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Jeffrey Shaman

Professor

Education

Affiliations

Projects

Papers

Li X, Xu B, Shaman J. (2019). The Impact of Environmental Transmission and Epidemiological Features on the Geographical Translocation of Highly Pathogenic Avian Influenza Virus. International journal of environmental research and public health, 16(11)

Kandula S, Pei S, Shaman J. (2019). Improved forecasts of influenza-associated hospitalization rates with Google Search Trends. Journal of the Royal Society, Interface, 16(155)

Reich NG, Brooks LC, Fox SJ, Kandula S, McGowan CJ, Moore E, Osthus D, Ray EL, Tushar A, Yamana TK, Biggerstaff M, Johansson MA, Rosenfeld R, Shaman J. (2019). A collaborative multiyear, multimodel assessment of seasonal influenza forecasting in the United States. Proceedings of the National Academy of Sciences of the United States of America, 116(8)

Reich NG, Osthus D, Ray EL, Yamana TK, Biggerstaff M, Johansson MA, Rosenfeld R, Shaman J. (2019). Reply to Bracher: Scoring probabilistic forecasts to maximize public health interpretability. Proceedings of the National Academy of Sciences of the United States of America, 116(42)

DeFelice NB, Birger R, DeFelice N, Gagner A, Campbell SR, Romano C, Santoriello M, Henke J, Wittie J, Cole B, Kaiser C, Shaman J. (2019). Modeling and Surveillance of Reporting Delays of Mosquitoes and Humans Infected With West Nile Virus and Associations With Accuracy of West Nile Virus Forecasts. JAMA network open, 2(4)

Yamana TK, Shaman J. (2019). A framework for evaluating the effects of observational type and quality on vector-borne disease forecast. Epidemics

George DB, Taylor W, Shaman J, Rivers C, Paul B, O'Toole T, Johansson MA, Hirschman L, Biggerstaff M, Asher J, Reich NG. (2019). Technology to advance infectious disease forecasting for outbreak management. Nature communications, 10(1)

Reis J, Yamana T, Kandula S, Shaman J. (2019). Superensemble forecast of respiratory syncytial virus outbreaks at national, regional, and state levels in the United States. Epidemics, (26)

Kandula S, Shaman J. (2019). Reappraising the utility of Google Flu Trends. PLoS computational biology, 15(8)

Pei S, Cane MA, Shaman J. (2019). Predictability in process-based ensemble forecast of influenza. PLoS computational biology, 15(2)

Li X, Xu B, Shaman J. (2019). Pathobiological features favouring the intercontinental dissemination of highly pathogenic avian influenza virus. Royal Society open science, 6(5)

Kandula S, Shaman J. (2019). Near-term forecasts of influenza-like illness: An evaluation of autoregressive time series approaches. Epidemics, (27)

Galanti M, Birger R, Ud-Dean M, Filip I, Morita H, Comito D, Anthony S, Freyer GA, Ibrahim S, Lane B, Ligon C, Rabadan R, Shittu A, Tagne E, Shaman J. (2019). Longitudinal active sampling for respiratory viral infections across age groups. Influenza and other respiratory viruses, 13(3)

Kramer SC, Shaman J. (2019). Development and validation of influenza forecasting for 64 temperate and tropical countries. PLoS computational biology, 15(2)

Yang W, Wen L, Li SL, Chen K, Zhang WY, Shaman J. (2019). Correction: Geospatial characteristics of measles transmission in China during 2005-2014. PLoS computational biology, 15(6)

Lipsitch M, Shaman J. (2019). Comment on: 'Antibiotic footprint' as a communication tool to aid reduction of antibiotic consumption. The Journal of antimicrobial chemotherapy, 74(11)

Yang W, Li J, Shaman J. (2019). Characteristics of measles epidemics in China (1951-2004) and implications for elimination: A case study of three key locations. PLoS computational biology, 15(2)

