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Althouse BM, Guerbois M, Cummings DAT, Diop OM, Faye O, Faye A, Diallo D, Sadio BD, Sow A, Faye O, Sall AA, Diallo M, Benefit B, Simons E, Watts DM, Weaver SC, Hanley KA. Role of monkeys in the sylvatic cycle of chikungunya virus in Senegal. Nature communications. 2018 March 13;9(1):1046. PubMed PMID: 29535306; PubMed Central PMCID: PMC5849707. doi: 10.1038/s41467-018-03332-7. URL

Ball JD, Elbadry MA, Telisma T, White SK, Chavannes S, Anilis MG, Prosperi M, Cummings DAT, Lednicky JA, Morris JG Jr, Beau de Rochars M. Clinical and epidemiologic patterns of Chikungunya virus infection and coincident arboviral disease in a school cohort in Haiti, 2014-2015. Clin Infect Dis, 2018 Aug 31. doi: 10.1093/cid/ciy582. URL

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. Results from the second year of a collaborative effort to forecast influenza seasons in the United States. Epidemics. 2018 February 24. PubMed PMID: 29506911. doi: 10.1016/j.epidem.2018.02.003. URL

Brooks LC, Farrow DC, Hyun S, Tibshirani RJ, Rosenfeld R. Nonmechanistic forecasts of seasonal influenza with iterative one-week-ahead distributions. PLoS Comput Biol. 2018 June 15; 14(6):e1006134. PMID:29906286. doi: 10.1371/journal.pcbi.1006134. URL

Buchanich JM, Doerfler SM, Lann MF, Marsh GM, Burke DS. Improvement in racial disparities in years of life lost in the USA since 1990. Olson DR, ed. PLoS One. 2018;13(4):e0194308. doi:10.1371/journal.pone.0194308. URL

Chadsuthi S, Althouse BM, Iamsirithaworn S, Triampo W, Grantz KH, Cummings DAT. Travel distance and human movement predict paths of emergence and spatial spread of chikungunya in Thailand. Epidemiology and Infection. 2018 Jul 9:1–9. doi: 10.1017/S0950268818001917. URL

España G, Grefenstette J, Perkins A, Torres C, Campo Carey A, Diaz H, de la Hoz F, Burke DS, van Panhuis WG. Exploring scenarios of chikungunya mitigation with a data-driven agent-based model of the 2014-2016 outbreak in Colombia. Sci Rep. 2018 Aug 15;8(1):12201. doi: 10.1038/s41598-018-30647-8. PubMed PMID: 30111778. URL

Katzelnick LC, Coello Escoto A, McElvany BD, Chavez C, Salje H, Luo W, et al. (2018). Viridot: An automated virus plaque (immunofocus) counter for the measurement of serological neutralizing responses with application to dengue virus. PLoS Negl Trop Dis. 12(10):e0006862. doi: 10.1371/journal.pntd.0006862. URL

Kraemer MUG, Cummings DAT, Funk S, Reiner Jr. RC, Faria NR, Pybus OG, Cauchemez S. (2018). Reconstruction and prediction of viral disease epidemics. Epidemiol Infec. Nov 5:1–7. doi: 10.1017/S0950268818002881. URL

Kucharski AJ, Lessler J, Cummings DAT, Riley S. Timescales of influenza A/H3N2 antibody dynamics. PLoS Biol. 2018 Aug 20;16(8):e2004974. eCollection 2018 Aug. PMID: 30125272. doi: 10.1371/journal.pbio.2004974. URL

Lauer SA, Sakrejda K, Ray EL, Keegan LT, Bi Q, Suangtho P, Hinjoy S, Iamsirithaworn S, Suthachana S, Laosiritaworn Y, Cummings DAT, Lessler J, Reich NG. Prospective forecasts of annual dengue hemorrhagic fever incidence in Thailand, 2010-2014. Proceedings of the National Academy of Sciences of the United States of America. 2018 March 6;115(10):E2175-E2182. PubMed PMID: 29463757; PubMed Central PMCID: PMC5877997. doi: 10.1073/pnas.1714457115. URL

