC, Nyathi S, Chapman LAC, Rodriguez-Barraquer I, Kushel M, Bibbins-Domingo K, Lewnard JA. (2021). Influenza, Varicella, and Mumps Outbreaks in US Migrant Detention Centers. JAMA, 325(2)

Lewnard JA, Lo NC. (2020). Scientific and ethical basis for social-distancing interventions against COVID-19. The Lancet. Infectious diseases

Lewnard JA, Liu VX, Jackson ML, Schmidt MA, Jewell BL, Flores JP, Jentz C, Northrup GR, Mahmud A, Reingold AL, Petersen M, Jewell NP, Young S, Bellows J. (2020). Incidence, clinical outcomes, and transmission dynamics of severe coronavirus disease 2019 in California and Washington: prospective cohort study. BMJ (Clinical research ed.), (369)

Bennett A, Pollock L, Bar-Zeev N, Lewnard JA, Jere KC, Lopman B, Iturriza-Gomara M, Pitzer VE, Cunliffe NA. (2020). Community transmission of rotavirus infection in a vaccinated population in Blantyre, Malawi: a prospective household cohort study. The Lancet. Infectious diseases

Jewell NP, Lewnard JA, Jewell BL. (2020). Predictive Mathematical Models of the COVID-19 Pandemic: Underlying Principles and Value of Projections. JAMA

Head JR, Andrejko K, Cheng Q, Collender PA, Phillips S, Boser A, Heaney AK, Hoover CM, Wu SL, Northrup GR, Click K, Harrison R, Lewnard JA, Remais JV. (2020). The effect of school closures and reopening strategies on COVID-19 infection dynamics in the San Francisco Bay Area: a cross-sectional survey and modeling analysis. medRxiv : the preprint server for health sciences

Lewnard JA, King LM, Fleming-Dutra KE, Link-Gelles R, Van Beneden CA. (2020). Incidence of pharyngitis, sinusitis, acute otitis media, and outpatient antibiotic prescribing preventable by vaccination against group A Streptococcus in the United States. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America

Laxminarayan R, Wahl B, Dudala SR, Gopal K, Mohan B C, Neelima S, Jawahar Reddy KS, Radhakrishnan J, Lewnard JA. (2020). Epidemiology and transmission dynamics of COVID-19 in two Indian states. Science (New York, N.Y.), 370(6517)

Cheng Q, Collender PA, Heaney AK, Li X, Dasan R, Li C, Lewnard JA, Zelner JL, Liang S, Chang HH, Waller LA, Lopman BA, Yang C, Remais JV. (2020). The DIOS framework for optimizing infectious disease surveillance: Numerical methods for simulation and multi-objective optimization of surveillance network architectures. PLoS computational biology, 16(12)

Lewnard JA. (2020). Uses of pathogen detection data to estimate vaccine direct effects in case-control studies. Journal of the Royal Society, Interface, 17(169)

Lewnard JA, Rogawski McQuade ET, Platts-Mills JA, Kotloff KL, Laxminarayan R. (2020). Incidence and etiology of clinically-attended, antibiotic-treated diarrhea among children under five years of age in low- and middle-income countries: Evidence from the Global Enteric Multicenter Study. PLoS neglected tropical diseases, 14(8)

Wohl S, Metsky HC, Schaffner SF, Piantadosi A, Burns M, Lewnard JA, Chak B, Krasilnikova LA, Siddle KJ, Matranga CB, Bankamp B, Hennigan S, Sabina B, Byrne EH, McNall RJ, Shah RR, Qu J, Park DJ, Gharib S, Fitzgerald S, Barreira P, Fleming S, Lett S, Rota PA, Madoff LC, Yozwiak NL, MacInnis BL, Smole S, Grad YH, Sabeti PC. (2020). Combining genomics and epidemiology to track mumps virus transmission in the United States. PLoS biology, 18(2)

Lewnard JA, Lo NC, Arinaminpathy N, Frost I, Laxminarayan R. (2020). Childhood vaccines and antibiotic use in low- and middle-income countries. Nature, 581(7806)

