{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,22]],"date-time":"2026-10-22T17:21:01Z","timestamp":1792689661049,"version":"4.5.0"},"reference-count":104,"publisher":"Oxford University Press (OUP)","issue":"suppl_6","funder":[{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2017,11,3]]},"DOI":"10.1093\/infdis\/jix354","type":"journal-article","created":{"date-parts":[[2017,7,24]],"date-time":"2017-07-24T19:11:52Z","timestamp":1500923512000},"page":"S644-S653","source":"Crossref","is-referenced-by-count":164,"title":["Drivers of Tuberculosis Transmission"],"prefix":"10.1093","volume":"216","author":[{"given":"Barun","family":"Mathema","sequence":"first","affiliation":[{"name":"Department of Epidemiology, Mailman School of Public Health, Columbia University, New York, New York;"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jason R","family":"Andrews","sequence":"additional","affiliation":[{"name":"Division of Infectious Diseases and Geographic Medicine, Stanford University, California;"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ted","family":"Cohen","sequence":"additional","affiliation":[{"name":"Department of Epidemiology of Microbial Diseases, Yale School of Public Health, New Haven, Connecticut;"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Martien W","family":"Borgdorff","sequence":"additional","affiliation":[{"name":"Centers for Disease Control and Prevention, Kisumu, Kenya;"},{"name":"Department of Clinical Epidemiology, Biostatistics, and Bioinformatics, Academic Medical Center, University of Amsterdam, the Netherlands;"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Marcel","family":"Behr","sequence":"additional","affiliation":[{"name":"McGill International TB Centre, Research Institute of the McGill University Health Centre, Montreal,Canada;"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Judith R","family":"Glynn","sequence":"additional","affiliation":[{"name":"Faculty of Epidemiology and Population Health, London School of Hygiene and Tropical Medicine, United Kingdom;"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Roxana","family":"Rustomjee","sequence":"additional","affiliation":[{"name":"Tuberculosis Clinical Research Branch, Therapeutics Research Program, Division of AIDS, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Department of Health and Human Services, Rockville, Maryland;"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Benjamin J","family":"Silk","sequence":"additional","affiliation":[{"name":"Division of Tuberculosis Elimination, Centers for Disease Control and Prevention, Atlanta, Georgia;"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Robin","family":"Wood","sequence":"additional","affiliation":[{"name":"Desmond Tutu HIV Centre, Institute of Infectious Disease and Molecular Medicine, University of Cape Town, South Africa"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2017,11,3]]},"reference":[{"key":"key\n\t\t\t\t20180306120625_CIT0001","doi-asserted-by":"crossref","first-page":"275","DOI":"10.1016\/S1473-3099(16)30418-2","article-title":"Transmission of multidrug-resistant Mycobacterium tuberculosis in Shanghai, China: a retrospective observational study using whole-genome sequencing and epidemiological investigation","volume":"17","author":"Yang","year":"2017","journal-title":"Lancet Infect Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0002","doi-asserted-by":"crossref","first-page":"243","DOI":"10.1056\/NEJMoa1604544","article-title":"Transmission of extensively drug-resistant tuberculosis in South Africa","volume":"376","author":"Shah","year":"2017","journal-title":"N Engl J Med"},{"key":"key\n\t\t\t\t20180306120625_CIT0003","doi-asserted-by":"crossref","first-page":"227","DOI":"10.1016\/S1473-3099(15)00499-5","article-title":"The transmission of Mycobacterium tuberculosis in high burden settings","volume":"16","author":"Yates","year":"2016","journal-title":"Lancet Infect Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0004","doi-asserted-by":"crossref","first-page":"e0146658","DOI":"10.1371\/journal.pone.0146658","article-title":"Real-time investigation of tuberculosis transmission: developing the respiratory aerosol sampling chamber (RASC)","volume":"11","author":"Wood","year":"2016","journal-title":"PLoS One"},{"key":"key\n\t\t\t\t20180306120625_CIT0005","doi-asserted-by":"crossref","first-page":"604","DOI":"10.1164\/rccm.200308-1101OC","article-title":"Cough-generated aerosols of Mycobacterium tuberculosis: a new method to study infectiousness","volume":"169","author":"Fennelly","year":"2004","journal-title":"Am J Respir Crit Care