Paternina-Caicedo A, Driessen J, Roberts M, van Panhuis WG. Heterogeneity Between States in the Health and Economic Impact of Measles Immunization in the United States. Open Forum Infectious Diseases, 1 July 2018:5(7). doi: 10.1093/ofid/ofy137. URL

Smith MK, Graham M, Latkin CA, Mehta SH, Cummings DAT. Quantifying potentially infectious sharing patterns among people who inject drugs in Baltimore, USA. Epidemiol Infect. 2018 Aug 2:1-9. [Epub ahead of print] PMID: 30070187. doi: 10.1017/S0950268818002042. URL

van Panhuis WG, Cross A, Burke DS. Project Tycho 2.0: a repository to improve the integration and reuse of data for global population health. Journal of the American Medical Informatics Association, 2018 Oct 15. doi: 10.1093/jamia/ocy123. URL

Wesolowski A, Winter A,Tatem AJ, Qureshi T, Engø-Monsen K, Buckee CO, Cummings DAT, Metcalf CJE. Measles outbreak risk in Pakistan: exploring the potential of combining vaccination coverage and incidence data with novel datastreams to strengthen control. Epidemiology and Infection. 2018 June 4:1–9. doi: 10.1017/S0950268818001449. PMID:29860954. URL


Brownwright TK, Dodson ZM, van Panhuis WG. Spatial clustering of measles vaccination coverage among children in sub-Saharan Africa. BMC public health. 2017 December 15;17(1):957. PubMed PMID: 29246217; PubMed Central PMCID: PMC5732449. doi: 10.1186/s12889-017-4961-9. URL

Clapham HE, Cummings DAT, Johansson MA. Immune status alters the probability of apparent illness due to dengue virus infection: Evidence from a pooled analysis across multiple cohort and cluster studies. PLOS Negl Trop Dis. 2017 Sep; 11(9):e0005926.URL

Farrow DC, Brooks LC, Hyun S, Tibshirani RJ, Burke DS, Rosenfeld R. A human judgment approach to epidemiological forecasting. Alizon S, ed. PLoS Comput Biol. 2017;13(3):e1005248. doi:10.1371/journal.pcbi.1005248. URL

Grantz KH, Rane MS, Salje H, Glass GE, Schachterle SE, Cummings DAT. Reply to Shanks and Brundage: Many plausible mechanisms of pandemic mortality disparities. Proc Natl Acad Sci U S A. 2017;114(18):E3588-E3589. doi:10.1073/pnas.1703851114. URL

Grubaugh ND, Ladner JT, Kraemer MUG, Dudas G, Tan AL, Gangavarapu K, Wiley MR, White S, Thézé J, Magnani DM, Prieto K, Reyes D, Bingham AM, Paul LM, Robles-Sikisaka R, Oliveira G, Pronty D, Barcellona CM, Metsky HC, Baniecki ML, Barnes KG, Chak B, Freije CA, Gladden-Young A, Gnirke A, Luo C, MacInnis B, Matranga CB, Park DJ, Qu J, Schaffner SF, Tomkins-Tinch C, West KL, Winnicki SM, Wohl S, Yozwiak NL, Quick J, Fauver JR, Khan K, Brent SE, Reiner RC Jr, Lichtenberger PN, Ricciardi MJ, Bailey VK, Watkins DI, Cone MR, Kopp EW 4th, Hogan KN, Cannons AC, Jean R, Monaghan AJ, Garry RF, Loman NJ, Faria NR, Porcelli MC, Vasquez C, Nagle ER, Cummings DAT, Stanek D, Rambaut A, Sanchez-Lockhart M, Sabeti PC, Gillis LD, Michael SF, Bedford T, Pybus OG, Isern S, Palacios G, Andersen KG. Genomic epidemiology reveals multiple introductions of Zika virus into the United States. Nature. 2017 June 15;546(7658):401-405. PubMed PMID: 28538723; PubMed Central PMCID: PMC5536180. doi: 10.1038/nature22400. URL