Lewnard JA, Tedijanto C, Cowling BJ, Lipsitch M. (2019). THE AUTHORS REPLY. American journal of epidemiology, 188(4)

Head JR, Collender PA, Lewnard JA, Skaff NK, Li L, Cheng Q, Baker JM, Li C, Chen D, Ohringer A, Liang S, Yang C, Hubbard A, Lopman B, Remais JV. (2019). Early evidence of inactivated enterovirus 71 vaccine impact against hand, foot, and mouth disease in a major center of ongoing transmission in China, 2011-2018: a longitudinal surveillance study. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America

Lewnard JA, Givon-Lavi N, Dagan R. (2019). Interaction With Nontypeable Haemophilus influenzae Alters Progression of Streptococcus pneumoniae From Colonization to Disease in a Site-Specific Manner. The Journal of infectious diseases, 220(8)

Lewnard JA, Reingold AL. (2019). Emerging Challenges and Opportunities in Infectious Disease Epidemiology. American journal of epidemiology, 188(5)

Pitzer VE, Bennett A, Bar-Zeev N, Jere KC, Lopman BA, Lewnard JA, Parashar UD, Cunliffe NA. (2019). Evaluating strategies to improve rotavirus vaccine impact during the second year of life in Malawi. Science translational medicine, 11(505)

Chua H, Feng S, Lewnard JA, Sullivan SG, Blyth CC, Lipsitch M, Cowling BJ. (2019). The use of test-negative controls to monitor vaccine effectiveness: a systematic review of methodology. Epidemiology (Cambridge, Mass.)

Lewnard JA, Hanage WP. (2019). Making sense of differences in pneumococcal serotype replacement. The Lancet. Infectious diseases, 19(6)

Lewnard JA, Lopman BA, Parashar UD, Bennett A, Bar-Zeev N, Cunliffe NA, Samuel P, Guerrero ML, Ruiz-Palacios G, Kang G, Pitzer VE. (2019). Heterogeneous susceptibility to rotavirus infection and gastroenteritis in two birth cohort studies: Parameter estimation and epidemiological implications. PLoS computational biology, 15(7)

Lewnard JA, Givon-Lavi N, Tähtinen PA, Dagan R. (2018). Pneumococcal Phenotype and Interaction with Nontypeable Haemophilus influenzae as Determinants of Otitis Media Progression. Infection and immunity, 86(6)

Lewnard JA, Grad YH. (2018). Vaccine waning and mumps re-emergence in the United States. Science translational medicine, 10(433)

Lewnard JA, Cobey S. (2018). Immune History and Influenza Vaccine Effectiveness. Vaccines, 6(2)

Lewnard JA. (2018). Ebola virus disease: 11 323 deaths later, how far have we come?. Lancet, 392(10143)

Lewnard JA, Tedijanto C, Cowling BJ, Lipsitch M. (2018). Measurement of Vaccine Direct Effects Under the Test-Negative Design. American journal of epidemiology, 187(12)

Lewnard JA, Tähtinen PA, Laine MK, Lindholm L, Jalava J, Huovinen P, Lipsitch M, Ruohola A. (2018). Impact of Antimicrobial Treatment for Acute Otitis Media on Carriage Dynamics of Penicillin-Susceptible and Penicillin-Nonsusceptible Streptococcus pneumoniae. The Journal of infectious diseases, 218(9)

Kunkel A, Lewnard JA, Pitzer VE, Cohen T. (2017). Antimicrobial Resistance Risks of Cholera Prophylaxis for United Nations Peacekeepers. Antimicrobial agents and chemotherapy, 61(8)

Lewnard JA, Givon-Lavi N, Weinberger DM, Lipsitch M, Dagan R. (2017). Pan-serotype Reduction in Progression of Streptococcus pneumoniae to Otitis Media After Rollout of Pneumococcal Conjugate Vaccines. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America, 65(11)

