All Group Publications
Accepted/In Press/Early Release
Kaondera-Shava, R., M. Galanti, M. Perini, J. Suh J. Shaman. SARS-CoV-2 transmission dynamics in Mozambique and Zimbabwe during the first three years of the pandemic. Royal Society Open Science.
2024
Kelsall, N.C., C. Gimbrone, M. Olfson, M.S. Gould, J. Shaman and K.M. Keyes, 2024: Internet search activity for intentional self-harm forums after a high-profile news publication: Interrupted time series analysis . Journal of Medical Internet Research, 26 :e52354, doi:10.2196/52354
Yamana, T.K. , S. Rajagopal, D.C. Hall Jr, A.M. Moustafa, A. Feder, A. Ahmed, C. Bianco, R. Harris, S. Coffin, A.E. Campbell, S. Pei S, J. Chang Mell, P.J. Planet and J. Shaman , 2024: A two-variant model of SARS-COV-2 transmission: Estimating the characteristics of a newly emerging strain . BMC Infectious Diseases, 24 :938, doi:10.1186/s12879-024-09823-x.Leveau, C., J. Riancho, J. Shaman and A. Santurtún, 2024: Accessibility to healthcare and ischemic stroke: a spatial analysis in Spanish provinces . Cadernos de Sade Publica, 40(9) :e00212923, doi:10.1590/0102-311XEN212923.
Lynch, V.D. and J. Shaman , 2024: Hydrometeorology and geography affect hospitalizations for waterborne infectious diseases in the United States: A retrospective analysis . PLOS Water, 3(8) :e0000206, doi:10.1371/journal.pwat.0000206.Shaman, J., S. Kandula , S. Pei, M. Galanti, M. Olfson, M. Gould and K. Keyes, 2024: Quantifying suicide contagion at population scale . Science Advances, 10 :eadq4074, doi:10.1126/sciadv.adq4074.Kelsall, N.C., C. Gimbrone, M. Olfson, M.S. Gould, J. Shaman and K.M. Keyes, 2024: Association between pro-suicide website searches through Google and suicide death in the United States from 2010-2021 . Journal of Medical Internet Research, 26 :e53404, doi:10.2196/53404.
Mathis, S.,…, S. Kandula, S. Pei, J. Shaman, R. Yaari, T.K. Yamana ,…, R.K. Borchering, 2024: Evaluation of FluSight influenza in 2021-22 and 2022-23 seasons with a new forecasting target: laboratory-confirmed influenza hospitalizations . Nature Communication, 15 :6289, doi:10.1038/s41467-024-50601-9.
Lopez, V.,…, S. Pei, J. Shaman, T.K. Yamana ,…, M.A. Johansson, 2024: Challenges of COVID-19 case forecasting in the US, 2020-2021 . PLOS Computational Biology, 20(5) :e1011200, doi:10.1371/journal.pcbi.1011200.
Yang, W. and J. Shaman , 2024: Reconciling the efficacy and effectiveness of masking on epidemic outcomes . Journal of the Royal Society Interface, 21(212) :20230666, doi:10.1098/rsif.2023.0666.
He, K., S. Foerster, N.M. Vora, K. Blaney, C. Keeley, L. Hendricks, J.K. Varma, T. Long, J. Shaman and S. Pei, 2024: Evaluating completion rates of COVID-19 contact tracing surveys in New York City . BMC Public Health, 24 :414, doi:10.1186/s12889-024-17920-4.
Keyes, K.M., S. Kandula, G. Martinez-Ales, C. Gimbrone, V. Joseph, S. Monnat, C. Rutherford, M. Olfson, M.S. Gould and J. Shaman , 2024: Geographic Variation, Economic Activity, and Labor Market Characteristics in Traje ctories of Suicide in the United States, 2008 to 2020 . American Journal of Epidemiology, 193(2) :256-266, doi:10.1093/aje/kwad205.
Boldea, O., A. Alipoor, S. Pei, J. Shaman and G. Rozhnova, 2024: Age-specific transmission dynamics of SARS-CoV-2 during the first two years of the pandemic . PNAS Nexus, 3 :1-14, doi:10.1093/pnasnexus/pgae024.
Robin, T.T., J. Cascante-Vega, J. Shaman and S. Pei, 2024: System identifiability in a time-evolving agent-based model . PLOS ONE , 19(1) :0290821, doi:10.1371/journal/pone.0290821.Galanti, M., J.A Patino-Galindo, I. Filip, H. Morita , A. Galianese, M. Youssef, D. Comito, C. Ligon, B. Lane, N. Matienzo, S. Ibrahim, E. Tagne, A. Shittu , O. Elliott, T. Perea-Chamblee, S. Natesan, D.S. Rosenbloom, J. Shaman and R. Rabadan, 2024: Virome Data Explorer: A web resource to longitudinally explore respiratory viral infections, their interactions with other pathogens and host transcriptomic changes in over 100 people . PLOS Biology, 22(1) :e3002089, doi:10.1371/journal.pbio.3002089.
2023
Ward, M.J., M. Sorek-Hamer, J. Henke, E. Little, A. Patel, J. Shaman , K. Vamuri and N. DeFelice, 2023: A spatially resolved and environmentally informed forecast model of West Nile virus in Coachella Valley, California . GeoHealth, 7(12) :e2023GH000855, doi:10.1029/2023GH000855.
Joseph, V.A., G. Martinez-Ales, M. Olfson, J. Shaman , M. Gould, C. Gimbrone, K.M. Keyes, 2023: Trends in suicide among black women in the US, 1999-2020 . American Journal of Psychiatry , 180(12) :914-917, doi:10.1176/appi.ajp.20230254.
Howerton, E.,…, M. Galanti, T. Yamana, S. Pei, J. Shaman, …, J. Lessler, 2023: Evaluation of the US COVID-19 Scenario Modeling Hub for informing pandemic response under uncertainty . Nature Communications, 14(1) :7260, doi:10.1028/s41467-023-42680-x.
Cascante-Vega, J., M. Galanti, K. Schley, S. Pei, and J. Shaman, 2023: Inference of transmission dynamics and retrospective forecast of invasive meningococcal disease . PLOS Computational Biology, 19(10) :e1011564, doi:10.1371/journal.pcbi.1011564.Dai, K. , S. Foerster, N.M. Vora, K. Blaney, C. Keeley, L. Hendricks, J.K. Varma, T. Long, J. Shaman and S. Pei, 2023: Community transmission of SARS-CoV-2 during the Delta wave in New York City . BMC Infectious Diseases, 23: 753, doi:10.1186/s12879-023-08735-6.Toomre, D., S. Kandula and J. Shaman , 2023: Longitudinal association of COVID hospitalization and death with online search for loss of smell or taste . Emerging Infectious Diseases, 29(8) :1711-1713, doi:10.3201/eid2908.230071.
Lynch, V.D. and J. Shaman , 2023: Waterborne infectious diseases associated with exposure to tropical cyclonic storms, United States, 1996-2018 . Emerging Infectious Diseases, 29(8) :1548-1558, doi:10.3201/eid2908.221906.Yang, W. and J. Shaman , 2023: Development of accurate long-lead COVID-19 forecast . PLOS Computational Biology, 19(7) :e1011278, doi:10.1371/journal.pcbi.1011278.
Prasad, P.V., M.K. Steele, C. Reed, L.A. Meyers, Z. Du, R. Pasco, J.A. Alfaro-Murillo, B. Lewis, S. Venkatramanan, J. Schlitt, J. Chen, M. Orr, M.L. Wilson, S. Eubank, L. Wang, M. Chinazzi, A. Pastore y Piontti, J.T. Davis, M.E. Halloran, I. Longini, A. Vespignani, S. Pei, M. Galanti, S. Kandula, J. Shaman, D.J. Haw, N. Arinaminpathy and M. Biggerstaff, 2023: Multimodeling approach to evaluating efficacy of layering pharmaceutical and non-pharmaceutical interventions for influenza pandemics . Proceedings of the National Academy of Sciences, 120(28) :e2300590120, doi:10.1073/pnas.2300590120.