Katzelnick LC, Harris E, Baric R, Coller BA, Coloma J, Crowe JE, Cummings DAT. Immune correlates of protection for dengue: State of the art and research agenda. Vaccine. 2017 August 24;35(36):4659-4669. PubMed PMID: 28757058. PMCID: PMC5924688. doi: 10.1016/j.vaccine.2017.07.045. URL

Kirsch TD, Moseson H, Massaquoi M, Nyenswah TB, Goodermote R, Rodriguez-Barraquer I, Lessler J, Cummings DA, Peters DH. Impact of interventions and the incidence of ebola virus disease in Liberia-implications for future epidemics. Health Policy Plan. 2017;32(2):205-214. doi:10.1093/heapol/czw113. URL

Salje H, Lessler J, Maljkovic Berry I, et al. Dengue diversity across spatial and temporal scales: Local structure and the effect of host population size. Science. 2017;355(6331):1302-1306. doi:10.1126/science.aaj9384. URL


Balmert LC, Buchanich JM, Pringle JL, Williams KE, Burke DS, Marsh GM. Patterns and Trends in Accidental Poisoning Deaths: Pennsylvania's Experience 1979-2014. PLoS One. Public Library of Science; 2016 Jan 10;11(3):e0151655. URL

Biggerstaff M, Alper D, Dredze M, et al. Results from the centers for disease control and prevention’s predict the 2013-2014 Influenza Season Challenge. BMC Infect Dis. 2016;16(1):357. doi:10.1186/s12879-016-1669-x. URL

Buchanich JM, Balmert LC, Pringle JL, Williams KE, Burke DS, Marsh GM. Patterns and trends in accidental poisoning death rates in the US, 1979-2014. Prev Med (Baltim). 2016 Apr 13. URL

Burke DS. Forecasting the opioid epidemic. Science, 2016 Nov 4; 354(6312):529. DOI: 10.1126/science/aal2943. URL

Cauchemez S, Nouvellet P, Cori A, et al. Unraveling the drivers of MERS-CoV transmission. Proc Natl Acad Sci U S A. 2016;113(32):9081-9086. doi:10.1073/pnas.1519235113. URL

Chhatwal J, Jayasuriya S, Elbasha EH. Changing Cycle Lengths in State-Transition Models: Challenges and Solutions. Med Decis Making. 2016;36(8):952-964. doi:10.1177/0272989X16656165. URL

Dalziel BD, Bjørnstad ON, van Panhuis WG, Burke DS, Metcalf CJE, Grenfell BT. Persistent Chaos of Measles Epidemics in the Prevaccination United States Caused by a Small Change in Seasonal Transmission Patterns. PLoS Comput Biol. 2016 Feb;12(2):e1004655. URL

Enanoria WTA, Liu F, Zipprich J, et al. The Effect of Contact Investigations and Public Health Interventions in the Control and Prevention of Measles Transmission: A Simulation Study. Bauch CT, ed. PLoS One. 2016;11(12):e0167160. doi:10.1371/journal.pone.0167160. URL

Ferguson NM, Rodríguez-Barraquer I, Dorigatti I, Mier-Y-Teran-Romero L, Laydon DJ, Cummings DAT. Benefits and risks of the Sanofi-Pasteur dengue vaccine: Modeling optimal deployment. Science. 2016;353(6303):1033-1036. doi:10.1126/science.aaf9590. URL

Flasche S, Jit M, Rodríguez-Barraquer I, et al. The Long-Term Safety, Public Health Impact, and Cost-Effectiveness of Routine Vaccination with a Recombinant, Live-Attenuated Dengue Vaccine (Dengvaxia): A Model Comparison Study. von Seidlein L, ed. PLoS Med. 2016;13(11):e1002181. doi:10.1371/journal.pmed.1002181. URL