Kürüm E, Warren JL, Schuck-Paim C, Lustig R, Lewnard JA, Fuentes R, Bruhn CAW, Taylor RJ, Simonsen L, Weinberger DM. (2017). Bayesian Model Averaging with Change Points to Assess the Impact of Vaccination and Public Health Interventions. Epidemiology (Cambridge, Mass.), 28(6)

Phelps MD, Azman AS, Lewnard JA, Antillón M, Simonsen L, Andreasen V, Jensen PKM, Pitzer VE. (2017). The importance of thinking beyond the water-supply in cholera epidemics: A historical urban case-study. PLoS neglected tropical diseases, 11(11)

Lewnard JA, Lopman BA, Parashar UD, Bar-Zeev N, Samuel P, Guerrero ML, Ruiz-Palacios GM, Kang G, Pitzer VE. (2017). Naturally Acquired Immunity Against Rotavirus Infection and Gastroenteritis in Children: Paired Reanalyses of Birth Cohort Studies. The Journal of infectious diseases, 216(3)

Lewnard JA, Townsend JP. (2016). Climatic and evolutionary drivers of phase shifts in the plague epidemics of colonial India. Proceedings of the National Academy of Sciences of the United States of America, 113(51)

Lewnard JA, Gonsalves G, Ko AI. (2016). Low Risk of International Zika Virus Spread due to the 2016 Olympics in Brazil. Annals of internal medicine, 165(4)

Anwar MY, Lewnard JA, Parikh S, Pitzer VE. (2016). Time series analysis of malaria in Afghanistan: using ARIMA models to predict future trends in incidence. Malaria journal, 15(1)

Lewnard JA, Huppert A, Givon-Lavi N, Pettigrew MM, Regev-Yochay G, Dagan R, Weinberger DM. (2016). Density, Serotype Diversity, and Fitness of Streptococcus pneumoniae in Upper Respiratory Tract Cocolonization With Nontypeable Haemophilus influenzae. The Journal of infectious diseases, 214(9)

Lewnard JA, Antillón M, Gonsalves G, Miller AM, Ko AI, Pitzer VE. (2016). Strategies to Prevent Cholera Introduction during International Personnel Deployments: A Computational Modeling Analysis Based on the 2010 Haiti Outbreak. PLoS medicine, 13(1)

Lewnard JA, Givon-Lavi N, Huppert A, Pettigrew MM, Regev-Yochay G, Dagan R, Weinberger DM. (2016). Epidemiological Markers for Interactions Among Streptococcus pneumoniae, Haemophilus influenzae, and Staphylococcus aureus in Upper Respiratory Tract Carriage. The Journal of infectious diseases, 213(10)

Lewnard JA, Berrang-Ford L, Lwasa S, Namanya DB, Patterson KA, Donnelly B, Kulkarni MA, Harper SL, Ogden NH, Carcamo CP, The Indigenous Health Adaptation To Climate Change Research Team. (2014). Relative undernourishment and food insecurity associations with Plasmodium falciparum among Batwa pygmies in Uganda: evidence from a cross-sectional survey. The American journal of tropical medicine and hygiene, 91(1)

Lewnard JA, Berrang-Ford L. (2014). Internet-based partner selection and risk for unprotected anal intercourse in sexual encounters among men who have sex with men: a meta-analysis of observational studies. Sexually transmitted infections, 90(4)

Lewnard JA, Jirmanus L, Júnior NN, Machado PR, Glesby MJ, Ko AI, Carvalho EM, Schriefer A, Weinberger DM. (2014). Forecasting temporal dynamics of cutaneous leishmaniasis in Northeast Brazil. PLoS neglected tropical diseases, 8(10)

Lewnard JA, Ndeffo Mbah ML, Alfaro-Murillo JA, Altice FL, Bawo L, Nyenswah TG, Galvani AP. (2014). Dynamics and control of Ebola virus transmission in Montserrado, Liberia: a mathematical modelling analysis. The Lancet. Infectious diseases, 14(12)

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