My Bibliography

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Chao DL, Davenport MP, Forrest S, Perelson AS. Stochastic stage-structured modeling of the adaptive immune system. Proc IEEE Comput Soc Bioinform Conf. 2003;2:124-31. PubMed PMID: 16452786.

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Chao DL, Davenport MP, Forrest S, Perelson AS. Modelling the impact of antigen kinetics on T-cell activation and response. Immunol Cell Biol. 2004 Feb;82(1):55-61. doi: 10.1111/j.1440-1711.2004.01207.x. PubMed PMID: 14984595.

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Chao DL, Davenport MP, Forrest S, Perelson AS. A stochastic model of cytotoxic T cell responses. J Theor Biol. 2004 May 21;228(2):227-40. doi: 10.1016/j.jtbi.2003.12.011. PubMed PMID: 15094017.

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Davenport MP, Ribeiro RM, Chao DL, Perelson AS. Predicting the impact of a nonsterilizing vaccine against human immunodeficiency virus. J Virol. 2004 Oct;78(20):11340-51. doi: 10.1128/JVI.78.20.11340-11351.2004. PubMed PMID: 15452255; PubMed Central PMCID: PMC521856.

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Chao DL, Davenport MP, Forrest S, Perelson AS. The effects of thymic selection on the range of T cell cross-reactivity. Eur J Immunol. 2005 Dec;35(12):3452-9. doi: 10.1002/eji.200535098. PubMed PMID: 16285012; PubMed Central PMCID: PMC1857316.

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Chao DL, Maley CC, Wu X, Farrow DC, Galipeau PC, Sanchez CA, Paulson TG, Rabinovitch PS, Reid BJ, Spitz MR, Vaughan TL. Mutagen sensitivity and neoplastic progression in patients with Barrett's esophagus: a prospective analysis. Cancer Epidemiol Biomarkers Prev. 2006 Oct;15(10):1935-40. doi: 10.1158/1055-9965.EPI-06-0492. PubMed PMID: 17035402.

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Chao DL, Eck JT, Brash DE, Maley CC, Luebeck EG. Preneoplastic lesion growth driven by the death of adjacent normal stem cells. Proc Natl Acad Sci U S A. 2008 Sep 30;105(39):15034-9. doi: 10.1073/pnas.0802211105. Epub 2008 Sep 24. PubMed PMID: 18815380; PubMed Central PMCID: PMC2567488.

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Chao DL, Sanchez CA, Galipeau PC, Blount PL, Paulson TG, Cowan DS, Ayub K, Odze RD, Rabinovitch PS, Reid BJ. Cell proliferation, cell cycle abnormalities, and cancer outcome in patients with Barrett's esophagus: a long-term prospective study. Clin Cancer Res. 2008 Nov 1;14(21):6988-95. doi: 10.1158/1078-0432.CCR-07-5063. PubMed PMID: 18980994; PubMed Central PMCID: PMC2587072.

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Paulson TG, Maley CC, Li X, Li H, Sanchez CA, Chao DL, Odze RD, Vaughan TL, Blount PL, Reid BJ. Chromosomal instability and copy number alterations in Barrett's esophagus and esophageal adenocarcinoma. Clin Cancer Res. 2009 May 15;15(10):3305-14. doi: 10.1158/1078-0432.CCR-08-2494. Epub 2009 May 5. PubMed PMID: 19417022; PubMed Central PMCID: PMC2684570.

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Basta NE, Chao DL, Halloran ME, Matrajt L, Longini IM Jr. Strategies for pandemic and seasonal influenza vaccination of schoolchildren in the United States. Am J Epidemiol. 2009 Sep 15;170(6):679-86. doi: 10.1093/aje/kwp237. Epub 2009 Aug 13. PubMed PMID: 19679750; PubMed Central PMCID: PMC2737588.