Med"},{"key":"key\n\t\t\t\t20180306120625_CIT0006","doi-asserted-by":"crossref","first-page":"450","DOI":"10.1164\/rccm.201203-0444OC","article-title":"Variability of infectious aerosols produced during coughing by patients with pulmonary tuberculosis","volume":"186","author":"Fennelly","year":"2012","journal-title":"Am J Respir Crit Care Med"},{"key":"key\n\t\t\t\t20180306120625_CIT0007","doi-asserted-by":"crossref","first-page":"543","DOI":"10.1164\/rccm.201207-1217OC","article-title":"Is passive diagnosis enough? The impact of subclinical disease on diagnostic strategies for tuberculosis","volume":"187","author":"Dowdy","year":"2013","journal-title":"Am J Respir Crit Care Med"},{"key":"key\n\t\t\t\t20180306120625_CIT0008","doi-asserted-by":"crossref","first-page":"20130437","DOI":"10.1098\/rstb.2013.0437","article-title":"The ongoing challenge of latent tuberculosis","volume":"369","author":"Esmail","year":"2014","journal-title":"Philos Trans R Soc Lond B Biol Sci"},{"key":"key\n\t\t\t\t20180306120625_CIT0009","doi-asserted-by":"crossref","first-page":"1090","DOI":"10.1038\/nm.4161","article-title":"Characterization of progressive HIV-associated tuberculosis using 2-deoxy-2-[(18)F]fluoro-D-glucose positron emission and computed tomography","volume":"22","author":"Esmail","year":"2016","journal-title":"Nat Med"},{"key":"key\n\t\t\t\t20180306120625_CIT0010","doi-asserted-by":"crossref","first-page":"845","DOI":"10.1038\/nrmicro2236","article-title":"The spectrum of latent tuberculosis: rethinking the biology and intervention strategies","volume":"7","author":"Barry","year":"2009","journal-title":"Nat Rev Microbiol"},{"key":"key\n\t\t\t\t20180306120625_CIT0011","doi-asserted-by":"crossref","first-page":"15","DOI":"10.1186\/1471-2458-8-15","article-title":"A systematic review of delay in the diagnosis and treatment of tuberculosis","volume":"8","author":"Storla","year":"2008","journal-title":"BMC Public Health"},{"key":"key\n\t\t\t\t20180306120625_CIT0012","first-page":"11","article-title":"On the mechanics of droplet nuclei infection; quantitative experimental air-borne tuberculosis in rabbits","volume":"47","author":"Wells","year":"1948","journal-title":"Am J Hyg"},{"key":"key\n\t\t\t\t20180306120625_CIT0013","first-page":"420","article-title":"Air hygiene in tuberculosis: quantitative studies of infectivity and control in a pilot ward","volume":"75","author":"Riley","year":"1957","journal-title":"Am Rev Tuberc"},{"key":"key\n\t\t\t\t20180306120625_CIT0014","doi-asserted-by":"crossref","first-page":"7099","DOI":"10.1128\/IAI.71.12.7099-7108.2003","article-title":"Mycobacterium tuberculosis growth at the cavity surface: a microenvironment with failed immunity","volume":"71","author":"Kaplan","year":"2003","journal-title":"Infect Immun"},{"key":"key\n\t\t\t\t20180306120625_CIT0015","doi-asserted-by":"crossref","first-page":"10","DOI":"10.1093\/cid\/ciw199","article-title":"Cough aerosols of Mycobacterium tuberculosis in the prediction of incident tuberculosis disease in household contacts","volume":"63","author":"Jones-L\u00f3pez","year":"2016","journal-title":"Clin Infect Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0016","doi-asserted-by":"crossref","first-page":"1007","DOI":"10.1164\/rccm.201208-1422OC","article-title":"Cough aerosols of Mycobacterium tuberculosis predict new infection: a household contact study","volume":"187","author":"Jones-L\u00f3pez","year":"2013","journal-title":"Am J Respir Crit Care Med"},{"key":"key\n\t\t\t\t20180306120625_CIT0017","doi-asserted-by":"crossref","first-page":"155","DOI":"10.1016\/j.ajic.2012.02.015","article-title":"Delay in diagnosis leading to nosocomial transmission of tuberculosis at a New York City health care facility","volume":"41","author":"Harris","year":"2013","journal-title":"Am J Infect Control"},{"key":"key\n\t\t\t\t20180306120625_CIT0018","doi-asserted-by":"crossref","first-page":"e67516","DOI":"10.1371\/journal.pone.0067516","article-title":"Effect of diagnostic and treatment delay on the risk of tuberculosis transmission in Shenzhen, China: an observational cohort study, 1993\u20132010","volume":"8","author":"Cheng","year":"2013","journal-title":"PLoS One"},{"key":"key\n\t\t\t\t20180306120625_CIT0019","doi-asserted-by":"crossref","first-page":"2177","DOI":"10.1016\/S0140-6736(02)09095-5","article-title":"HIV-1\/AIDS and the control of other infectious diseases in Africa","volume":"359","author":"Corbett","year":"2002","journal-title":"Lancet"},{"key":"key\n\t\t\t\t20180306120625_CIT0020","doi-asserted-by":"crossref","first-page":"e152","DOI":"10.1371\/journal.pmed.0050152","article-title":"Diabetes mellitus increases