Grantz KH, Rane MS, Salje H, Glass GE, Schachterle SE, Cummings DAT. Disparities in influenza mortality and transmission related to sociodemographic factors within Chicago in the pandemic of 1918. Proc Natl Acad Sci U S A. 2016;113(48):13839-13844. doi:10.1073/pnas.1612838113. URL

He T, Li K, Roberts MS, Spaulding AC, Ayer T, Grefenstette JJ, et al. Prevention of Hepatitis C by Screening and Treatment in U.S. Prisons. Ann Intern Med. 2016 Jan 19;164(2):84–92. URL

Hoang Quoc C, Henrik S, Isabel R-B, et al. Synchrony of Dengue Incidence in Ho Chi Minh City and Bangkok. Scarpino S V., ed. PLoS Negl Trop Dis. 2016;10(12):e0005188. doi:10.1371/journal.pntd.0005188. URL

Lessler J, Chaisson LH, Kucirka LM, et al. Assessing the global threat from Zika virus. Science. 2016;353(6300):aaf8160. doi:10.1126/science.aaf8160. URL

Lessler J, Cummings DAT. Mechanistic Models of Infectious Disease and Their Impact on Public Health. Am J Epidemiol. 2016 Mar 1;183(5):415–22. URL

Lessler J, Ott CT, Carcelen AC, et al. Times to key events in Zika virus infection and implications for blood donation: a systematic review. Bull World Health Organ. 2016;94(11):841-849. doi:10.2471/BLT.16.174540. URL

Lessler J, Salje H, Van Kerkhove MD, Ferguson NM, Cauchemez S, Rodriquez-Barraquer I, et al. Estimating the Severity and Subclinical Burden of Middle East Respiratory Syndrome Coronavirus Infection in the Kingdom of Saudi Arabia. Am J Epidemiol. 2016 Feb 4;183(7):657–63. URL

Metcalf CJE, Farrar J, Cutts FT, Basta NE, Graham AL, Lessler J, et al. Use of serological surveys to generate key insights into the changing global landscape of infectious disease. Lancet (London, England). 2016 Apr 5. URL

Nisalak A, Clapham HE, Kalayanarooj S, Klungthong C, Thaisomboonsuk B, Fernandez S, et al. Forty Years of Dengue Surveillance at a Tertiary Pediatric Hospital in Bangkok, Thailand, 1973-2012. Am J Trop Med Hyg. 2016 Mar 28. URL

Poon LLM, Song T, Rosenfeld R, Lin X, Rogers MB, Zhou B, et al. Quantifying influenza virus diversity and transmission in humans. Nat Genet. 2016 Jan 4;48(2):195–200. URL

Rodriguez-Barraquer I, Salje H, Cummings DAT. Dengue Vaccine in Regions of Endemic Disease. N Engl J Med. 2016 Apr 7;374(14):1388. URL

Rodriguez-Barraquer I, Salje H, Lessler J, Cummings DA. Predicting intensities of Zika infection and microcephaly using transmission intensities of other arboviruses. bioRxiv. 2016. doi:10.1101/041095. URL

Salje H, Lessler J, Paul KK, et al. How social structures, space, and behaviors shape the spread of infectious diseases using chikungunya as a case study. Proc Natl Acad Sci U S A. 2016;113(47):13420-13425. doi:10.1073/pnas.1611391113. URL


Althouse BM, Hanley KA, Diallo M, Sall AA, Ba Y, Faye O, et al. Impact of climate and mosquito vector abundance on sylvatic arbovirus circulation dynamics in Senegal. Am J Trop Med Hyg. 2015 Jan;92(1):88–97. URL

Braithwaite RS, Roberts MS. Validation Is Necessary but Insufficient. Med Decis Making. 2015 Oct;35(7):815–6. URL