Yamana, T.K., M. Galanti, S. Pei, M. Di Fusco, F.J. Angulo, M.M. Moran, F. Khan, D.L. Swerdlow and J. Shaman , 2023: The impact of COVID-19 vaccination in the US: averted burden of SARS-CoV-2 related cases, hospitalizations and deaths . PLOS ONE, 18(4) :e1010945, doi:10.1371/journal.pone.0275699.Pei, S., S. Blumberg, J. Cascante Vega, T. Robin, J. Shaman , 2023: Challenges in forecasting antimicrobial resistance . Emerging Infectious Diseases, 29(4) :679-685, doi:10.3201/eid2904.221552.
Kandula, S., J. Shaman , 2023: Hindcasts and forecasts of suicide mortality in the US: a modeling study . PLOS Computational Biology, 19(3): e1010945, doi:10.1371/journal.pcbi.1010945.Kandula, S., J. Shaman , 2023: Trends in crisis hotline call rates and suicide mortality in the United States . Psychiatric Services, app. ps. 20220199, doi:10.1176/appi.ps.20220199.Santurtún, A. and J. Shaman , 2023: Work accidents, climate change and COVID-19 . Science of the Total Environment, 871 :162129, doi:10.1016/j.scitotenv.2023.162129.Kandula, S., J. Shaman , 2023: County-level estimates of suicide mortality in the USA: a modeling study . The Lancet Public Health, 8(3) :e184-e193, doi:10.1016/S2468-2667(22)00290-0.Borchering, R.K.,…, M. Galanti, T. Yamana, S. Pei, J. Shaman ,…, J. Lessler, 2023: Impact of SARS-CoV-2 vaccination of children ages 5-11 years on COVID-19 disease burden and resilience to new variants in the United States, November 2021-March 2022: a multi-model study . The Lancet Regional Health – Americas, 17 :100398, doi:10.1016/j.lana.2022.100398.
2022
Lewandowski, S.A. , M.A. Kioumourtzoglou and J.L. Shaman , 2022: Heat stress illness outcomes and annual indices of outdoor heat at U.S. Army installations . PLOS ONE, 17(11) :e0263803, doi:10.1371/journal/pone.0263803.Kessler, D., A. Dessie, P. Kanjanauptom, M. Vindas, L. Ng, M.M. Youssef, R. Birger, J. Shaman and P. Dayan, 2022: Lack of association between a quantified lung ultrasound score and illness severity in pediatric emergency department patients with acute respiratory infections . Journal of Ultrasound in Medicin e, 41(12) :3013-3022, doi:10.1002/jum.16023.
Casey, J.A., M.A. Kioumourtzoglou, E. Ogburn, A. Melamed, J. Shaman, S. Kandula , A. Neophytou, K. Darwin, J. Sheffield and C. Gyamfi-Bannerman: 2022. Long-term fine particulate matter concentrations and prevalence of severe acute respiratory syndrome coronavirus 2: differential relationships by socioeconomic status among pregnant individuals in New York City . American Journal of Epidemiology, 191(11) :1897-1905, doi:10.1093/aje/kwac139.
Pei, S., S. Kandula, J.C. Vega , W. Yang, S. Foerster, C. Thompson, J. Baumgartner, S.D. Ahuja, K. Blakey, J.K. Varma, T. Long and J. Shaman : 2022. Contact tracing reveals community transmission of COVID-19 in New York City . Nature Communications, 13 :6307, doi:10.1038/s41467-022-34130-x.
Joseph V.A., G. Martinez-Ales, M. Olfson, J. Shaman , M.S. Gould and K.M. Keyes. Temporal trends in suicide methods among adolescents in the US , 2022: JAMA Network Open, 5(10) :e2236049, doi:10.1001/jamanetworkopen.2022.36049.
Platt, J.M., J.R. Pamplin II, C. Gimbrone, C. Rutherford, S. Kandula , M. Olfson, M. Gould, G. Martinez-Ales, J. Shaman and K.M. Keyes, 2022: Racial disparities in spatial and temporal youth suicide clusters . Journal of the American Academy of Child and Adolescent Psychiatry, 61(9) :1131-1140, dot:10.1016/jaac.2021.12.012.
Yang, W. and J. Shaman, 2022: COVID-19 pandemic dynamics in South Africa and epidemiological characteristics of three variants of concern (Beta, Delta, and Omicron) . eLife, 11: e78933, doi:10.7554/eLife.78933.
Truelove S,…, M. Galanti, T.K. Yamana, S. Pei, J. Shaman ,…, Viboud C, 2022: Projected resurgence of COVID-19 in the United States in July-December 2021 resulting from the increased transmissibility of the Delta variant and faltering vaccination . eLife, 11: e73584, doi:10.7554/eLife.73584.
Schneider, T., O.R.A. Dunbar, J. Wu, L. Boettcher, D. Burov, A. Garbuno-Inigo, G.L. Wagner, S. Pei, C. Daraio, R. Ferrari and J. Shaman, 2022: Epidemic management and control through risk-dependent individual contact interventions . PLOS Computational Biology , 18(6): e1010171, doi:10.1371/journal.pcbi.1010171.
Lynch, V.D. and J. Shaman, 2022: The effect of seasonal and extreme floods on hospitalizations for Legionnaires’ disease in the United States, 2000-2011 . BMC Infectious Diseases, 22: 550, doi.10.1186/s12879-022-07489-x.Yang, W. and J. Shaman, 2022: COVID-19 pandemic dynamics in India, the SARS-CoV-2 Delta variant, and implications for vaccination . Journal of the Royal Society Interface, 19(191): 20210900, doi:10.1098/rsif.2021.0900.
Ukawuba, I. and J.Shaman, 2022: Inference and dynamic simulation of malaria using a simple climate-driven entomological model of malaria transmission . PLOS Computational Biology, 18(6): e1010161, doi:10.1371/journal.pcbi.1010161.Lewandowski, S.A. and J. Shaman, 2022: Heat stress morbidity among United States military personnel: daily exposure and lagged response (1998-2019) . International Journal of Biometeorology, 66(6): 1199-1208, doi:10.1007/s00484-022-02269-3. Correction to: Heat stress morbidity among United States military personnel: daily exposure and lagged response (1998-2019) . International Journal of Biometeorology, 66(6): 1209-1217, doi:10.1007/s00484-022-02291-5.Cramer, E.Y.,…,T.K. Yamana, S. Pei, J. Shaman, …, N.G. Reich, 2022: Evaluation of individual and ensemble probabilistic forecasts of COVID-19 mortality in the US . Proceedings of the National Academy of Sciences, 119(15): e2113561119, doi:10.1073/pnas.2113561119.
Keyes, K.M. and J. Shaman, 2022: Contagion and psychiatric disorders: the social epidemiology of risk (Comment on “The epidemic of mental disorders in business”). Administrative Science Quarterly, 67(1): 49-55, doi:10.1177/00018392211067693.
Yang, W. and J. Shaman , 2022: Viral replication dynamics could critically modulate vaccine effectiveness and should be accounted for when assessing new SARS-CoV-2 variants . Influenza and Other Respiratory Viruses , 16(2) :366-367, doi:10.1111/irv.12961.
Kannoth, S., S. Kandula and J. Shaman, 2022: The association between early country-level COVID-19 testing capacity and later COVID-19 mortality outcomes . Influenza and Other Respiratory Viruses, 16(1) :56-62, doi:10.1111/irv.12906
2021
Gimbrone, C., C. Rutherford, S. Kandula, G. Martinez-Ales, J. Shaman , M. Olfson, M. Gould, S. Pei, M. Galanti and K.M. Keyes, 2021: Associations between COVID-19 mobility restrictions and economic, mental health, and suicide-related concerns in the US using cellular phone GPS and Google search volume data . PLOS ONE, 16(12) :e0260931, doi:10.1371/journal/pone.0260931.