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Yang Y, Sugimoto JD, Halloran ME, Basta NE, Chao DL, Matrajt L, Potter G, Kenah E, Longini IM Jr. The transmissibility and control of pandemic influenza A (H1N1) virus. Science. 2009 Oct 30;326(5953):729-33. doi: 10.1126/science.1177373. Epub 2009 Sep 10. PubMed PMID: 19745114; PubMed Central PMCID: PMC2880578.

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Chao DL, Halloran ME, Obenchain VJ, Longini IM Jr. FluTE, a publicly available stochastic influenza epidemic simulation model. PLoS Comput Biol. 2010 Jan 29;6(1):e1000656. doi: 10.1371/journal.pcbi.1000656. PubMed PMID: 20126529; PubMed Central PMCID: PMC2813259.

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Chao DL, Halloran ME, Longini IM Jr. School opening dates predict pandemic influenza A(H1N1) outbreaks in the United States. J Infect Dis. 2010 Sep 15;202(6):877-80. doi: 10.1086/655810. PubMed PMID: 20704486; PubMed Central PMCID: PMC2939723.

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Wang P, Chao DL, Hsu L. Learning oncogenic pathways from binary genomic instability data. Biometrics. 2011 Mar;67(1):164-73. doi: 10.1111/j.1541-0420.2010.01417.x. PubMed PMID: 20377578; PubMed Central PMCID: PMC3020238.

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Chao DL, Halloran ME, Longini IM Jr. Vaccination strategies for epidemic cholera in Haiti with implications for the developing world. Proc Natl Acad Sci U S A. 2011 Apr 26;108(17):7081-5. doi: 10.1073/pnas.1102149108. Epub 2011 Apr 11. PubMed PMID: 21482756; PubMed Central PMCID: PMC3084143.

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Kenah E, Chao DL, Matrajt L, Halloran ME, Longini IM Jr. The global transmission and control of influenza. PLoS One. 2011 May 6;6(5):e19515. doi: 10.1371/journal.pone.0019515. PubMed PMID: 21573121; PubMed Central PMCID: PMC3089626.

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Chao DL, Matrajt L, Basta NE, Sugimoto JD, Dean B, Bagwell DA, Oiulfstad B, Halloran ME, Longini IM Jr. Planning for the control of pandemic influenza A (H1N1) in Los Angeles County and the United States. Am J Epidemiol. 2011 May 15;173(10):1121-30. doi: 10.1093/aje/kwq497. Epub 2011 Mar 22. PubMed PMID: 21427173; PubMed Central PMCID: PMC3121321.

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Chao DL, Bloom JD, Kochin BF, Antia R, Longini IM Jr. The global spread of drug-resistant influenza. J R Soc Interface. 2012 Apr 7;9(69):648-56. doi: 10.1098/rsif.2011.0427. Epub 2011 Aug 24. PubMed PMID: 21865253; PubMed Central PMCID: PMC3284134.

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Chao DL, Halstead SB, Halloran ME, Longini IM Jr. Controlling dengue with vaccines in Thailand. PLoS Negl Trop Dis. 2012;6(10):e1876. doi: 10.1371/journal.pntd.0001876. Epub 2012 Oct 25. PubMed PMID: 23145197; PubMed Central PMCID: PMC3493390.

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Willem L, Van Kerckhove K, Chao DL, Hens N, Beutels P. A nice day for an infection? Weather conditions and social contact patterns relevant to influenza transmission. PLoS One. 2012;7(11):e48695. doi: 10.1371/journal.pone.0048695. Epub 2012 Nov 14. PubMed PMID: 23155399; PubMed Central PMCID: PMC3498265.

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Chao DL. Modeling the global transmission of antiviral-resistant influenza viruses. Influenza Other Respir Viruses. 2013 Jan;7 Suppl 1(Suppl 1):58-62. doi: 10.1111/irv.12043. PubMed PMID: 23279898; PubMed Central PMCID: PMC3747505.

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Chao DL, Longini IM Jr, Halloran ME. The effects of vector movement and distribution in a mathematical model of dengue transmission. PLoS One. 2013;8(10):e76044. doi: 10.1371/journal.pone.0076044. eCollection 2013. PubMed PMID: 24204590; PubMed Central PMCID: PMC3804532.