Brooks LC, Farrow DC, Hyun S, Tibshirani RJ, Rosenfeld R. Flexible Modeling of Epidemics with an Empirical Bayes Framework. PLoS Comput Biol. 2015 Aug;11(8):e1004382. URL

Clapham H, Cummings DAT, Nisalak A, Kalayanarooj S, Thaisomboonsuk B, Klungthong C, et al. Epidemiology of Infant Dengue Cases Illuminates Serotype-Specificity in the Interaction between Immunity and Disease, and Changes in Transmission Dynamics. PLoS Negl Trop Dis. 2015 Dec;9(12):e0004262. URL

Farrow DC, Burke DS, Rosenfeld R. Computational Characterization of Transient Strain-Transcending Immunity against Influenza A. PLoS One. 2015 Jan;10(5):e0125047. URL

Grim P, Singer DJ, Reade C, Fisher S. Germs, Genes, and Memes: Function and Fitness Dynamics on Information Networks. Philos Sci. 2015;82(2):219–43. URL

Klein EY, Makowsky M, Orlando M, Hatna E, Braykov NP, Laxminarayan R. Influence of provider and urgent care density across different socioeconomic strata on outpatient antibiotic prescribing in the USA. J Antimicrob Chemother. 2015 May;70(5):1580–7. URL

Klein EY, Smith DL, Cohen JM, Laxminarayan R. Bioeconomic analysis of child-targeted subsidies for artemisinin combination therapies: a cost-effectiveness analysis. J R Soc Interface. 2015 Jun 6;12(107). URL

Kraemer MU, Perkins TA, Cummings DAT, Zakar R, Hay SI, Smith DL, et al. Big city, small world: density, contact rates, and transmission of dengue across Pakistan. J R Soc Interface. 2015 Oct 6;12(111). URL

Kumar S, Piper K, Galloway DD, Hadler JL, Grefenstette JJ. Is population structure sufficient to generate area-level inequalities in influenza rates? An examination using agent-based models. BMC Public Health. 2015 Jan;15(1):947. URL

Mochan-Keef E, Swigon D, Ermentrout GB, Clermont G. A Three-Tiered Study of Differences in Murine Intrahost Immune Response to Multiple Pneumococcal Strains. PLoS One. 2015;10(8):e0134012. URL

Price I, Mochan-Keef ED, Swigon D, Ermentrout GB, Lukens S, Toapanta FR, et al. The inflammatory response to influenza A virus (H1N1): An experimental and mathematical study. J Theor Biol. 2015 Jun 7;374:83–93. URL

Reich NG, Cummings DAT, Lauer SA, Zorn M, Robinson C, Nyquist A-C, et al. Triggering Interventions for Influenza: The ALERT Algorithm. Clin Infect Dis. 2015 Feb 15;60(4):499–504. URL

Rodriguez-Barraquer I, Mier-y-Teran-Romero L, Ferguson N, Burke DS, Cummings DAT. Differential efficacy of dengue vaccine by immune status. Lancet. 2015 May 2;385(9979):1726. URL

Rodríguez-Barraquer I, Solomon SS, Kuganantham P, Srikrishnan AK, Vasudevan CK, Iqbal SH, et al. The Hidden Burden of Dengue and Chikungunya in Chennai, India. Kittayapong P, editor. PLoS Negl Trop Dis. 2015 Jul 16;9(7):e0003906. URL

Rogers MB, Song T, Sebra R, Greenbaum BD, Hamelin M-E, Fitch A, et al. Intrahost dynamics of antiviral resistance in influenza A virus reflect complex patterns of segment linkage, reassortment, and natural selection. MBio. 2015 Jan;6(2). URL

Ruberto I, Marques E, Burke DS, Van Panhuis WG. The availability and consistency of dengue surveillance data provided online by the World Health Organization. PLoS Negl Trop Dis. 2015 May;9(4):e0003511. URL