the risk of active tuberculosis: a systematic review of 13 observational studies","volume":"5","author":"Jeon","year":"2008","journal-title":"PLoS Med"},{"key":"key\n\t\t\t\t20180306120625_CIT0021","doi-asserted-by":"crossref","first-page":"e20","DOI":"10.1371\/journal.pmed.0040020","article-title":"Tobacco smoke, indoor air pollution and tuberculosis: a systematic review and meta-analysis","volume":"4","author":"Lin","year":"2007","journal-title":"PLoS Med"},{"key":"key\n\t\t\t\t20180306120625_CIT0022","doi-asserted-by":"crossref","first-page":"289","DOI":"10.1186\/1471-2458-8-289","article-title":"Alcohol use as a risk factor for tuberculosis - a systematic review","volume":"8","author":"L\u00f6nnroth","year":"2008","journal-title":"BMC Public Health"},{"key":"key\n\t\t\t\t20180306120625_CIT0023","doi-asserted-by":"crossref","first-page":"361","DOI":"10.1186\/s12879-016-1718-5","article-title":"Convergence of a diabetes mellitus, protein energy malnutrition, and TB epidemic: the neglected elderly population","volume":"16","author":"Menon","year":"2016","journal-title":"BMC Infect Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0024","first-page":"313","article-title":"Quantity and Quality of Inhaled Dose Predicts Immunopathology in Tuberculosis","volume":"6","author":"Fennelly","year":"2015","journal-title":"Front Immunol"},{"key":"key\n\t\t\t\t20180306120625_CIT0025","doi-asserted-by":"crossref","first-page":"S184","DOI":"10.1086\/651490","article-title":"Pediatric tuberculosis: global overview and challenges","volume":"50","author":"Swaminathan","year":"2010","journal-title":"Clin Infect Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0026","doi-asserted-by":"crossref","first-page":"13","DOI":"10.1542\/pir.31-1-13","article-title":"Pediatric tuberculosis","volume":"31","author":"Cruz","year":"2010","journal-title":"Pediatr Rev"},{"key":"key\n\t\t\t\t20180306120625_CIT0027","volume-title":"Global tuberculosis report 2015","author":"World Health Organization (WHO)","year":"2015"},{"key":"key\n\t\t\t\t20180306120625_CIT0028","doi-asserted-by":"crossref","first-page":"20240","DOI":"10.7448\/IAS.18.1.20240","article-title":"Temporal trends in TB notification rates during ART scale-up in Cape Town: an ecological analysis","volume":"18","author":"Hermans","year":"2015","journal-title":"J Int AIDS Soc"},{"key":"key\n\t\t\t\t20180306120625_CIT0029","doi-asserted-by":"crossref","first-page":"765","DOI":"10.1183\/09031936.02.00261402","article-title":"European framework for tuberculosis control and elimination in countries with a low incidence. Recommendations of the World Health Organization (WHO), International Union Against Tuberculosis and Lung Disease (IUATLD) and Royal Netherlands Tuberculosis Association (KNCV) Working Group","volume":"19","author":"Broekmans","year":"2002","journal-title":"Eur Respir J"},{"key":"key\n\t\t\t\t20180306120625_CIT0030","doi-asserted-by":"crossref","first-page":"556","DOI":"10.1093\/aje\/kws331","article-title":"Modeling the role of public transportation in sustaining tuberculosis transmission in South Africa","volume":"177","author":"Andrews","year":"2013","journal-title":"Am J Epidemiol"},{"key":"key\n\t\t\t\t20180306120625_CIT0031","first-page":"767","article-title":"A multidisciplinary method to map potential tuberculosis transmission \u2018hot spots\u2019 in high-burden communities","volume":"13","author":"Murray","year":"2009","journal-title":"Int J Tuberc Lung Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0032","doi-asserted-by":"crossref","first-page":"597","DOI":"10.1093\/infdis\/jiu138","article-title":"Integrating social contact and environmental data in evaluating tuberculosis transmission in a South African township","volume":"210","author":"Andrews","year":"2014","journal-title":"J Infect Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0033","doi-asserted-by":"crossref","first-page":"584","DOI":"10.1164\/rccm.201409-1704OC","article-title":"The dynamics of QuantiFERON-TB gold in-tube conversion and reversion in a cohort of South African adolescents","volume":"191","author":"Andrews","year":"2015","journal-title":"Am J Respir Crit Care Med"},{"key":"key\n\t\t\t\t20180306120625_CIT0034","doi-asserted-by":"crossref","first-page":"967","DOI":"10.1186\/s12889-015-2312-2","article-title":"Epidemiology of tuberculosis in children in Kampala district, Uganda, 2009\u20132010; a retrospective cross-sectional study","volume":"15","author":"Wobudeya","year":"2015","journal-title":"BMC public health"},{"key":"key\n\t\t\t\t20180306120625_CIT0035","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1590\/S0034-8910.2015049005470","article-title":"Spatial