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Chao DL, Longini IM Jr, Morris JG Jr. Modeling cholera outbreaks. Curr Top Microbiol Immunol. 2014;379:195-209. doi: 10.1007/82_2013_307. Review. PubMed PMID: 23412687; PubMed Central PMCID: PMC4238032.

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Gog JR, Ballesteros S, Viboud C, Simonsen L, Bjornstad ON, Shaman J, Chao DL, Khan F, Grenfell BT. Spatial Transmission of 2009 Pandemic Influenza in the US. PLoS Comput Biol. 2014 Jun;10(6):e1003635. doi: 10.1371/journal.pcbi.1003635. eCollection 2014 Jun. PubMed PMID: 24921923; PubMed Central PMCID: PMC4055284.

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Gomes MF, Pastore Y Piontti A, Rossi L, Chao D, Longini I, Halloran ME, Vespignani A. Assessing the international spreading risk associated with the 2014 west african ebola outbreak. PLoS Curr. 2014 Sep 2;6. doi: 10.1371/currents.outbreaks.cd818f63d40e24aef769dda7df9e0da5. PubMed PMID: 25642360; PubMed Central PMCID: PMC4169359.

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Poletto C, Gomes MF, Pastore y Piontti A, Rossi L, Bioglio L, Chao DL, Longini IM, Halloran ME, Colizza V, Vespignani A. Assessing the impact of travel restrictions on international spread of the 2014 West African Ebola epidemic. Euro Surveill. 2014 Oct 23;19(42). doi: 10.2807/1560-7917.es2014.19.42.20936. PubMed PMID: 25358040; PubMed Central PMCID: PMC4415609.

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Troeger C, Sack DA, Chao DL. Evaluation of targeted mass cholera vaccination strategies in Bangladesh: a demonstration of a new cost-effectiveness calculator. Am J Trop Med Hyg. 2014 Dec;91(6):1181-1189. doi: 10.4269/ajtmh.14-0159. Epub 2014 Oct 6. PubMed PMID: 25294614; PubMed Central PMCID: PMC4257645.

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Dimitrov DT, Troeger C, Halloran ME, Longini IM, Chao DL. Comparative effectiveness of different strategies of oral cholera vaccination in bangladesh: a modeling study. PLoS Negl Trop Dis. 2014 Dec;8(12):e3343. doi: 10.1371/journal.pntd.0003343. eCollection 2014 Dec. PubMed PMID: 25473851; PubMed Central PMCID: PMC4256212.

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Merler S, Ajelli M, Fumanelli L, Gomes MF, Piontti AP, Rossi L, Chao DL, Longini IM Jr, Halloran ME, Vespignani A. Spatiotemporal spread of the 2014 outbreak of Ebola virus disease in Liberia and the effectiveness of non-pharmaceutical interventions: a computational modelling analysis. Lancet Infect Dis. 2015 Feb;15(2):204-11. doi: 10.1016/S1473-3099(14)71074-6. Epub 2015 Jan 7. PubMed PMID: 25575618; PubMed Central PMCID: PMC4409131.

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Chao DL, Park JK, Marks F, Ochiai RL, Longini IM, Halloran ME. The contribution of neighbours to an individual's risk of typhoid outcome. Epidemiol Infect. 2015 Dec;143(16):3520-7. doi: 10.1017/S0950268815000692. Epub 2015 May 4. PubMed PMID: 25936682; PubMed Central PMCID: PMC4619120.

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Troeger C, Gaudart J, Truillet R, Sallah K, Chao DL, Piarroux R. Cholera Outbreak in Grande Comore: 1998-1999. Am J Trop Med Hyg. 2016 Jan;94(1):76-81. doi: 10.4269/ajtmh.15-0397. Epub 2015 Nov 16. PubMed PMID: 26572869; PubMed Central PMCID: PMC4710449.

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Chao DL, Dimitrov DT. Seasonality and the effectiveness of mass vaccination. Math Biosci Eng. 2016 Apr 1;13(2):249-59. doi: 10.3934/mbe.2015001. PubMed PMID: 27105983; PubMed Central PMCID: PMC4843823.