Salje H, Cauchemez S, Theresa Alera M, Rodriguez-Barraquer I, Thaisomboonsuk B, Srikiatkhachorn A, et al. Reconstruction of 60 years of chikungunya epidemiology in the Philippines demonstrates episodic and focal transmission. J Infect Dis. 2015 Sep 25. URL

Shrestha S, Foxman B, Berus J, van Panhuis WG, Steiner C, Viboud C, et al. The role of influenza in the epidemiology of pneumonia. Sci Rep. 2015 Jan;5:15314. URL

van Panhuis WG, Choisy M, Xiong X, Chok NS, Akarasewi P, Iamsirithaworn S, et al. Region-wide synchrony and traveling waves of dengue across eight countries in Southeast Asia. Proc Natl Acad Sci U S A. 2015 Oct 20;112(42):13069–74. URL


Althouse BM, Durbin AP, Hanley KA, Halstead SB, Weaver SC, Cummings DAT. Viral kinetics of primary dengue virus infection in non-human primates: a systematic review and individual pooled analysis. Virology. 2014 Mar;452-453:237–46. URL.

Biggerstaff M, Cauchemez S, Reed C, Gambhir M, Finelli L. Estimates of the reproduction number for seasonal, pandemic, and zoonotic influenza: a systematic review of the literature. BMC Infect Dis. 2014 Jan;14:480. URL.

Burke JG, Lich KH, Neal JW, Meissner HI, Yonas M, Mabry PL. Enhancing Dissemination and Implementation Research Using Systems Science Methods. Int J Behav Med. 2014 May 23. URL.

Cauchemez S, Ledrans M, Poletto C, Quenel P, de Valk H, Colizza V, et al. Local and regional spread of chikungunya fever in the Americas. Euro Surveill. 2014 Jan;19(28). URL.

Cauchemez S, Ferguson NM, Fox A, Mai LQ, Thanh LT, Thai PQ, et al. Determinants of Influenza Transmission in South East Asia: Insights from a Household Cohort Study in Vietnam. PLoS Pathog. 2014 Aug;10(8):e1004310. URL.

Cauchemez S, Fraser C, Van Kerkhove MD, Donnelly CA, Riley S, Rambaut A, et al. Middle East respiratory syndrome coronavirus: quantification of the extent of the epidemic, surveillance biases, and transmissibility. Lancet Infect Dis. 2014 Jan;14(1):50–6. URL.

Cauchemez S, Van Kerkhove MD, Archer BN, Cetron M, Cowling BJ, Grove P, et al. School closures during the 2009 influenza pandemic: national and local experiences. BMC Infect Dis. 2014 Jan;14:207. URL.

Churcher TS, Cohen JM, Novotny J, Ntshalintshali N, Kunene S, Cauchemez S. Public health. Measuring the path toward malaria elimination. Science. 2014 Jun 13;344(6189):1230–2. URL.

Clapham HE, Tricou V, Van Vinh Chau N, Simmons CP, Ferguson NM. Within-host viral dynamics of dengue serotype 1 infection. J R Soc Interface. 2014 Jul 6;11(96). URL.

Ferguson NM, Cummings DAT. How season and serotype determine dengue transmissibility. Proc Natl Acad Sci U S A. 2014 Jul 1;111(26):9370–1. URL.

Gog JR, Ballesteros S, Viboud C, Simonsen L, Bjornstad ON, Shaman J, et al. Spatial Transmission of 2009 Pandemic Influenza in the US. PLoS Comput Biol. 2014 Jun;10(6):e1003635. URL.

Guclu H, Ferrell Bjerke E, Galvan J, Sweeney P, Potter MA. State-level legal preparedness for nuclear and radiological emergencies in the U.S.: a network analysis of state laws and regulations. Public Health Rep. 2014 Jan;129 Suppl:154–65. URL.

Jombart T, Aanensen DM, Baguelin M, Birrell P, Cauchemez S, Camacho A, et al. OutbreakTools: a new platform for disease outbreak analysis using the R software. Epidemics. 2014 Jun;7:28–34. URL.