Lieberman-Cribbin, W., M. Galanti and J. Shaman, 2021: Socioeconomic disparities in SARS-CoV-2 serological testing and positivities in New York City . Open Forum Infectious Diseases, 8(12) :ofab534, doi:10.1093/ofid/ofab534
Martinez-Ales, G., C. Gimbrone, C. Rutherford, S. Kandula, M. Olfson, M. Gould, J. Shaman and K.M. Keyes, 2021: Role of firearm ownership on 2001-2016 trends in U.S. firearm suicide rates . American Journal of Preventive Medicine, 61(6) :795-803, doi:10.1016/j.amepre.2021.05.026.
Qi, Y., J. Shaman and S. Pei , 2021: Quantifying the effects of COVID-19 non-pharmaceutical interventions on influenza transmission in the United States . The Journal of Infectious Diseases, 224(9) :1500-1508, doi:10.1093/infdis/jiab485.
Galanti, M., S. Pei, T.K. Yamana, F.J. Angulo, A. Charos, F. Khan, K. Shea, D. Swerdlow and J. Shaman, 2021: Non-pharmaceutical interventions and inoculation rate shape SARS-CoV-2 vaccination campaign success . Epidemiology and Infection, 149 :e222, doi:10.1017/S095026882100217X.Pei, S., T.K. Yamana, S. Kandula, M. Galanti and J. Shaman, 2021: Burden and characteristics of COVID-19 in the United States during 2020 . Nature, 598 :338-341, doi:10.1038/s41586-021-03914-4.Yang, W. and J. Shaman , 2021: Development of a model-inference system for estimating epidemiological characteristics of SARS-CoV-2 variants of concern . Nature Communications, 12 :5573, doi:10.1038/s41467-021-25913-9.
Pei, S., F. Liljeros and J. Shaman, 2021: Identifying asymptomatic spreaders of antimicrobial resistant pathogens in hospital settings . Proceedings of the National Academy of Sciences, 118(37) :e2111190118, doi:10.1073/pnas.2111190118.Kandula, S. and J. Shaman, 2021: Investigating associations between COVID-19 mortality and population level health and socioeconomic indicators in the United States: A modeling study. PLOS Medicine, 18(7) :e1003693, doi:10.1371/journal.pmed.1003693.Ma, Y., S. Pei, J. Shaman, R. Dubrow and K. Chen, 2021: Role of meteorological factors in the transmission of SARS-CoV-2 in the United States . Nature Communications, 12 :3602, doi:10.1038/s41467-021-23866-7.
Martinez-Ales, G., J. Pamplin II, C. Rutherford, C. Gimbrone, S. Kandula, M. Olfson, M. Gould, J. Shaman and K.M. Keyes, 2021: Age, period, and cohort effects on suicide death in the United States from 1999 to 2018: moderation by sex, race, and firearm involvement . Molecular Psychology, doi:10.1038/s41380-021-01078-1.
Zebrowski, A., A. Rundle, S. Pei , T. Yaman, W. Yang, B.G. Carr, S. Sims, R. Doorley, N. Schluger, J. Shaman and C. Branas, 2021: A spatiotemporal tool to project hospital critical care capacity and mortality from COVID-19 in US counties . American Journal of Public Health, 111 :1113-1122, doi:10.2105/AJPH.2021.306220.
Keyes, K.M., S. Kandula , M. Olfson, M.S. Gould, G. Martinez-Ales, C. Rutherford and J. Shaman, 2021: Suicide and the agent-host-environment triad: leveraging surveillance sources to inform prevention . Psychological Medicine, 51(4) :529-537, doi:10.1017/S003329172000536X.
Yang, W., J. Shaff and J. Shaman, 2021: COVID-19 transmission dynamics and effectiveness of public health interventions in New York City during the 2020 spring pandemic wave . Journal of the Royal Society Interface, 18(175) :20200691, doi:10.1098/rsif.2020.0822.
Lamb, M. R., S. Kandula and J. Shaman, 2021: Differential COVID-19 case positivity in New York City neighborhoods: socioeconomic factors and mobility . Influenza and Other Respiratory Viruses, 15(2) :209-217, doi:10.1111/irv.12816.
Rader, B., L.F. White, M.R. Burns, J. Chen, J. Brilliant, J. Cohen, J. Shaman , L. Brilliant, M.U.G. Kraemer, J.B. Hawkins, S.V. Scarpino, C.M. Astley and J.S. Brownstein, 2021: Mask wearing and control of SARS-CoV-2 transmission in the United States . Lancet Digital Health, 3(3) :e148-e157, doi:10.1016/S2589-7500(20)30293-4.
Galanti, M. and J. Shaman, 2021: Direct observations of repeated infections with endemic coronaviruses . The Journal of Infectious Diseases, 223(3) :409-415, doi:10.1093/infdis/jiaa392.Shaman, J., 2021: An estimation of undetected COVID cases in France. Nature, 590 :38-39, doi:10.1038/d41586-020-03513-9.Galanti, M., S. Pei, T.K. Yamana, F.J. Angulo, A. Charos, D. Swerdlow and J. Shaman, 2021: Social distancing remains key during vaccinations . Science, 371(6528) : 473-474, doi:10.1126/science.abg2326.Yang, W., S. Kandula , M. Huynh, S. K. Greene, G. Van Wye, W. Li, H T. Chan, E. McGibbon, A. Yeung, D. Olson, A. Fine and J. Shaman, 2021: Estimating the infection fatality risk of COVID-19 in New York City during the spring 2020 pandemic wave: a model-based analysis . Lancet Infectious Diseases, 21(2) :203-212, doi:10.1016/S1473-3099(20)30769-6.
Pei, S., X. Teng, P. Lewis and J. Shaman, 2021: Optimizing influenza surveillance networks using uncertainty propagation . Nature Communications , 12 : Article Number 222, doi:10.1038/s41467-020-20399-3.Matienzo, N., M.M. Youssef, D. Comito, B. Lane, C. Ligon, H. Morita, A. Winchester, M.E. Decker, P. Dayan, B. Shopsin and J. Shaman, 2021: Respiratory viruses in pediatric emergency department patients and their family members . Influenza and Other Respiratory Viruses, 15(1) :91-98, doi:10.1111/irv.12789.
2020
Pei, S., S. Kandula and J. Shaman, 2020: Differential Effects of Intervention Timing on COVID-19 Spread in the United States . Science Advances, 6(49) :eabd6370, doi:10.1126/sciadv.abd6370.Pei, S., K. Dahl, T.K. Yamana, R. Licker and J. Shaman, 2020: Compound risks of hurricane evacuation amid the COVID-19 pandemic in the United States . GeoHealth, 4(12) :e2020GH000319, doi:10.1029/2020GH000319.Cruz, A. T., J. Shaman and P. Dayan, 2020: The challenge of clearly counting COVID-19 in children . Pediatrics, 146(6) :e2020031682, doi:10.1542/peds.2020-027425.
Bomfim, R., S. Pei, J. Shaman, T. Yamana , H. A. Makse, J. S. Andrade Jr., A. S. Lima Neto and V. Furtado, 2020: Predicting dengue outbreaks at neighborhood level using human mobility in urban areas . Journal of the Royal Society Interface, 17(171) :20200691, doi:10.1098/rsif.2020.0691.