distribution and socioeconomic context of tuberculosis in Rio de Janeiro, Brazil","volume":"49","author":"Pereira","year":"2015","journal-title":"Revista de saude publica"},{"key":"key\n\t\t\t\t20180306120625_CIT0036","doi-asserted-by":"crossref","first-page":"498","DOI":"10.2471\/BLT.14.145649","article-title":"Tuberculosis in the aftermath of the 2010 earthquake in Haiti","volume":"93","author":"Koenig","year":"2015","journal-title":"Bull World Health Organ"},{"key":"key\n\t\t\t\t20180306120625_CIT0037","first-page":"137","article-title":"The transmission of tubercle bacilli: its trend in a human population","volume":"41","author":"St\u00fdblo","year":"1969","journal-title":"Bull World Health Organ"},{"key":"key\n\t\t\t\t20180306120625_CIT0038","doi-asserted-by":"crossref","first-page":"1078","DOI":"10.2105\/AJPH.89.7.1078","article-title":"Tuberculosis and the HIV epidemic: increasing annual risk of tuberculous infection in Kenya, 1986\u20131996","volume":"89","author":"Odhiambo","year":"1999","journal-title":"Am J Public Health"},{"key":"key\n\t\t\t\t20180306120625_CIT0039","doi-asserted-by":"crossref","first-page":"136","DOI":"10.1111\/j.1365-3156.2008.02213.x","article-title":"No decrease in annual risk of tuberculosis infection in endemic area in Cape Town, South Africa","volume":"14","author":"Kritzinger","year":"2009","journal-title":"Trop Med Int Health"},{"key":"key\n\t\t\t\t20180306120625_CIT0040","doi-asserted-by":"crossref","first-page":"241","DOI":"10.1016\/0041-3879(83)90021-1","article-title":"The risk of tuberculous infection in the Netherlands from 1967 to 1979","volume":"64","author":"Sutherland","year":"1983","journal-title":"Tubercle"},{"key":"key\n\t\t\t\t20180306120625_CIT0041","doi-asserted-by":"crossref","first-page":"307","DOI":"10.1002\/(SICI)1097-0258(19990215)18:3<307::AID-SIM15>3.0.CO;2-Z","article-title":"Semi-parametric estimation of age-time specific infection incidence from serial prevalence data","volume":"18","author":"Nagelkerke","year":"1999","journal-title":"Stat Med"},{"key":"key\n\t\t\t\t20180306120625_CIT0042","doi-asserted-by":"crossref","first-page":"406","DOI":"10.1128\/JCM.31.2.406-409.1993","article-title":"Strain identification of Mycobacterium tuberculosis by DNA fingerprinting: recommendations for a standardized methodology","volume":"31","author":"van Embden","year":"1993","journal-title":"J Clin Microbiol"},{"key":"key\n\t\t\t\t20180306120625_CIT0043","doi-asserted-by":"crossref","first-page":"e0144137","DOI":"10.1371\/journal.pone.0144137","article-title":"A novel tool improves existing estimates of recent tuberculosis transmission in settings of sparse data collection","volume":"10","author":"Kasaie","year":"2015","journal-title":"PLoS One"},{"key":"key\n\t\t\t\t20180306120625_CIT0044","doi-asserted-by":"crossref","first-page":"1703","DOI":"10.1056\/NEJM199406163302402","article-title":"The epidemiology of tuberculosis in San Francisco. A population-based study using conventional and molecular methods","volume":"330","author":"Small","year":"1994","journal-title":"N Engl J Med"},{"key":"key\n\t\t\t\t20180306120625_CIT0045","doi-asserted-by":"crossref","first-page":"799","DOI":"10.1093\/aje\/kwv121","article-title":"A field-validated approach using surveillance and genotyping data to estimate tuberculosis attributable to recent transmission in the United States","volume":"182","author":"France","year":"2015","journal-title":"Am J Epidemiol"},{"key":"key\n\t\t\t\t20180306120625_CIT0046","doi-asserted-by":"crossref","first-page":"e83006","DOI":"10.1371\/journal.pone.0083006","article-title":"Association between Mycobacterium tuberculosis complex phylogenetic lineage and acquired drug resistance","volume":"8","author":"Yuen","year":"2013","journal-title":"PLoS One"},{"key":"key\n\t\t\t\t20180306120625_CIT0047","doi-asserted-by":"crossref","first-page":"1414","DOI":"10.5588\/ijtld.13.0270","article-title":"Tuberculosis among the homeless, United States, 1994\u20132010","volume":"17","author":"Bamrah","year":"2013","journal-title":"Int J Tuberc Lung Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0048","doi-asserted-by":"crossref","first-page":"1182","DOI":"10.5588\/ijtld.15.0126","article-title":"Prevalence of tuberculosis in prisons: risk factors and molecular epidemiology","volume":"19","author":"Valen\u00e7a","year":"2015","journal-title":"Int J Tuberc Lung Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0049","doi-asserted-by":"crossref","first-page":"452","DOI":"10.3201\/eid2103.140896","article-title":"Prisons as reservoir for community transmission of