Jombart T, Cori A, Didelot X, Cauchemez S, Fraser C, Ferguson N. Bayesian Reconstruction of Disease Outbreaks by Combining Epidemiologic and Genomic Data. Tanaka MM, editor. PLoS Comput Biol. 2014 Jan 23;10(1):e1003457. URL.

Klein EY. The impact of heterogeneous transmission on the establishment and spread of antimalarial drug resistance. J Theor Biol. 2014 Jan 7;340:177–85. URL.

Klein EY, Graham AL, Llinás M, Levin S. Cross-reactive immune responses as primary drivers of malaria chronicity. Infect Immun. 2014 Jan;82(1):140–51. URL.

Klein EY, Serohijos AWR, Choi J-M, Shakhnovich EI, Pekosz A. Influenza A H1N1 Pandemic Strain Evolution – Divergence and the Potential for Antigenic Drift Variants. Viboud C, editor. PLoS One. 2014 Apr 3;9(4):e93632. URL.

Kumar S, Grefenstette JJ, Galloway D, Albert SM, Burke DS. Kumar et Al. Respond. Am J Public Health. 2014 Jan;104(1):e1–2. URL.

Lessler J, Rodriguez-Barraquer I, Cummings DAT, Garske T, Van Kerkhove M, Mills H, et al. Estimating Potential Incidence of MERS-CoV Associated with Hajj Pilgrims to Saudi Arabia, 2014. PLoS Curr. 2014 Jan;6. URL

Lukens S, DePasse J, Rosenfeld R, Ghedin E, Mochan E, Brown ST, et al. A large-scale immuno-epidemiological simulation of influenza A epidemics. BMC Public Health. 2014 Jan 29;14(1):1019. URL.

May L, Klein EY, Rothman RE, Laxminarayan R. Trends in antibiotic resistance in coagulase-negative staphylococci in the United States, 1999 to 2012. Antimicrob Agents Chemother. 2014 Mar 1;58(3):1404–9. URL.

Mochan E, Swigon D, Ermentrout GB, Lukens S, Clermont G. A mathematical model of intrahost pneumococcal pneumonia infection dynamics in murine strains. J Theor Biol. 2014 Mar 2;353C:44–54. URL.

Mostowy R, Croucher NJ, Hanage WP, Harris SR, Bentley S, Fraser C. Heterogeneity in the Frequency and Characteristics of Homologous Recombination in Pneumococcal Evolution. PLoS Genet. 2014 May;10(5):e1004300. URL.

Pelat C, Ferguson NM, White PJ, Reed C, Finelli L, Cauchemez S, et al. Optimizing the Precision of Case Fatality Ratio Estimates Under the Surveillance Pyramid Approach. Am J Epidemiol. 2014 Sep 25. URL.

Quinn SC, Kumar S. Health inequalities and infectious disease epidemics: a challenge for global health security. Biosecur Bioterror. 2014;12(5):263–73. URL.

Rodriguez-Barraquer I, Buathong R, Iamsirithaworn S, Nisalak A, Lessler J, Jarman RG, et al. Revisiting rayong: shifting seroprofiles of dengue in Thailand and their implications for transmission and control. Am J Epidemiol. 2014 Feb 1;179(3):353–60. URL.

Rodriguez-Barraquer I, Mier-Y-Teran-Romero L, Schwartz IB, Burke DS, Cummings DAT. Potential opportunities and perils of imperfect dengue vaccines. Vaccine. 2014 Jan 16;32(4):514–20. URL.

Rudolph KE, Lessler J, Moloney RM, Kmush B, Cummings DAT. Incubation periods of mosquito-borne viral infections: a systematic review. Am J Trop Med Hyg. 2014 May;90(5):882–91. URL.