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Hladish TJ, Pearson CA, Chao DL, Rojas DP, Recchia GL, Gómez-Dantés H, Halloran ME, Pulliam JR, Longini IM. Projected Impact of Dengue Vaccination in Yucatán, Mexico. PLoS Negl Trop Dis. 2016 May;10(5):e0004661. doi: 10.1371/journal.pntd.0004661. eCollection 2016 May. PubMed PMID: 27227883; PubMed Central PMCID: PMC4882069.

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Fong Y, Halloran ME, Park JK, Marks F, Clemens JD, Chao DL. Efficacy of a bivalent killed whole-cell cholera vaccine over five years: a re-analysis of a cluster-randomized trial. BMC Infect Dis. 2018 Feb 20;18(1):84. doi: 10.1186/s12879-018-2981-4. PubMed PMID: 29463233; PubMed Central PMCID: PMC5819652.

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Khan AI, Levin A, Chao DL, DeRoeck D, Dimitrov DT, Khan JAM, Islam MS, Ali M, Islam MT, Sarker AR, Clemens JD, Qadri F. The impact and cost-effectiveness of controlling cholera through the use of oral cholera vaccines in urban Bangladesh: A disease modeling and economic analysis. PLoS Negl Trop Dis. 2018 Oct;12(10):e0006652. doi: 10.1371/journal.pntd.0006652. eCollection 2018 Oct. PubMed PMID: 30300420; PubMed Central PMCID: PMC6177119.

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Chao DL, Roose A, Roh M, Kotloff KL, Proctor JL. The seasonality of diarrheal pathogens: A retrospective study of seven sites over three years. PLoS Negl Trop Dis. 2019 Aug;13(8):e0007211. doi: 10.1371/journal.pntd.0007211. eCollection 2019 Aug. PubMed PMID: 31415558; PubMed Central PMCID: PMC6711541.

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Oron AP, Chao DL, Ezeanolue EE, Ezenwa LN, Piel FB, Ojogun OT, Uyoga S, Williams TN, Nnodu OE. Caring for Africa's sickle cell children: will we rise to the challenge?. BMC Med. 2020 Apr 28;18(1):92. doi: 10.1186/s12916-020-01557-2. PubMed PMID: 32340612; PubMed Central PMCID: PMC7187492.

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Lee EC, Chao DL, Lemaitre JC, Matrajt L, Pasetto D, Perez-Saez J, Finger F, Rinaldo A, Sugimoto JD, Halloran ME, Longini IM Jr, Ternier R, Vissieres K, Azman AS, Lessler J, Ivers LC. Achieving coordinated national immunity and cholera elimination in Haiti through vaccination: a modelling study. Lancet Glob Health. 2020 Aug;8(8):e1081-e1089. doi: 10.1016/S2214-109X(20)30310-7. PubMed PMID: 32710864; PubMed Central PMCID: PMC7738665.

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Nelson EJ, Grembi JA, Chao DL, Andrews JR, Alexandrova L, Rodriguez PH, Ramachandran VV, Sayeed MA, Wamala JF, Debes AK, Sack DA, Hryckowian AJ, Haque F, Khatun S, Rahman M, Chien A, Spormann AM, Schoolnik GK. Gold Standard Cholera Diagnostics Are Tarnished by Lytic Bacteriophage and Antibiotics. J Clin Microbiol. 2020 Aug 24;58(9). doi: 10.1128/JCM.00412-20. Print 2020 Aug 24. PubMed PMID: 32611794; PubMed Central PMCID: PMC7448619.

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Brintz BJ, Haaland B, Howard J, Chao DL, Proctor JL, Khan AI, Ahmed SM, Keegan LT, Greene T, Keita AM, Kotloff KL, Platts-Mills JA, Nelson EJ, Levine AC, Pavia AT, Leung DT. A modular approach to integrating multiple data sources into real-time clinical prediction for pediatric diarrhea. Elife. 2021 Feb 2;10. doi: 10.7554/eLife.63009. PubMed PMID: 33527894; PubMed Central PMCID: PMC7853717.