Reich NG, McGowan CJ, Yamana TK, Tushar A, Ray EL, Osthus D, Kandula S, Brooks LC, Crawford-Crudell W, Gibson GC, Moore E, Silva R, Biggerstaff M, Johansson MA, Rosenfeld R, Shaman J. (2019). Accuracy of real-time multi-model ensemble forecasts for seasonal influenza in the U.S. PLoS computational biology, 15(11)

Reis J, Shaman J. (2018). Simulation of four respiratory viruses and inference of epidemiological parameters. Infectious Disease Modelling, (3)

Pei S, Morone F, Liljeros F, Makse H, Shaman JL. (2018). Inference and control of the nosocomial transmission of methicillin-resistant Staphylococcus aureus. Elife, (7)

Doms C, Kramer SC, Shaman J. (2018). Assessing the Use of Influenza Forecasts and Epidemiological Modeling in Public Health Decision Making in the United States. Scientific reports, 8(1)

Pei S, Kandula S, Yang W, Shaman J. (2018). Forecasting the spatial transmission of influenza in the United States. Proceedings of the National Academy of Sciences of the United States of America, 115(11)

Shaman J, Morita H, Birger R, Boyle M, Comito D, Lane B, Ligon C, Smith H, Desalle R, Planet P. (2018). Asymptomatic Summertime Shedding of Respiratory Viruses. The Journal of infectious diseases, 217(7)

Birger R, Morita H, Comito D, Filip I, Galanti M, Lane B, Ligon C, Rosenbloom D, Shittu A, Ud-Dean M, Desalle R, Planet P, Shaman J. (2018). Correction for Birger et al., "Asymptomatic Shedding of Respiratory Virus among an Ambulatory Population across Seasons". mSphere, 3(6)

Birger R, Morita H, Comito D, Filip I, Galanti M, Lane B, Ligon C, Rosenbloom D, Shittu A, Ud-Dean M, Desalle R, Planet P, Shaman J. (2018). Asymptomatic Shedding of Respiratory Virus among an Ambulatory Population across Seasons. mSphere, 3(4)

Ukawuba I, Shaman J. (2018). Association of spring-summer hydrology and meteorology with human West Nile virus infection in West Texas, USA, 2002-2016. Parasites & vectors, 11(1)

Fu C, Dong Z, Shen J, Yang Z, Liao Y, Hu W, Pei S, Shaman J. (2018). Rotavirus Gastroenteritis Infection Among Children Vaccinated and Unvaccinated With Rotavirus Vaccine in Southern China: A Population-Based Assessment. JAMA network open, 1(4)

DeFelice NB, Schneider ZD, Little E, Barker C, Caillouet KA, Campbell SR, Damian D, Irwin P, Jones HMP, Townsend J, Shaman J. (2018). Use of temperature to improve West Nile virus forecasts. PLoS computational biology, 14(3)

Yang W, Cummings MJ, Bakamutumaho B, Kayiwa J, Owor N, Namagambo B, Byaruhanga T, Lutwama JJ, O'Donnell MR, Shaman J. (2018). Transmission dynamics of influenza in two major cities of Uganda. Epidemics, (24)

Shaman J, Knowlton K. (2018). The Need for Climate and Health Education. American journal of public health, 108(S2)

Biggerstaff M, Johansson M, Alper D, Brooks LC, Chakraborty P, Farrow DC, Hyun S, Kandula S, McGowan C, Ramakrishnan N, Rosenfeld R, Shaman J, Tibshirani R, Tibshirani RJ, Vespignani A, Yang W, Zhang Q, Reed C. (2018). Results from the second year of a collaborative effort to forecast influenza seasons in the United States. Epidemics, (24)

Shaman J. (2018). Pandemic preparedness and forecast. Nature microbiology, 3(3)

Morita H, Kramer S, Heaney A, Gil H, Shaman J. (2018). Influenza forecast optimization when using different surveillance data types and geographic scale. Influenza and other respiratory viruses, 12(6)

Alexander KA, Heaney AK, Shaman J. (2018). Hydrometeorology and flood pulse dynamics drive diarrheal disease outbreaks and increase vulnerability to climate change in surface-water-dependent populations: A retrospective analysis. PLoS medicine, 15(11)