tuberculosis, Brazil","volume":"21","author":"Sacchi","year":"2015","journal-title":"Emerg Infect Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0050","doi-asserted-by":"crossref","first-page":"285","DOI":"10.1016\/S2213-2600(14)70027-X","article-title":"Assessment of Mycobacterium tuberculosis transmission in Oxfordshire, UK, 2007-12, with whole pathogen genome sequences: an observational study","volume":"2","author":"Walker","year":"2014","journal-title":"Lancet Respir Med"},{"key":"key\n\t\t\t\t20180306120625_CIT0051","volume-title":"Epidemiologic basis of tuberculosis control","author":"Rieder","year":"1999"},{"key":"key\n\t\t\t\t20180306120625_CIT0052","doi-asserted-by":"crossref","first-page":"452","DOI":"10.1001\/jama.1996.03530300036037","article-title":"Origin and interstate spread of a New York City multidrug-resistant Mycobacterium tuberculosis clone family","volume":"275","author":"Bifani","year":"1996","journal-title":"JAMA"},{"key":"key\n\t\t\t\t20180306120625_CIT0053","doi-asserted-by":"crossref","first-page":"658","DOI":"10.1128\/CMR.00061-05","article-title":"Molecular epidemiology of tuberculosis: current insights","volume":"19","author":"Mathema","year":"2006","journal-title":"Clin Microbiol Rev"},{"key":"key\n\t\t\t\t20180306120625_CIT0054","doi-asserted-by":"crossref","first-page":"e1001387","DOI":"10.1371\/journal.pmed.1001387","article-title":"Whole genome sequencing versus traditional genotyping for investigation of a Mycobacterium tuberculosis outbreak: a longitudinal molecular epidemiological study","volume":"10","author":"Roetzer","year":"2013","journal-title":"PLoS Med"},{"key":"key\n\t\t\t\t20180306120625_CIT0055","doi-asserted-by":"crossref","first-page":"137","DOI":"10.1016\/S1473-3099(12)70277-3","article-title":"Whole-genome sequencing to delineate Mycobacterium tuberculosis outbreaks: a retrospective observational study","volume":"13","author":"Walker","year":"2013","journal-title":"Lancet Infect Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0056","doi-asserted-by":"crossref","first-page":"1470","DOI":"10.1038\/nm.4205","article-title":"Genomic diversity in autopsy samples reveals within-host dissemination of HIV-associated Mycobacterium tuberculosis","volume":"22","author":"Lieberman","year":"2016","journal-title":"Nat Med"},{"key":"key\n\t\t\t\t20180306120625_CIT0057","doi-asserted-by":"crossref","DOI":"10.7554\/eLife.05166","article-title":"Large-scale whole genome sequencing of M. tuberculosis provides insights into transmission in a high prevalence area","volume":"4","author":"Guerra-Assuncao","year":"2015","journal-title":"Elife"},{"key":"key\n\t\t\t\t20180306120625_CIT0058","doi-asserted-by":"crossref","first-page":"784","DOI":"10.1038\/ng.2656","article-title":"Mycobacterium tuberculosis mutation rate estimates from different lineages predict substantial differences in the emergence of drug-resistant tuberculosis","volume":"45","author":"Ford","year":"2013","journal-title":"Nat Genet"},{"key":"key\n\t\t\t\t20180306120625_CIT0059","doi-asserted-by":"crossref","first-page":"110","DOI":"10.1186\/1471-2334-13-110","article-title":"Inferring patient to patient transmission of Mycobacterium tuberculosis from whole genome sequencing data","volume":"13","author":"Bryant","year":"2013","journal-title":"BMC Infect Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0060","doi-asserted-by":"crossref","first-page":"e1005257","DOI":"10.1371\/journal.ppat.1005257","article-title":"Diversity of Mycobacterium tuberculosis across evolutionary scales","volume":"11","author":"O\u2019Neill","year":"2015","journal-title":"PLoS Pathog"},{"key":"key\n\t\t\t\t20180306120625_CIT0061","doi-asserted-by":"crossref","first-page":"1869","DOI":"10.1093\/molbev\/msu121","article-title":"Bayesian inference of infectious disease transmission from whole-genome sequence data","volume":"31","author":"Didelot","year":"2014","journal-title":"Mol Biol Evol"},{"key":"key\n\t\t\t\t20180306120625_CIT0062","first-page":"997","article-title":"Genomic infectious disease epidemiology in partially sampled and ongoing outbreaks","volume":"34","author":"Didelot","year":"2017","journal-title":"Mol Biol Evol"},{"key":"key\n\t\t\t\t20180306120625_CIT0063","doi-asserted-by":"crossref","first-page":"1532","DOI":"10.1164\/rccm.201604-0769OC","article-title":"Detection and quantification of differentially culturable tubercle bacteria in sputum from patients with tuberculosis","volume":"194","author":"Chengalroyen","year":"2016","journal-title":"Am J Respir Crit Care Med"},{"key":"key\n\t\t\t\t20180306120625_CIT0064","doi-asserted-by":"crossref","first-page":"1905","DOI":"10.1093\/infdis\/jiv011","article-title":"Reemergence