Salje H, Rodríguez-Barraquer I, Rainwater-Lovett K, Nisalak A, Thaisomboonsuk B, Thomas SJ, et al. Variability in dengue titer estimates from plaque reduction neutralization tests poses a challenge to epidemiological studies and vaccine development. PLoS Negl Trop Dis. 2014 Jun;8(6):e2952. URL.

Singh A, Bartsch SM, Muder RR, Lee BY. An economic model: value of antimicrobial-coated sutures to society, hospitals, and third-party payers in preventing abdominal surgical site infections. Infect Control Hosp Epidemiol. 2014 Aug;35(8):1013–20. URL.

Skene KJ, Paltiel AD, Shim E, Galvani AP. A marginal benefit approach for vaccinating influenza “superspreaders”. Med Decis Making. 2014 May;34(4):536–49. URL.

Smith DL, Perkins TA, Reiner RC, Barker CM, Niu T, Chaves LF, et al. Recasting the theory of mosquito-borne pathogen transmission dynamics and control. Trans R Soc Trop Med Hyg. 2014 Apr;108(4):185–97. URL.

van Panhuis WG, Hyun S, Blaney K, Marques ETA, Coelho GE, Siqueira JB, et al. Risk of Dengue for Tourists and Teams during the World Cup 2014 in Brazil. PLoS Negl Trop Dis. 2014 Jan;8(7):e3063. URL.

van Panhuis WG, Paul P, Emerson C, Grefenstette J, Wilder R, Herbst AJ, et al. A systematic review of barriers to data sharing in public health. BMC Public Health. 2014 Jan;14(1):1144. URL.

Wu C, Rosenfeld R, Clermont G. Using data-driven rules to predict mortality in severe community acquired pneumonia. PLoS One. 2014 Jan;9(4):e89053. URL.

Ebola Virus Disease in West Africa - The First 9 Months of the Epidemic and Forward Projections. N Engl J Med. 2014 Sep 22;371(16):1481–95. URL.

Ferguson NM, Van Kerkhove MD. Identification of MERS-CoV in dromedary camels. Lancet Infect Dis. 2014 Feb;14(2):93–4. URL.

Kwok KO, Jiang C, Tan L, Justin L, Read JM, Zhu H, et al. [An international collaborative study on influenza viruses antibody titers and contact patterns of individuals in rural and urban household of Guangzhou]. Zhonghua Liu Xing Bing Xue Za Zhi. 2014 Apr;35(4):433–6. URL.


Aguas R, Ferguson NM. Feature selection methods for identifying genetic determinants of host species in RNA viruses. PLoS Comput Biol. 2013 Oct;9(10):e1003254. URL.

Ali ST, Kadi AS, Ferguson NM. Transmission dynamics of the 2009 influenza A (H1N1) pandemic in India: the impact of holiday-related school closure. Epidemics. 2013 Dec;5(4):157–63. URL.

Ampofo WK, Baylor N, Cobey S, Cox NJ, Daves S, Edwards S, et al. Improving influenza vaccine virus selection: report of a WHO informal consultation held at WHO headquarters, Geneva, Switzerland, 14-16 June 2010. Influenza Other Respi Viruses. 2013 Sep;7 Suppl 2:52–3. URL.

Assi T-M, Brown ST, Kone S, Norman BA, Djibo A, Connor DL, et al. Removing the regional level from the Niger vaccine supply chain. Vaccine. 2013 Apr 17. URL.

Assiri A, McGeer A, Perl TM, Price CS, Al Rabeeah AA, Cummings DAT, et al. Hospital outbreak of Middle East respiratory syndrome coronavirus. N Engl J Med. 2013 Aug 1;369(5):407–16. URL.

Azman AS, Rudolph KE, Cummings DAT, Lessler J. The incubation period of cholera: a systematic review. J Infect. 2013 May;66(5):432–8. URL.

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Lee BY, Bailey RR, Wiringa AE, Assi TM, Beigi RH. Antiviral medications for pregnant women for pandemic and seasonal influenza: an economic computer model. Obstet Gynecol. 2009 Nov;114(5):971–80.

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