Shaman, J. and M. Galanti, 2020: Will SARS-CoV-2 become endemic? Science, 370(6516) :527-529, doi:10.1126/science.abe5960.Pei, S. and J. Shaman , 2020: Aggregating forecasts of multiple respiratory pathogens supports more accurate forecasting of influenza-like illness . PLOS Computational Biology, 16(10) :e1008301, doi:10.1371/journal.pcbi.1008301.Kramer, S.C., S. Pei and J. Shaman , 2020: Forecasting influenza in Europe using a meta population model incorporating cross-border commuting and air travel . PLOS Computational Biology, 16(10) :e1008233, doi:10.1371/journal.pcbi.1008233.Galanti, M., D. Comito, C. Ligon, B Lane, N. Matienzo, S. Ibrahim, A. Shittu, E. Tagne, R. Birger, M. Ud-Dean, I. Filip, H. Morito, R. Rabadan, S Anthony, G.A. Freyer, P. Dayan, B. Shopsin and J. Shaman , 2020: Active surveillance documents rates of clinical care seeking due to respiratory illness . Influenza and Other Respiratory Illnesses 14(5) :499-506, doi:10.1111/irv.12753.Emeruwa, U.N., S. Ona, J. Shaman , A. Turitz, J. D. Wright, C. Gyamfi-Bannerman and A. Melamed, 2020: Associations between built environment, neighborhood socioeconomic status and SARS-CoV-2 infection among pregnant women in New York City . JAMA, 324(4) :390-392, doi:10.1001/jama.2020.11370.
Shea, B., K. Knowlton and J. Shaman , 2020: Assessment of climate-health curricula at international health professions schools . JAMA Open Network, 3(5) :e206609, doi:10.1001/jamanetworkopen.2020.6609.Li, R., S. Pei , B. Chen, Y. Song, T. Zhang, W. Yang and J. Shaman , 2020: Substantial undocumented infection facilitates the rapid dissemination of novel coronavirus (SARS-CoV2) . Science, 368(6490) :489-493, doi:10.1126/science.abb3221. Full text . Reprint .
Gervais, M., J. Shaman and Y. Kushnir, 2020: Impacts of the North Atlantic warming hole on sensible weather . Journal of Climate . 33(10) :4255-4271, doi:10.1175/JCLI-D-1909636.1.
Heaney, A.K., K. Alexander and J. Shaman , 2020: Ensemble Forecast and Parameter Inference of Childhood Diarrhea in Chobe District, Botswana . Epidemics, 30 :100372, doi:10.1016.jepidem.2019.100372.Yamana, T. and J. Shaman , 2020: A framework for evaluating the effects observational type and quality on vector-borne disease forecast . Epidemics, 30 :100359, doi:10.1016.jepidem.2019.100359.Krasna, H., K. Czabanowska, S. Jiang, S. Khadka, H. Morita , J. Kornfeld and J. Shaman , 2020: The future of careers at the intersection of climate change and public health: What can job postings and an employer survey tell us? International Journal of Environmental Research and Public Health, 17(4) :1310, doi:10.3390/ijerph17041310.
Shaman, J., M. Galanti , 2020: Direct measurement of rates of asymptomatic infection and clinical care-seeking for seasonal coronavirus . medRxiv, 19612, doi:10.1101/2020.01.30.20019612.Orenbuch, R., I. Filip, D. Comito, J. Shaman , I. Pe’er and R. Rabadan, 2020: arcasHLA: high resolution HLA typing from RNAseq . Bioinformatics, 36(1) :33-40, doi:10.1093/bioinformatics/btz474.
2019
Heaney, A.K., J. Shaman and K. Alexander, 2019: El Niño-Southern Oscillation and under-5 diarrhea in Botswana . Nature Communications , 10 : Article Number 5798, doi:10.1038/s41467-019-13584-6.Reich NG, C. McGowan, T. Yamana , A. Tushar, E. Ray, D. Osthus, S. Kandula , S. Fox, L. Brooks, W. Crawford-Crudell, G.C. Gibson, E. Moore, R. Silva, M. Biggerstaff, M.A. Johansson, R. Rosenfeld and J. Shaman , 2019: A collaborative multi-model ensemble for real-time influenza forecasting in the U.S.: Results from the 2017/2018 season. PLOS Computational Biology , 15(11) :e1007486, dos:10.1371/journal.pcbi.1007486.
Johansson, M.A., …, T. Yamana, J. Shaman , … et al., 2019: Advancing probabilistic epidemic forecasting through an open challenge: The Dengue Forecasting Project . Proceedings of the National Academy of Sciences, 116(48) :24268-24274, doi:10.1073/pnas.1909865116.
Sy, K.T.L., J. Shaman, S. Kandula, S. Pei, M. Gould and K.M. Keyes, 2019: Spatial temporal clustering of suicide deaths from 1999 to 2016: a spatial epidemiological approach . Social Psychiatry and Psychiatric Epidemiology, 54 :1471-1482, doi:10.1007/s00127-019001736-4.
Lipsitch, M. and J. Shaman , 2019: Comment on: ‘Antibiotic footprint’ as a communication tool to aid reduction of antibiotic consumption . Journal of Antimicrobial Chemotherapy, 74(11) :3404-3406, doi:10.1093/jac/dkz320.
Reich, N.G., D. Osthus, E. Ray, T. Yamana, M. Biggerstaff, M.A. Johansson, R. Rosenfeld and J. Shaman , 2019: Reply to Bracher: Scoring probabilistic forecasts to maximize public health interpretability. Proceedings of the National Academy of Sciences, 116(42) :20811-20812, doi:10.1073/pnas.1912694116.
George D., W. Taylor, J. Shaman , C. Rivers, B. Paul, T. O’Toole, M.A. Johansson, L. Hirschman, M. Biggerstaff, J. Asher and N. Reich, 2019: Technology to advance infectious disease forecasting for outbreak management . Nature Communications, 10 : Article Number 3932, doi:10.1038/s41467-019-11901-7.
Kandula, S. and J. Shaman Reappraising the utility of Google Flu Trends . PLOS Computational Biology, 15(8) :e1007258, doi:10.1371/journal.pcbi.1007258.Kandula, S., S. Pei and J. Shaman , 2019: Improved forecasts of influenza-associated hospitalization rates with Google search trends . Journal of the Royal Society Interface, 16 :20190080, doi:10.1098/rsif.2019.0080.Kandula, S. and J. Shaman Near-term forecasts of influenza-like illness: an evaluation of autoregressive time series approaches . Epidemics, 27 :41-51, doi:10.1016/j.epidem.2019.01.002.Li, X., B. Xu and J. Shaman , 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) :1890, doi:10.3390/ijerph16111890.Li, X., B. Xu and J. Shaman , 2019: Pathobiological features favoring the intercontinental dissemination of highly pathogenic avian influenza virus . Royal Society Open Science, 6 :190276, doi:10.1098/rsos.190276.Gervais, M., J. Shaman and Y. Kushnir, 2019: Impacts of the North Atlantic Warming Hole in Future Climate Projections: Mean Atmospheric Circulation and the North Atlantic jet . Journal of Climate, 32(10): 2673-2689, doi:10.1175/JCLI-D-18-0647.1.
Galanti, M., R. Birger, S.M.M. Ud-Dean, I. Filip, H. Morita, D. Comito, S. Anthony, G.A. Freyer, S. Ibrahim, B. Lane, N. Matienzo, C. Ligon, R. Rabadan, A. Shittu, E. Tagne and J. Shaman , 2019: Rates of asymptomatic respiratory virus infection across age groups . Epidemiology and Infection, 147 :e176, 1-6, doi:10.1017/S0950268819000505. DeFelice, N.B. , R. Birger, N. DeFelice, A. Gagner, S.R. Campbell, C. Romano, M. Santoriello, J. Henke, J. Wittie, B. Cole, C. Kaiser and J. Shaman , 2019: Real time 2017 West Nile virus forecast: operational challenges . JAMA Network Open, 2(4) :e193175, doi:10.1001/jamanetworkopen.2019.3175.Galanti, M., R. Birger, S.M.M. Ud-Dean, I. Filip, H. Morita, D. Comito, S. Anthony, G.A. Freyer, S. Ibrahim, B. Lane, C. Ligon, R. Rabadan, A. Shittu, E. Tagne and J. Shaman , 2019: Longitudinal active sampling for respiratory viral infections across age groups . Influenza and Other Respiratory Viruses, 13(3) :226-232, doi:10.1111/irv.12629.Reis, J., T. Yamana, S. Kandula and J. Shaman , 2019: Superensemble forecast of respiratory syncytial virus outbreaks at regional, state and municipal levels. Epidemics, 26 :1-8, doi:10.1016/j.epidem.2018.07.001.Kramer, S. and J. Shaman , 2019: Development and validation of influenza forecasting for 64 temperate and tropical countries . PLOS Computational Biology, 15(2) :e1006742, doi:10.1371/journal.pcbi.1006742.Pei, S., M. Cane and J. Shaman , 2019: Predictability in process-based ensemble forecast of influenza . PLOS Computational Biology, 15(2) :e1006783, doi:10.1371/journal.pcbi.1006783.Reich, N.G., L. Brooks, F. Spencer, S. Kandula, C. McGowan, E. Moore, D. Osthus, E. Ray, A. Tushar, T. Yamana, M. Biggerstaff, M.A. Johansson, R. Rosenfeld and J. Shaman , 2019: Forecasting seasonal influenza in the U.S.: a collaborative multi-year, multi-model assessment of forecast performance . Proceedings of the National Academy of Sciences, 116(8) :3146-3154, doi:10.1073/pnas.1812594116.