Kandula S, Yamana T, Pei S, Yang W, Morita H, Shaman J. (2018). Evaluation of mechanistic and statistical methods in forecasting influenza-like illness. Journal of the Royal Society, Interface, 15(144)

Yang W, Cummings MJ, Bakamutumaho B, Kayiwa J, Owor N, Namagambo B, Byaruhanga T, Lutwama JJ, O'Donnell MR, Shaman J. (2018). Dynamics of influenza in tropical Africa: Temperature, humidity, and co-circulating (sub)types. Influenza and other respiratory viruses, 12(4)

DeFelice NB, Little E, Campbell SR, Shaman J. (2017). Ensemble forecast of human West Nile virus cases and mosquito infection rates. Nature communications, (8)

Li R, Bai Y, Heaney A, Kandula S, Cai J, Zhao X, Xu B, Shaman J. (2017). Inference and forecast of H7N9 influenza in China, 2013 to 2015. Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin, 22(7)

Pei S, Shaman J. (2017). Counteracting structural errors in ensemble forecast of influenza outbreaks. Nature communications, 8(1)

Kandula S, Hsu D, Shaman J. (2017). Subregional Nowcasts of Seasonal Influenza Using Search Trends. Journal of medical Internet research, 19(11)

Fu C, Shen J, Lu L, Li Y, Cao Y, Wang M, Pei S, Yang Z, Guo Q, Shaman J. (2017). Pre-vaccination evolution of antibodies among infants 0, 3 and 6months of age: A longitudinal analysis of measles, enterovirus 71 and coxsackievirus 16. Vaccine, 35(31)

Kandula S, Yang W, Shaman J. (2017). Type- and Subtype-Specific Influenza Forecast. American journal of epidemiology, 185(5)

Shaman J, Kandula S, Yang W, Karspeck A. (2017). The use of ambient humidity conditions to improve influenza forecast. PLoS computational biology, 13(11)

Little E, Bajwa W, Shaman J. (2017). Local environmental and meteorological conditions influencing the invasive mosquito Ae. albopictus and arbovirus transmission risk in New York City. PLoS neglected tropical diseases, 11(8)

Quinn A, Shaman J. (2017). Indoor temperature and humidity in New York City apartments during winter. The Science of the total environment, (583)

Yamana TK, Kandula S, Shaman J. (2017). Individual versus superensemble forecasts of seasonal influenza outbreaks in the United States. PLoS computational biology, 13(11)

Lee WV, Shaman J. (2017). Heat-coping strategies and bedroom thermal satisfaction in New York City. The Science of the total environment, (574)

Quinn A, Shaman J. (2017). Health symptoms in relation to temperature, humidity, and self-reported perceptions of climate in New York City residential environments. International journal of biometeorology, 61(7)

Yang W, Wen L, Li SL, Chen K, Zhang WY, Shaman J. (2017). Geospatial characteristics of measles transmission in China during 2005-2014. PLoS computational biology, 13(4)

Biggerstaff M, Alper D, Dredze M, Fox S, Fung IC, Hickmann KS, Lewis B, Rosenfeld R, Shaman J, Tsou MH, Velardi P, Vespignani A, Finelli L, . (2016). Results from the centers for disease control and prevention's predict the 2013-2014 Influenza Season Challenge. BMC infectious diseases, (16)

Little E, Campbell SR, Shaman J. (2016). Development and validation of a climate-based ensemble prediction model for West Nile Virus infection rates in Culex mosquitoes, Suffolk County, New York. Parasites & vectors, 9(1)

Yamana TK, Kandula S, Shaman J. (2016). Superensemble forecasts of dengue outbreaks. Journal of the Royal Society, Interface, 13(123)

Reis J, Shaman J. (2016). Retrospective Parameter Estimation and Forecast of Respiratory Syncytial Virus in the United States. PLoS computational biology, 12(10)

Heaney A, Little E, Ng S, Shaman J. (2016). Meteorological variability and infectious disease in Central Africa: a review of meteorological data quality. Annals of the New York Academy of Sciences, 1382(1)