and amplification of tuberculosis in the Canadian arctic","volume":"211","author":"Lee","year":"2015","journal-title":"J Infect Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0065","doi-asserted-by":"crossref","first-page":"212","DOI":"10.1016\/S0140-6736(03)15332-9","article-title":"Proportion of tuberculosis transmission that takes place in households in a high-incidence area","volume":"363","author":"Verver","year":"2004","journal-title":"Lancet"},{"key":"key\n\t\t\t\t20180306120625_CIT0066","doi-asserted-by":"crossref","first-page":"53","DOI":"10.1093\/infdis\/jiu403","article-title":"Transmission of tuberculosis in a South African community with a high prevalence of HIV infection","volume":"211","author":"Middelkoop","year":"2015","journal-title":"J Infect Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0067","doi-asserted-by":"crossref","first-page":"1327","DOI":"10.1093\/aje\/kwx025","article-title":"Transmission of Mycobacterium tuberculosis in households and the community: a systematic review and meta-analysis","volume":"185","author":"Martinez","year":"2017","journal-title":"Am J Epidemiol"},{"key":"key\n\t\t\t\t20180306120625_CIT0068","doi-asserted-by":"crossref","first-page":"e0132840","DOI":"10.1371\/journal.pone.0132840","article-title":"Whole genome sequencing shows a low proportion of tuberculosis disease is attributable to known close contacts in rural Malawi","volume":"10","author":"Glynn","year":"2015","journal-title":"PLoS One"},{"key":"key\n\t\t\t\t20180306120625_CIT0069","doi-asserted-by":"crossref","first-page":"845","DOI":"10.1164\/rccm.201310-1846OC","article-title":"Timing of tuberculosis transmission and the impact of household contact tracing. An agent-based simulation model","volume":"189","author":"Kasaie","year":"2014","journal-title":"Am J Respir Crit Care Med"},{"key":"key\n\t\t\t\t20180306120625_CIT0070","first-page":"585","article-title":"Nosocomial transmission of multidrug-resistant tuberculosis among HIV-infected persons--Florida and New York, 1988\u20131991","volume":"40","author":"Control","year":"1991","journal-title":"MMWR Morb Mortal Wkly Rep"},{"key":"key\n\t\t\t\t20180306120625_CIT0071","doi-asserted-by":"crossref","first-page":"1229","DOI":"10.1001\/jama.1996.03540150031027","article-title":"A multi-institutional outbreak of highly drug-resistant tuberculosis: epidemiology and clinical outcomes","volume":"276","author":"Frieden","year":"1996","journal-title":"JAMA"},{"key":"key\n\t\t\t\t20180306120625_CIT0072","doi-asserted-by":"crossref","first-page":"125","DOI":"10.3201\/eid0202.960208","article-title":"Nosocomial transmission of multidrug-resistant Mycobacterium tuberculosis in Spain","volume":"2","author":"Rull\u00e1n","year":"1996","journal-title":"Emerg Infect Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0073","doi-asserted-by":"crossref","first-page":"1095","DOI":"10.1097\/00002030-199809000-00018","article-title":"An outbreak of multidrug-resistant tuberculosis involving HIV-infected patients of two hospitals in Milan, Italy. Italian Multidrug-Resistant Tuberculosis Outbreak Study Group","volume":"12","author":"Moro","year":"1998","journal-title":"AIDS"},{"key":"key\n\t\t\t\t20180306120625_CIT0074","doi-asserted-by":"crossref","first-page":"9","DOI":"10.1093\/infdis\/jis631","article-title":"Nosocomial transmission of extensively drug-resistant tuberculosis in a rural hospital in South Africa","volume":"207","author":"Gandhi","year":"2013","journal-title":"J Infect Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0075","doi-asserted-by":"crossref","first-page":"1570","DOI":"10.1056\/NEJM198612183152502","article-title":"Exogenous reinfection with tuberculosis in a shelter for the homeless","volume":"315","author":"Nardell","year":"1986","journal-title":"N Engl J Med"},{"key":"key\n\t\t\t\t20180306120625_CIT0076","doi-asserted-by":"crossref","first-page":"151","DOI":"10.1093\/infdis\/170.1.151","article-title":"Multidrug-resistant tuberculosis in the New York State prison system, 1990\u20131991","volume":"170","author":"Valway","year":"1994","journal-title":"J Infect Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0077","doi-asserted-by":"crossref","first-page":"e1000381","DOI":"10.1371\/journal.pmed.1000381","article-title":"Tuberculosis incidence in prisons: a systematic review","volume":"7","author":"Baussano","year":"2010","journal-title":"PLoS Med"},{"key":"key\n\t\t\t\t20180306120625_CIT0078","doi-asserted-by":"crossref","first-page":"496","DOI":"10.3201\/eid2303.161006","article-title":"Increase in tuberculosis cases among