Yang, W., J. Li and J. Shaman , 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) :e1006806, doi:10.1371/journal.pcbi.1006806.
McGowan, C., M. Biggerstaff, M. Johansson, K.M. Apfeldorf, M. Ben-Nun, L. Brooks, M. Convertino, M. Erraguntla, D.C. Farrow, J. Freeze, S. Ghosh, S. Hyun, S. Kandula , J. Lega, Y. Liu, N. Michaud, H. Morita , J. Niemi, N. Ramakrishnan, E.L. Ray, N.G. Reich, P. Riley, J. Shaman , R. Tibshirani, A. Vespignani, Q. Zhang and C. Reed, 2019: Collaborative efforts to forecast seasonal influenza in the United States, 2015-2016 . Scientific Reports, 9 :683, doi:10.1038/s41598-018-36361-9.
2018
Pei, S. , F. Morone, F. Liljeros, H.A. Makse and J. Shaman , 2018: Inference of the nosocomial transmission dynamics of methicillin-resistant Staphylococcus aureus. eLife, 7 :e40977, doi:10.7554/eLife.40977.Alexander, K.A., A. Heaney and J. Shaman , 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) :e1002688, doi:10.1371/journal.pmed.1002688.
Morita, H., S. Kramer, A. Heaney , H. Gil and J. Shaman , 2018: Influenza forecast optimization when using different surveillance data types and geographic scales. Influenza and Other Respiratory Viruses, 12(6) :755-764, doi:10.1111/irv.12594.Fu, C., Z. Dong, J. Shen, Z. Yang, Y. Liao, W. Hu, S. Pei and J. Shaman , 2018: Rotavirus gastroenteritis infection among children vaccinated and unvaccinated with rotavirus vaccine in southern China: A population-based assessment. JAMA Network Open, 1(4) , e181382, doi:10.1001/jamanetworkopen.2018.1381.Yang, W. , M. J. Cummings, B. Bakamutumaho, J. Kayiwa, N. Owor, B. Namagambo, T. Byaruhanga, J. J. Lutwama, M. R. O’Donnell and J. Shaman , 2018: Transmission dynamics of influenza in two major cities of Uganda . Epidemics, 24 :43-48, doi:10.1016/j.epidem.2018.03.002.Biggerstaff, M., M. Johansson, D. Alper, L. C. Brooks, P. Chakraborty, D. C. Farrow, S. Hyun, S. Kandula , C. McGowan, N. Ramakrishnan, R. Rosenfeld, J. Shaman , R. Tibshirani, R. J. Tibshirani, A. Vespignani, W. Yang , Q. Zhang and C. Reed, 2018: Results from the second year of a collaborative effort to forecast influenza seasons in the United States. Epidemics, 24 :43-48, doi:10.1016/j.epidem.2018.02.003.
Doms, C., S. Kramer and J. Shaman , 2018. Assessing the use of influenza forecasts and epidemiological modeling in public health . Scientific Reports, 8 :12406, doi:1038/s41598-018-30378-w.Shea, B., K. Knowlton and J. Shaman , 2018. The Need for Informed Climate-Health Governance . International Journal of Health Governance, 23(3) :196-204, doi:10.1108/IJHG-01-2018-0001.Kandula, S., T. Yamana, S. Pei, W. Yang, H. Morita and J. Shaman , 2018. Evaluation of mechanistic and statistical methods in forecasting influenza-like illness . Journal of the Royal Society Interface, 15 :20180174, doi:10.1098/rsif.2018.0174.Birger R., H. Morita, D. Comito, I. Filip, M. Galanti, B. Lane, C. Ligon, D. Rosenbloom, A. Shittu, M. Ud-Dean, R. Desalle, P. Planet and J. Shaman , 2018. Asymptomatic shedding of respiratory virus among an ambulatory population across seasons . mSphere, 3 :e00249-18, doi:10.1128/mSphere.00249-18.Gervais, M. , J. Shaman and Y. Kushnir, 2018. Mechanisms Governing the Development of the North Atlantic Warming Hole in the CESM-LE Future Climate Simulations . Journal of Climate, 31(15) :5927-5946, doi:10.1175/JCLI-D-17-0635.1.Yang W. , M. J. Cummings, B. Bakamutumaho, J. Kayiwa, N. Owor, B. Namagambo, T. Byaruhanga, J. J. Lutwama, M. R. O’Donnell and J. Shaman , 2018. Dynamics of influenza in the tropical Africa: temperature, humidity and co-circulating (sub)types . Influenza and Other Respiratory Viruses, 12(4) :446-456, doi:10.1111/irv.12556.Shaman, J. and K. M. Knowlton, 2018: The need for climate and health education . American Journal of Public Health, 108(S2) :S66-S67.Ukawuba, I. and J. Shaman , 2018: Association of spring-summer hydrology and meteorology and human West Nile virus infection in West Texas, USA, 2002-2016 . Parasites & Vectors , 11 :224, doi:10.1186/s13071-018-2781-0.Reis, J. and J. Shaman , 2018: Simulation of four respiratory viruses and inference of epidemiological parameters . Infectious Disease Modeling, 3 :23-34, doi:10.1016/j.idm.2018.03.006.Chattopadhyay, I., E. Kiciman, J. W. Elliott, J. Shaman and A. Rzhetsky, 2018: Conjunction of factors triggering waves of seasonal influenza . eLife, 7 :e30756, doi:10.7554/eLife.30756.
DeFelice, N. B., Z. D. Schneider, E. Little , C. Barker, K. A. Callout, S. R. Campbell, D. Damian, P. Irwin, H. M. P. Jones, J. Townsend and J. Shaman , 2018: Use of temperature to improve West Nile virus forecasts . PLOS Computational Biology, 14(3) :e1006047, doi:10.1371/journal.pcbi.1006047.Pei, S., S. Kandula, W. Yang and J. Shaman , 2018: Forecasting the spatial transmission of influenza in the United States . Proceedings of the National Academy of Sciences 115(11) :2752-2757, doi:10.1073/pnas.1708856115.Shaman, J., H. Morita, R. Birger, M. Boyle, D. Comito, B. Lane, C. Ligon, H. Smith , R. Desalle, and P. Planet, 2018: Asymptomatic summertime shedding of respiratory viruses . Journal of Infectious Diseases, 217 :1074-1077. doi:10.1093/infdis/jix685.Shaman, J. , 2018: Pandemic preparedness and forecast . Nature Microbiology, 3 :265-267. doi:10.1038/s41564-018-0117-7.Cummings, M. J., B. Barnabas, W. Yang , J. F. Wamala, J. Kayiwa, N. Owor, B. Namagambo, T. Byaruhanga, A. Wolf, J. J. Lutwama, J. Shaman , and M. R. O’Donnell, 2018: Emergence and early-phase transmission dynamics of 2009 pandemic A/H1N1 influenza in Kampala, Uganda, 2009-2010 . American Journal of Tropical Medicine and Hygiene, 98(1) :203-206. doi:10.4268/ajtmh.17-0524.