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Nnodu OE, Oron AP, Sopekan A, Akaba GO, Piel FB, Chao DL. Child mortality from sickle cell disease in Nigeria: a model-estimated, population-level analysis of data from the 2018 Demographic and Health Survey. Lancet Haematol. 2021 Oct;8(10):e723-e731. doi: 10.1016/S2352-3026(21)00216-7. Epub 2021 Sep 2. PubMed PMID: 34481551; PubMed Central PMCID: PMC8460996.

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Chao DL. Mathematical Modeling of Endemic Cholera Transmission. J Infect Dis. 2021 Dec 20;224(12 Suppl 2):S738-S741. doi: 10.1093/infdis/jiab472. PubMed PMID: 34550373; PubMed Central PMCID: PMC8687074.

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Selvaraj P, Wagner BG, Chao DL, Jackson ML, Breugelmans JG, Jackson N, Chang ST. Rural prioritization may increase the impact of COVID-19 vaccines in a representative COVAX AMC country setting due to ongoing internal migration: A modeling study. PLOS Glob Public Health. 2022;2(1):e0000053. doi: 10.1371/journal.pgph.0000053. eCollection 2022. PubMed PMID: 36962090; PubMed Central PMCID: PMC10021691.

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Nelson EJ, Khan AI, Keita AM, Brintz BJ, Keita Y, Sanogo D, Islam MT, Khan ZH, Rashid MM, Nasrin D, Watt MH, Ahmed SM, Haaland B, Pavia AT, Levine AC, Chao DL, Kotloff KL, Qadri F, Sow SO, Leung DT. Improving Antibiotic Stewardship for Diarrheal Disease With Probability-Based Electronic Clinical Decision Support: A Randomized Crossover Trial. JAMA Pediatr. 2022 Oct 1;176(10):973-979. doi: 10.1001/jamapediatrics.2022.2535. PubMed PMID: 36036920; PubMed Central PMCID: PMC9425282.

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Chao DL, Oron AP, Chabot-Couture G, Sopekan A, Nnebe-Agumadu U, Bates I, Piel FB, Nnodu O. Contribution of malaria and sickle cell disease to anaemia among children aged 6-59 months in Nigeria: a cross-sectional study using data from the 2018 Demographic and Health Survey. BMJ Open. 2022 Nov 16;12(11):e063369. doi: 10.1136/bmjopen-2022-063369. PubMed PMID: 36385021; PubMed Central PMCID: PMC9670918.

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Chao DL, Arzika AM, Abdou A, Maliki R, Karamba A, Galo N, Beidi D, Harouna N, Abarchi M, Root E, Mishra A, Lebas E, Arnold BF, Oldenburg CE, Keenan JD, Lietman TM, O'Brien KS. Distance to Health Centers and Effectiveness of Azithromycin Mass Administration for Children in Niger: A Secondary Analysis of the MORDOR Cluster Randomized Trial. JAMA Netw Open. 2023 Dec 1;6(12):e2346840. doi: 10.1001/jamanetworkopen.2023.46840. PubMed PMID: 38100110; PubMed Central PMCID: PMC10724761.

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O'Brien ML, Zimmermann M, Eitmann L, Chao DL, Proctor JL. Contraceptive Adoption and Changes in Empowerment in Kenya, Nigeria, and Senegal. Stud Fam Plann. 2023 Dec;54(4):609-623. doi: 10.1111/sifp.12250. Epub 2023 Aug 2. PubMed PMID: 37531224.

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Brintz BJ, Colston JM, Ahmed SM, Chao DL, Zaitchik BF, Leung DT. Assessment and comparison of model estimated and directly observed weather data for prediction of diarrhoea aetiology. Epidemiol Infect. 2024 Oct 9;152:e122. doi: 10.1017/S0950268824001183. PubMed PMID: 39381928; PubMed Central PMCID: PMC11488466.