prisoners, Brazil, 2009-2014(1)","volume":"23","author":"Bourdillon","year":"2017","journal-title":"Emerg Infect Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0079","first-page":"186","article-title":"[The epidemiological advantage of preferential targeting of tuberculosis control at the poor]","volume":"38","author":"Andrews","year":"2015","journal-title":"Rev Panam Salud Publica"},{"key":"key\n\t\t\t\t20180306120625_CIT0080","doi-asserted-by":"crossref","first-page":"30","DOI":"10.4269\/ajtmh.2011.10-0472","article-title":"Addressing institutional amplifiers in the dynamics and control of tuberculosis epidemics","volume":"84","author":"Basu","year":"2011","journal-title":"Am J Trop Med Hyg"},{"key":"key\n\t\t\t\t20180306120625_CIT0081","doi-asserted-by":"crossref","first-page":"9557","DOI":"10.1073\/pnas.1203517109","article-title":"Heterogeneity in tuberculosis transmission and the role of geographic hotspots in propagating epidemics","volume":"109","author":"Dowdy","year":"2012","journal-title":"Proc Natl Acad Sci U S A"},{"key":"key\n\t\t\t\t20180306120625_CIT0082","first-page":"3","article-title":"Distribution of tuberculosis infection and disease in clusters in rural households","volume":"18","author":"Nair","year":"1971","journal-title":"Ind J Tuberc"},{"key":"key\n\t\t\t\t20180306120625_CIT0083","first-page":"194","article-title":"Tuberculosis and gender: exploring the patterns in a case control study in Malawi","volume":"8","author":"Crampin","year":"2004","journal-title":"Int J Tuberc Lung Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0084","doi-asserted-by":"crossref","first-page":"729","DOI":"10.3201\/eid1205.050789","article-title":"Tuberculosis transmission attributable to close contacts and HIV status, Malawi","volume":"12","author":"Crampin","year":"2006","journal-title":"Emerg Infect Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0085","doi-asserted-by":"crossref","first-page":"747","DOI":"10.1046\/j.1365-3156.1997.d01-386.x","article-title":"Molecular epidemiology and transmission dynamics of Mycobacterium tuberculosis in rural Africa","volume":"2","author":"Wilkinson","year":"1997","journal-title":"Trop Med Int Health"},{"key":"key\n\t\t\t\t20180306120625_CIT0086","doi-asserted-by":"crossref","first-page":"1466","DOI":"10.3201\/eid1609.100281","article-title":"Tuberculosis acquired outside of households, rural Vietnam","volume":"16","author":"Buu","year":"2010","journal-title":"Emerg Infect Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0087","doi-asserted-by":"crossref","first-page":"1582","DOI":"10.1093\/infdis\/jir162","article-title":"Epidemiologic inference from the distribution of tuberculosis cases in households in Lima, Peru","volume":"203","author":"Brooks-Pollock","year":"2011","journal-title":"J Infect Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0088","doi-asserted-by":"crossref","first-page":"e106622","DOI":"10.1371\/journal.pone.0106622","article-title":"Quantification of shared air: a social and environmental determinant of airborne disease transmission","volume":"9","author":"Wood","year":"2014","journal-title":"PLoS One"},{"key":"key\n\t\t\t\t20180306120625_CIT0089","doi-asserted-by":"crossref","first-page":"537","DOI":"10.1111\/tmi.12459","article-title":"Identifying locations of recent TB transmission in rural Uganda: a multidisciplinary approach","volume":"20","author":"Chamie","year":"2015","journal-title":"Trop Med Int Health"},{"key":"key\n\t\t\t\t20180306120625_CIT0090","doi-asserted-by":"crossref","first-page":"e77740","DOI":"10.1371\/journal.pone.0077740","article-title":"Association between socioeconomic position and tuberculosis in a large population-based study in rural Malawi","volume":"8","author":"Odone","year":"2013","journal-title":"PLoS One"},{"key":"key\n\t\t\t\t20180306120625_CIT0091","doi-asserted-by":"crossref","first-page":"764","DOI":"10.5588\/ijtld.12.0681","article-title":"Household ventilation and tuberculosis transmission in Kampala, Uganda","volume":"17","author":"Chamie","year":"2013","journal-title":"Int J Tuberc Lung Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0092","doi-asserted-by":"crossref","first-page":"32","DOI":"10.1093\/ije\/14.1.32","article-title":"Sick individuals and sick populations","volume":"14","author":"Rose","year":"1985","journal-title":"Int J Epidemiol"},{"key":"key\n\t\t\t\t20180306120625_CIT0093","doi-asserted-by":"crossref","first-page":"1859","DOI":"10.1097\/QAD.0b013e3283097cfa","article-title":"Effects of duration of HIV infection and secondary tuberculosis transmission on tuberculosis incidence in the South African gold