2017
Shaman, J., S. Kandula, W. Yang and A. Karspeck, 2017: The use of ambient humidity conditions to improve influenza forecast . PLOS Computational Biology, 13(11) : e1005844. doi:10.1371/journal.pcbi.1005844.Yamana, T., S. Kandula and J. Shaman , 2017: Individual versus superensemble forecasts of seasonal influenza outbreaks in the United States . PLOS Computational Biology , 13(11) :e1005801. doi:10.1371/journal.pcbi.1005801.Kandula , S., D. J. Hsu and J. Shaman , 2017: Sub-regional nowcasts of seasonal influenza using search trends . Journal of Medical Internet Research, 19(11) :e370, doi:10.2196/jmir.7486.Pei, S. and J. Shaman , 2017: Counteracting structural errors in ensemble forecast of influenza outbreaks . Nature Communications, 8 , Article Number 925, doi:10.1038/s41467-017-01033-1.Little , E., W. Bajwa and J. Shaman , 2017: Local environmental and meteorological conditions influencing the invasive mosquito Aedes albopictus and arbovirus transmission risk in New York City . PLOS Neglected Tropical Diseases, 11(8) :e0005828, doi:1371/journal.pntd.0005828.Quinn, A., P. L. Kinney and J. Shaman , 2017: Predictors of summertime heat index levels in New York City apartments . Indoor Air, 27(4) :840-851, doi:10.1111/ina.12367.Quinn, A. and J. Shaman , 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) :1209-1220, doi:10.1007/s00484-016-1299-4.Fu, C., S. Pei , Z. Yang, Q. Guo, and J. Shaman , 2017: Pre-Vaccination Evolution of Antibodies among Infants 0, 3 and 6 Months of Age: a Longitudinal Analysis of Measles, Enterovirus 71 and Coxsackievirus 16 . Vaccine, 35(31) :3817-3822, doi:10.1016/j.vaccine.2017.06.002.Yang, W., L. Wen, S.-L. Li, K. Chen, W.-Y. Zhang, and J. Shaman , 2017 : Geospatial characteristics of measles transmission in China during 2005-2014 . PLOS Computational Biology, 13(4) :e1005474. doi:10.1371/journal.pcbi.1005474.Tamerius, J., S. Ojeda, C. K. Uejio, J. Shaman , B. Lopez, N. Sanchez and A. Gordon, 2017: Influenza transmission during extreme indoor conditions in a low-resource tropical setting . International Journal of Biometeorology, 61(4) :613-622, doi:10.1007/s00484-016-1238-4.
Pei, S., X. Teng, J. Shaman , F. Morone and H.A. Efficient collective influence maximization in cascading processes with first-order transitions . Scientific Reports, 7 Kandula, S., W. Yang, and J. Shaman , 2017: Type- and Subtype-Specific Influenza Forecast . American Journal of Epidemiology, 185(5) :395-402, doi:10.1093/aje/kww211.DeFelice, N. B., E. Little, S.R. Campbell and J. Shaman , 2017: Ensemble forecast of human West Nile virus cases and mosquito infection rates . Nature Communications, 8 , Article number 14592, doi:10.1038/ncomms14592.DeBlander, E. and J. Shaman , 2017: Teleconnection between the South Atlantic Convergence Zone and the Southern Indian Ocean: Implications for Tropical Cyclone Steering . Journal of Geophysical Research Atmospheres, 122 :728-740, doi:10.1002/2016JD025373.Li, R., A. Heaney, S. Kandula, J. Cai, X. Zhao, B. Xu and J. Shaman , 2017: Inference and forecast of H7N9 influenza in China, 2013 to 2015 . Eurosurveillance, 22(7) :pii=30462. DOI: http://dx.doi.org/10.2807/1560-7917.ES.2017.22.7.30462.Quinn, A. and J. Shaman , 2017: Indoor temperature and humidity in New York City apartments during winter . Science of the Total Environment, 583 :29:45, doi:10.1016/j.scitotenv.2016.12.183.Lee, W. V. and J. Shaman , 2017: Heat-coping strategies and bedroom thermal satisfaction in New York City . Science of the Total Environment , 574 :1217-1231, doi:10.1016/j.scitotenv.2016.07.006.
2016
F u, C., L. Lu, H. Wu, J. Shaman , Y. Cao, F. Fang, Q. Yang, Q. He, Z. Yang, and M. Wang, 2016: Placental antibody transfer efficiency and maternal levels: specific for measles, coxsackievirus A16, enterovirus 71, poliomyelitis I-III and HIV-1 antibodies . Scientific Reports, 6 :38874. doi:10.1038/srep38874.Yang, W., J. Shaman , 2016: Forecasting influenza outbreaks in boroughs and neighborhoods of New York City . PLOS Computational Biology, 12(11) :e1005201. doi:10.1371/journal.pcbi.1005201.Heaney, A., E. Little, J. Shaman , 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) :31-43. doi:10.1111/nyas.13090.Yamana, T., S. Kandula J. Shaman Superensemble forecasts of dengue outbreaks . Journal of the Royal Society Interface, 13 :20160410. doi:10.1098/rsif.2016.0410.Reis, J. J. Shaman Retrospective parameter estimation and forecast of respiratory syncytial virus in the United States. PLOS Computational Biology, 12(10) : e1005133. doi:10.1371/journal.pcbi.1005133.Shaman, J. The Superposition of Eastward and Westward Rossby Waves in Response to Localized Forcing . Journal of Climate, 29 (20):7547-7557, doi:10.1175/JCLI-D-16-0119.1Little, E., S.R. Campbell and J. Shaman , 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 :443, doi: 10.1186/s13071-016-1720-1.Biggerstaff M., D. Alper, M. Dredge, S. Fox, I.C.-H. Fung, K.S. Hickman, B. Leis, R. Rosenfield, J. Shaman , M.-H. Tsou, P. Velardi, A. Vespignani, and L. Finelli for the Influenza Forecasting Contest Working Group, 2016: Results from the Centers for Disease Control and Prevention’s Predict the 2013-2014 Influenza Season Challenge . BMC Infectious Diseases, 16 :357, doi:10.1186/S12879-016-1669-x.
Nguyen, J.L. , W. Yang , K. Ito, T. Matte, J. Shaman , and P. L. Kinney, 2016: The temporal association and prediction of cardiovascular disease mortality with increases in seasonal influenza infections. JAMA Cardiology, 1(3) :274-281.Sobel, A., S. Camargo, W. Debucquoy, G. Deodatis, M. Gerrard, T. Hall, R. Hallman, J. Keenan, U. Lall, M. Levy, B. Orlove, C. Rosenzweig, R. Seager, J. Shaman , and M. Tippet, 2016: Extreme Weather and Climate: Workshop Report . Journal of Extreme Events, 3(1) :167001, doi:10.1142/S2345737616710019.
2015
Seager, R., J. C. H. Chiang and J. Shaman : Do the tropics rule? Assessing the state of tropical climate science . Bulletin of the American Meteorological Society, 96 , ES211-ES214; doi: 10.1175/BAMS-D-15-00043.1
Yang W. , W. Zhang, D. Kargbo, R. Yang, Y. Chen, Z. Chen, A. Kamara, B. Kargbo, S. Kandula , A. Karspeck, C. Liu and J. Shaman , 2015: Transmission network of the 2014-2015 Ebola epidemic in Sierra Leone . Journal of the Royal Society Interface , 12 20150536; doi: 10.1098/rsif.2015.0536. Shaman, J. and S. Kandula , 2015: Improved Discrimination of Influenza Forecast Accuracy using Consecutive Predictions . PLOS Currents Outbreaks, 2015 Oct 5 . Edition 1. doi: 10.1371/currents.outbreaks.8a6a3df285af7ca973fab4b22e10911e.Tamerius, J. D., C. Viboud, J. Shaman and G. Chowell, 2015: Regional variability of specific humidity and school vacation can explain multiple spatially-focused waves of 2009 pandemic influenza in Mexico . PLOS Computational Biology, 11 (8) : e1004337, doi:10.1371/journal.pcbi.1004337
Yang W. , B. J. Cowling, E. H. Y. Lau and J. Shaman , 2015: Forecasting influenza epidemics in Hong Kong . PLOS Computational Biology, 11 (7) : e1004383, doi:10.1371/journal.pcbi.1004383Alexander K. A., C. E. Sanderson, M. Marathe, B. L. Lewis, C. M. Rivers, J. Shaman , J. M. Drake, E. Lofgren, V. M. Dato, M. C. Eisenberg, and S. Eubank, 2015: What factors might have led to the emergence of Ebola in West Africa? . PLOS Neglected Tropical Diseases, 9(6) : e0003652, doi:10.1371/journal.pntd.0003652
Yang, W., M. Lipsitch and J. Shaman , 2015: Inference of seasonal and pandemic influenza transmission dynamics . Proceedings of the National Academy of Sciences, 112(9) :2723-2728, doi:10.1073/pnas.1415012112.