Yang W, Olson DR, Shaman J. (2016). Forecasting Influenza Outbreaks in Boroughs and Neighborhoods of New York City. PLoS computational biology, 12(11)

Yang W, Zhang W, Kargbo D, Yang R, Chen Y, Chen Z, Kamara A, Kargbo B, Kandula S, Karspeck A, Liu C, Shaman J. (2015). Transmission network of the 2014-2015 Ebola epidemic in Sierra Leone. Journal of the Royal Society, Interface, 12(112)

Shaman J, Kandula S. (2015). Improved Discrimination of Influenza Forecast Accuracy Using Consecutive Predictions. PLoS currents, (7)

Alexander KA, Sanderson CE, Marathe M, Lewis BL, Rivers CM, Shaman J, Drake JM, Lofgren E, Dato VM, Eisenberg MC, Eubank S. (2015). What factors might have led to the emergence of Ebola in West Africa?. PLoS neglected tropical diseases, 9(6)

Yang W, Lipsitch M, Shaman J. (2015). Inference of seasonal and pandemic influenza transmission dynamics. Proceedings of the National Academy of Sciences of the United States of America, 112(9)

Yang W, Cowling BJ, Lau EH, Shaman J. (2015). Forecasting Influenza Epidemics in Hong Kong. PLoS computational biology, 11(7)

Shaman J, Yang W, Kandula S. (2014). Inference and forecast of the current west african ebola outbreak in Guinea, sierra leone and liberia. PLoS currents, (6)

Halloran ME, Vespignani A, Bharti N, Feldstein LR, Alexander KA, Ferrari M, Shaman J, Drake JM, Porco T, Eisenberg JN, Del Valle SY, Lofgren E, Scarpino SV, Eisenberg MC, Gao D, Hyman JM, Eubank S, Longini IM Jr.. (2014). Ebola: mobility data. Science (New York, N.Y.), 346(6208)

Lofgren ET, Halloran ME, Rivers CM, Drake JM, Porco TC, Lewis B, Yang W, Vespignani A, Shaman J, Eisenberg JN, Eisenberg MC, Marathe M, Scarpino SV, Alexander KA, Meza R, Ferrari MJ, Hyman JM, Meyers LA, Eubank S. (2014). Opinion: Mathematical models: a key tool for outbreak response. Proceedings of the National Academy of Sciences of the United States of America, 111(51)

Quinn A, Tamerius JD, Perzanowski M, Jacobson JS, Goldstein I, Acosta L, Shaman J. (2014). Predicting indoor heat exposure risk during extreme heat events. The Science of the total environment, (490)

Huang KE, Lipsitch M, Shaman J, Goldstein E. (2014). The US 2009 A(H1N1) influenza epidemic: quantifying the impact of school openings on the reproductive number. Epidemiology (Cambridge, Mass.), 25(2)

Yang W, Petkova E, Shaman J. (2014). The 1918 influenza pandemic in New York City: age-specific timing, mortality, and transmission dynamics. Influenza and other respiratory viruses, 8(2)

Yang W, Karspeck A, Shaman J. (2014). Comparison of filtering methods for the modeling and retrospective forecasting of influenza epidemics. PLoS computational biology, 10(4)

Shaman J, Lipsitch M. (2013). The El Nino-Southern Oscillation (ENSO)-pandemic influenza connection: coincident or causal?. Proceedings of the National Academy of Sciences of the United States of America, (110 Suppl 1)

Shaman J, Solomon S, Colwell RR, Field CB. (2013). Fostering advances in interdisciplinary climate science. Proceedings of the National Academy of Sciences of the United States of America, (110 Suppl 1)

Shaman J, Solomon S, Colwell RR, Field CB. (2013). Reply to Rice and Henderson-Sellers: Survival of the fittest is not always the best option. Proceedings of the National Academy of Sciences of the United States of America, 110(29)

Shaman J, Karspeck A, Yang W, Tamerius J, Lipsitch M. (2013). Real-time influenza forecasts during the 2012-2013 season. Nature communications, (4)