mines","volume":"22","author":"Glynn","year":"2008","journal-title":"AIDS"},{"key":"key\n\t\t\t\t20180306120625_CIT0094","doi-asserted-by":"crossref","first-page":"2109","DOI":"10.1097\/01.aids.0000194808.20035.c1","article-title":"Tuberculosis among HIV-infected patients receiving HAART: long term incidence and risk factors in a South African cohort","volume":"19","author":"Lawn","year":"2005","journal-title":"AIDS"},{"key":"key\n\t\t\t\t20180306120625_CIT0095","doi-asserted-by":"crossref","first-page":"933","DOI":"10.5588\/ijtld.10.0666","article-title":"Reduced tuberculosis case notification associated with scaling up antiretroviral treatment in rural Malawi","volume":"15","author":"Zachariah","year":"2011","journal-title":"Int J Tuberc Lung Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0096","doi-asserted-by":"crossref","first-page":"1714","DOI":"10.5588\/ijtld.11.0545","article-title":"The impact of antiretroviral treatment programs on tuberculosis notification rates","volume":"15","author":"Middelkoop","year":"2011","journal-title":"Int J Tuberc Lung Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0097","doi-asserted-by":"crossref","first-page":"1037","DOI":"10.1086\/591504","article-title":"Progression to active tuberculosis, but not transmission, varies by Mycobacterium tuberculosis lineage in The Gambia","volume":"198","author":"de Jong","year":"2008","journal-title":"J Infect Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0098","doi-asserted-by":"crossref","first-page":"736","DOI":"10.3201\/eid1205.050400","article-title":"Beijing\/W genotype Mycobacterium tuberculosis and drug resistance","volume":"12","author":"Glynn","year":"2006","journal-title":"Emerg Infect Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0099","doi-asserted-by":"crossref","first-page":"782","DOI":"10.1016\/j.meegid.2011.10.013","article-title":"Tuberculosis genotyping information management system: enhancing tuberculosis surveillance in the United States","volume":"12","author":"Ghosh","year":"2012","journal-title":"Infect Genet Evol"},{"key":"key\n\t\t\t\t20180306120625_CIT0100","doi-asserted-by":"crossref","first-page":"594","DOI":"10.1186\/s12879-016-1937-9","article-title":"Validation of genotype cluster investigations for Mycobacterium tuberculosis: application results for 44 clusters from four heterogeneous United States jurisdictions","volume":"16","author":"Teeter","year":"2016","journal-title":"BMC Infect Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0101","doi-asserted-by":"crossref","first-page":"1139","DOI":"10.5588\/ijtld.12.0385","article-title":"Burden of tuberculosis in indigenous peoples globally: a systematic review","volume":"17","author":"Tollefson","year":"2013","journal-title":"Int J Tuberc Lung Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0102","doi-asserted-by":"crossref","first-page":"13609","DOI":"10.1073\/pnas.1507071112","article-title":"Population genomics of Mycobacterium tuberculosis in the Inuit","volume":"112","author":"Lee","year":"2015","journal-title":"Proc Natl Acad Sci U S A"},{"key":"key\n\t\t\t\t20180306120625_CIT0103","doi-asserted-by":"crossref","first-page":"597","DOI":"10.1093\/infdis\/jiu138","article-title":"Integrating social contact and environmental data in evaluating tuberculosis transmission in a South African township","volume":"210","author":"Andrews","year":"2014","journal-title":"J Infect Dis"},{"key":"key\n\t\t\t\t20180306120625_CIT0104","doi-asserted-by":"crossref","first-page":"87","DOI":"10.1164\/rccm.200606-759OC","article-title":"Undiagnosed tuberculosis in a community with high HIV prevalence: implications for tuberculosis control","volume":"175","author":"Wood","year":"2007","journal-title":"Am J Respir Crit Care Med"}],"container-title":["The Journal of Infectious Diseases"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/academic.oup.com\/jid\/article-pdf\/216\/suppl_6\/S644\/24264630\/jix354.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2020,10,13]],"date-time":"2020-10-13T08:15:06Z","timestamp":1602576906000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/jid\/article\/216\/suppl_6\/S644\/4589580"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2017,10,1]]},"references-count":104,"journal-issue":{"issue":"suppl_6","published-online":{"date-parts":[[2017,11,3]]},"published-print":{"date-parts":[[2017,11,3]]}},"URL":"https:\/\/doi.org\/10.1093\/infdis\/jix354","relation":{},"ISSN":["0022-1899","1537-6613"],"issn-type":[{"value":"0022-1899","type":"print"},{"value":"1537-6613","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2017,10,1]]},"published":{"date-parts":[[2017,10,1]]}}}