2014
Lofgren, E., M. E. Halloran, C. M. Rivers, J. M. Drake, T. C. Porco, B. Lewis, W. Yang , A. Vespignani, J. Shaman , J. N. S. Eisenberg, M. C. Eisenberg, M. Marathe, S. V. Scarpino, K. A. Alexander, R. Meza, M. J. Ferrari, J. M. Hyman, L. A. Meyers and S. Eubank, 2014: Opinion: Mathematical models: A key tool for outbreak response. Proceedings of the National Academy of Sciences, 111(51) :18,095-18,096, doi:10.1073/pnas.1421551111.
Shaman, J., W. Yang and S. Kandula , 2014: Inference and Forecast of the Current West African Ebola Outbreak in Guinea, Sierra Leone and Liberia. PLOS Currents Outbreaks , 2014 Oct 31. Edition 1 . doi: 10.1371/currents.outbreaks.3408774290b1a0f2dd7cae877c8b8ff6 Halloran, M. E., A. Vespignani, N. Bharti, L. R. Feldstein, K. A. Alexander, M. Ferrari, J. Shaman , J. M. Drake, T. Porco, J. N. S. Eisenberg, S. Y. Del Valle, E. Lofgren, S. V. Scarpino, M. C. Eisenberg, D. Gao, J. M. Hyman, S. Eubank, and I. M. Longini, 2014: Ebola: Mobility data. Science , 346(6208) :443.
Shaman, J. , 2014: Letter to the Editor: Caution needed when using gridded meteorological data products for analyses in Africa. Eurosurveillance , 19(41) :pii=20930. Yang, W. and J. Shaman , 2014: Does exposure to poultry and wild fowl confer immunity to H5N1? Chinese Medical Journal , 127 (18) :3335-3343.Shaman, J. , 2014: The Seasonal Effects of ENSO on European Precipitation: Observational Analysis. Journal of Climate , 27(17) :6423-6438.Quinn, A., J. D. Tamerius, M. Perzanowski, J. S. Jacobson, I. Goldstein, L. Acosta and J. Shaman , 2014: Predicting indoor heat exposure risk during extreme heat events. Science of the Total Environment , 490 : 686-693.Gog, J. R., S. Ballesteros, C. Viboud, L. Simonsen, O. N. Bjornstad, J. Shaman, D. L. Chao, F. Khan, B. T. Grenfell, 2014: Spatial transmission of 2009 pandemic influenza in the US. PLOS Computational Biology , 10(6) : e1003635, doi:10.1371/journal.pcbi.1003635
Yang, W., A. Karspeck and J. Shaman , 2014: Comparison of filtering methods for the modeling and retrospective forecasting of influenza epidemics. PLOS Computational Biology , 10(4) : e1003583, doi:10.1371/journal.pcbi.1003583Chretien, J.-P., D. George, J. Shaman, R. A. Chitale and F. E. McKenzie, 2014: Influenza forecasting in human populations: a scoping review. PLOS ONE , 9(4) : e94130, doi:10.1371/journal.pone.0094130
Yang, W., E. Petkova and J. Shaman , 2014: Examination of mortality during the 1918 pandemic in New York City. Influenza and Other Respiratory Viruses ,8(2) :177-188.Huang, K. E., M. Lipsitch, J. Shaman and E. Goldstein, 2014: Quantifying the impact of school openings on the reproductive number of the 2009 A/H1N1 influenza epidemic in the United States. Epidemiology , 25(2) :203-206.
Shaman, J. , 2014: The Seasonal Effects of ENSO on Atmospheric Conditions Associated with European Precipitation: Model Simulations of Seasonal Teleconnections. Journal of Climate , 27(3) :1010-1028.
2013
Shaman, J, A. Karspeck, W. Yang, J. Tamerius, and M. Lipsitch, 2013: Real-Time Influenza Forecasts during the 2012-2013 Season. Nature Communications , 4 : Article Number 2837, doi:10.1038/ncomms3837.Kerr, D. C. R., J. Shaman, I. J. Washburn, S. Vuchinich, T. Neppl, D. Capaldi, R. Conger, 2013: Two Longterm Studies of Seasonal Variation in Depressive Symptoms among Community Participants. Journal of Affective Disorders , 151(3) :837-842.
Shaman, J., S. Solomon, R. R. Colwell and C. B. Field, 2013: Reply to Rice and Henderson-Sellers: Survival of the fittest is not always the best option Proceedings of the National Academy of Sciences , 110(29) :E2663, doi:10.1073/pnas.1307874110.Rydbeck, A., E. D. Maloney, S.-P. Xie, J. Hafner and J. Shaman , 2013: Remote Forcing versus Local Feedback of East Pacific Intraseasonal Variability. Journal of Climate , 26(11) :3575-3596.
Tamerius, J. D., L. M. Acosta, J. S. Jacobson, I. F. Goldstein, J. W. Quinn, A. G. Rundle, M. S. Perzanowski and J. Shaman , 2013: Socioeconomic and Outdoor Meteorological Determinants of Indoor Temperature and Humidity in New York City Households. Weather, Climate and Society , 5(2) :168-179, doi:10.1175/WCAS-D-12-00030.1.Gatton, M., N. Chitnis, T. Churcher, M. Donnely, A. Ghani, C. Godfray, F. Gould, I. Hastings, J. Marshall, H. Ranson, M. Rowland, J. Shaman, L. White, and S. Lindsay, 2013: The Importance of Mosquito Behavioural Adaptations to Malaria Control in Africa. Evolution , 67(4) :1218-1230.
Tamerius, J. D., J. Shaman, W. Alonso, K. Bloom-Feshbach, C. Uejio, A. Comrie and C. Viboud, 2013: Environmental Predictors of Seasonal Influenza Epidemics across Temperate and Tropical Climates. PLoS Pathogens , 9(3) : e1003194. doi:10.1371/journal.ppat.1003194.Shaman, J. and M. Lipsitch, 2013: The ENSO-Pandemic Influenza Connection: Coincident or Causal? Proceedings of the National Academy of Sciences , 110(Supplement 1) : 3689-3691, doi:10.1073/pnas.1107485109.Shaman, J., S. Solomon, R. R. Colwell and C. B. Field, 2013: Fostering Advances in Interdisciplinary Climate Science. Proceedings of the National Academy of Sciences , 110(Supplement 1) : 3653-3656, doi:10.1073/pnas.1301104110.Koep, T. H., F. T. Enders, C. Pierret, S. C. Ekker, D. Krageschmidt, N. L. Kevin, M. Lipsitch, J. Shaman and C. Huskins, 2013: Predictors of Indoor Absolute Humidity and Estimated Effects on Influenza Virus Survival in Grade Schools. BMC Infectious Diseases , 13 : 71, doi:10.1186/1471-2334-13-71.