Tamerius JD, Shaman J, Alonso WJ, Alonso WJ, Bloom-Feshbach K, Uejio CK, Comrie A, Viboud C. (2013). Environmental predictors of seasonal influenza epidemics across temperate and tropical climates. PLoS pathogens, 9(3)

Shaman J, Karspeck A. (2012). Forecasting seasonal outbreaks of influenza. Proceedings of the National Academy of Sciences of the United States of America, 109(50)

Shaman J, Goldstein E, Lipsitch M. (2011). Absolute humidity and pandemic versus epidemic influenza. American journal of epidemiology, 173(2)

Shaman J, Jeon CY, Giovannucci E, Lipsitch M. (2011). Shortcomings of vitamin D-based model simulations of seasonal influenza. PLoS One, 6(6)

Shaman J. (2011). Strategies for controlling the epizootic amplification of arboviruses. Journal of medical entomology, 48(6)

Shaman J, Harding K, Campbell SR. (2011). Meteorological and hydrological influences on the spatial and temporal prevalence of West Nile virus in Culex mosquitoes, Suffolk County, New York. Journal of medical entomology, 48(4)

Shaman J, Pitzer VE, Viboud C, Grenfell BT, Lipsitch M. (2010). Absolute humidity and the seasonal onset of influenza in the continental United States. PLoS biology, 8(2)

Shaman J, Day JF, Komar N. (2010). Hydrologic conditions describe West Nile virus risk in Colorado. International journal of environmental research and public health, 7(2)

Shaman J, Pitzer V, Viboud C, Lipsitch M, Grenfell B. (2009). Absolute Humidity and the Seasonal Onset of Influenza in the Continental US. PLoS currents, (2)

Shaman J, Kohn M. (2009). Absolute humidity modulates influenza survival, transmission, and seasonality. Proceedings of the National Academy of Sciences of the United States of America, 106(9)

Day JF, Shaman J. (2009). Severe winter freezes enhance St. Louis encephalitis virus amplification and epidemic transmission in peninsular Florida. Journal of medical entomology, 46(6)

Day JF, Shaman J. (2008). Using hydrologic conditions to forecast the risk of focal and epidemic arboviral transmission in peninsular Florida. Journal of medical entomology, 45(3)

Shaman J, Day JF. (2007). Reproductive phase locking of mosquito populations in response to rainfall frequency. PLoS One, 2(3)

Shaman J. (2007). Amplification due to spatial clustering in an individual-based model of mosquito-avian arbovirus transmission. Transactions of the Royal Society of Tropical Medicine and Hygiene, 101(5)

Shaman J, Day JF, Stieglitz M. (2005). Drought-induced amplification and epidemic transmission of West Nile virus in southern Florida. Journal of medical entomology, 42(2)

Shaman J, Day JF. (2005). Achieving operational hydrologic monitoring of mosquitoborne disease. Emerging infectious diseases, 11(9)

Shaman J, Day JF, Stieglitz M. (2004). The spatial-temporal distribution of drought, wetting, and human cases of St. Louis encephalitis in southcentral Florida. The American journal of tropical medicine and hygiene, 71(3)

Shaman J, Day JF, Stieglitz M, Zebiak S, Cane M. (2004). Seasonal forecast of St. Louis encephalitis virus transmission, Florida. Emerging infectious diseases, 10(5)

Shaman J, Day JF, Stieglitz M. (2003). St. Louis encephalitis virus in wild birds during the 1990 south Florida epidemic: the importance of drought, wetting conditions, and the emergence of Culex nigripalpus (Diptera: Culicidae) to arboviral amplification and transmission. Journal of medical entomology, 40(4)

Shaman J, Stieglitz M, Stark C, Le Blancq S, Cane M. (2002). Using a dynamic hydrology model to predict mosquito abundances in flood and swamp water. Emerging infectious diseases, 8(1)

Shaman J, Day JF, Stieglitz M. (2002). Drought-induced amplification of Saint Louis encephalitis virus, Florida. Emerging infectious diseases, 8(6)

Shaman JM. (1979). Legal aspects of artificial insemination. Journal of family law, 18(2)