2012
Shaman, J. and A. Karspeck, 2012: Forecasting Seasonal Outbreaks of Influenza. Proceedings of the National Academy of Sciences , 109(50) : 20425-20430, doi:10.1073/pnas.1208772109.Shaman, J., R. M. Samelson and E. Tziperman, 2012: Complex wavenumber Rossby wave ray tracing. Journal of the Atmospheric Sciences , 69(7) : 2112-2133.Shaman, J. and E. Maloney, 2012: Shortcomings in Climate Model Simulations of the ENSO-Atlantic Hurricane Teleconnection. Climate Dynamics , 38(9-10) : 1973-1988, doi:10.1007/s00382-011-1075-4.
2011
Shaman, J. , 2011: Strategies for Controlling the Enzootic Amplification of Arboviruses. Journal of Medical Entomology , 48(6) : 1189-1196.Shaman, J., K. Harding, and S. R. Campbell, 2011: Meteorological and Hydrological Influences on the Spatial and Temporal Prevalence of WNV in Culex Mosquitoes, Suffolk County New York. Journal of Medical Entomology , 48(4) : 867-875.Shaman, J., C. Y. Jeon, E. Giovannucci and M. Lipsitch, 2011: Shortcoming of Vitamin D-Based Model Simulations of Seasonal Influenza. PLoS ONE , 6(6) : e20743, doi:10.1371/journal.pone.0020743.Shaman, J., E. Goldstein and M. Lipsitch, 2011: Absolute humidity and pandemic versus epidemic influenza. American Journal of Epidemiology , 173(2) :127-135, doi:10.1093/aje/kwq347.Shaman, J. and E. Tziperman, 2011: An Atmospheric Teleconnection Linking ENSO and Southwestern European Precipitation. Journal of Climate , 24(1) :124-139.
2010
Simmerman, J. M., P. Suntarattiwong, J. Levy, R. V. Gibbons, C. Cruz, J. Shaman, R. G. Jarman, and T. Chotpitayasunondh, 2010: Influenza virus contamination of common household surfaces during the 2009 influenza A (H1N1) pandemic in Bangkok, Thailand–implications for contact transmission. Clinical Infectious Diseases , 51(9) :1053-1061.
Shaman, J., R. M. Samelson and E. Skyllingstad, 2010: Air-Sea Fluxes over the Gulf Stream Region: Atmospheric Controls and Trends. Journal of Climate ,23(10) :2651-2670.Shaman, J., V. E. Pitzer, C. Viboud, B. T. Grenfell and M. Lipsitch, 2010: Absolute Humidity and the Seasonal Onset of Influenza in the Continental US. PLoS Biology , 8(2) :e1000316. doi:10.1371/journal.pbio.1000316Shaman, J., J. F. Day and N. Komar, 2010: Hydrologic Conditions Describe West Nile Virus Risk in Colorado. International Journal of Environmental Research and Public Health , 7(2) :494-508, doi:10.3390/ijerph7020494.
2009
Day, J. F. and J. Shaman , 2009: Severe Winter Freezes Enhance St. Louis Encephalitis Virus Amplification and Epidemic Transmission in Peninsular Florida. Journal of Medical Entomology , 46(6) :1498-1506.
Shakun, J. D. and J. Shaman , 2009: Tropical Origins of North and South Pacific Decadal Variability. Geophysical Research Letters , 36 , L19711, doi:10.1029/2009GL040313.
Shaman, J., S. K. Esbensen and E. D. Maloney, 2009: The Dynamics of the ENSO-Atlantic Hurricane Teleconnection: ENSO-related changes to the North African-Asian Jet affect Atlantic Basin Tropical Cyclogenesis. Journal of Climate , 22(9) :2458-2482.Shaman, J. and M. Kohn, 2009: Absolute Humidity Modulates Influenza Survival, Transmission and Seasonality. Proceedings of the National Academy of Sciences , 106(9) :3243-3248, doi:10.1073/pnas.0806852106
2008
2007
Shaman, J., and E. Tziperman, 2007: The Summertime ENSO-North African-Asian Jet Teleconnection and Implications for the Indian Monsoons. Geophysical Research Letters , 34 , L11702, doi:10.1029/2006GL029143.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) :469-483, doi:10.1016/j.trstmh.2006.11.007.Shaman, J. and J. F. Day, 2007: Reproductive Phase Locking of Mosquito Populations in Response to Rainfall Frequency. PLoS ONE , 2(3) :e331. doi:10.1371/journal.pone.0000331.
2006
Shaman, J., J. F. Day, M. Stieglitz, S. Zebiak, and M. Cane, 2006: An Ensemble Seasonal Forecast of Human Cases of St. Louis Encephalitis in Florida Based on Seasonal Hydrologic Forecasts. Climatic Change , 75(4) :495-511.Warrach, K., M. Stieglitz, J. Shaman, V. C. Engel, and K. L. Griffin, 2006: Twentieth Century Climate in the New York Hudson Highlands and the Potential Impacts on Eco-Hydrological Processes. Climatic Change , 75(4) :455-493.
Shaman, J., M. Spiegelman, M. Cane, and M. Stieglitz, 2006: A Hydrologically Driven Model of Swamp Water Mosquito Population Dynamics. Ecological Modelling , 194(4) :395-404.
2005
Shaman, J., M. Cane, and A. Kaplan, 2005: The Relationship between Tibetan Snow Depth, ENSO, River Discharge and the Monsoons of Bangladesh. International Journal of Remote Sensing , 26(17) :3735-3748.Shaman, J. and J. F. Day, 2005: Achieving Operational Hydrologic Monitoring of Mosquito-Borne Disease Transmission. Emerging Infectious Diseases ,11(9) :1343-1350.Shaman, J. and E. Tziperman, 2005: The Effect of ENSO Variability on Tibetan Plateau Snow Depth: A Stationary Wave Teleconnection Mechanism and Implications for the South Asian Monsoons. Journal of Climate , 18(12) :2067-2079.Shaman, J., J. F. Day, and M. Stieglitz, 2005: Drought-induced amplification and epidemic transmission of West Nile virus in South Florida. Journal of Medical Entomology , 42(2) :134-141.
2004
Shaman, J., M. Stieglitz, and D. Burns, 2004: Are Big Basins just the Sum of Small Catchments? Hydrological Processes , 18 :3195-3206.Shaman, J., J. F. Day, and M. Stieglitz, 2004: The Association of Drought, Wetting and Human Cases of St. Louis Encephalitis Virus in South-Central Florida. American Journal of Tropical Medicine and Hygiene , 71(3) :251-261.Shaman, J., J. F. Day, M. Stieglitz, S. Zebiak, and M. Cane, 2004: Seasonal Forecast of St. Louis Encephalitis Virus Transmission, Florida. Emerging Infectious Diseases , 10(5) :802-809.
2003
Stieglitz, M., J. Shaman, J. McNamara, V. Engel, J. Shanley, and G. Kling, 2003: An approach to understanding hydrologic connectivity on the hillslope and the implications for nutrient transport. Global Biogeochemical Cycles , 17(4) , 1105, doi:10.1029/2003GB002041.
Shaman, J., J. F. Day, and M. Stieglitz, 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 to Arboviral Amplification and Transmission. Journal of Medical Entomology , 40(4) :547-554.Shaman, J., M. Stieglitz, S. Zebiak, and M. Cane, 2003: A Local Forecast of Land Surface Wetness Conditions Derived from Seasonal Climate Predictions. Journal of Hydrometeorology , 4(3) :611-626.
2002
Shaman, J., M. Stieglitz, V. Engel, R. Koster, and C. Stark, 2002: Representation of Stormflow and a More Responsive Water Table in a TOPMODEL-Based Hydrology Model. Water Resources Research , 38(8) , 1156, doi:10.1029/2001WR000636.Shaman, J., J. F. Day, and M. Stieglitz, 2002: Drought-induced amplification of St. Louis encephalitis virus, Florida. Emerging Infectious Diseases , 8(6) :575-580.Shaman, J., M. Stieglitz, C. Stark, S. Le Blancq, and M. Cane, 2002: Using a dynamic hydrology model to predict mosquito abundances in flood and swamp water. Emerging Infectious Diseases , 8(1) :6-13.
