{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,1]],"date-time":"2026-04-01T03:12:16Z","timestamp":1775013136389,"version":"3.50.1"},"reference-count":40,"publisher":"Elsevier BV","license":[{"start":{"date-parts":[[2017,12,1]],"date-time":"2017-12-01T00:00:00Z","timestamp":1512086400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2017,12,1]],"date-time":"2017-12-01T00:00:00Z","timestamp":1512086400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2017,4,24]],"date-time":"2017-04-24T00:00:00Z","timestamp":1492992000000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":["clinicalkey.com","clinicalkey.com.au","clinicalkey.es","clinicalkey.fr","clinicalkey.jp","elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Epidemics"],"published-print":{"date-parts":[[2017,12]]},"DOI":"10.1016\/j.epidem.2017.04.004","type":"journal-article","created":{"date-parts":[[2017,5,1]],"date-time":"2017-05-01T11:15:49Z","timestamp":1493637349000},"page":"21-29","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":11,"special_numbering":"C","title":["Inferring epidemiological dynamics of infectious diseases using Tajima's D statistic on nucleotide sequences of pathogens"],"prefix":"10.1016","volume":"21","author":[{"given":"Kiyeon","family":"Kim","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Ryosuke","family":"Omori","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Kimihito","family":"Ito","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"78","reference":[{"key":"10.1016\/j.epidem.2017.04.004_bib0005","doi-asserted-by":"crossref","first-page":"1058","DOI":"10.1128\/JVI.00936-10","article-title":"Genetic and phylogenetic analyses of influenza A H1N1pdm virus in Buenos Aires, Argentina","volume":"85","author":"Barrero","year":"2011","journal-title":"J. Virol."},{"issue":"5","key":"10.1016\/j.epidem.2017.04.004_bib0010","doi-asserted-by":"crossref","first-page":"e1000918","DOI":"10.1371\/journal.ppat.1000918","article-title":"Global migration dynamics underlie evolution and persistence of human influenza A (H3N2)","volume":"6","author":"Bedford","year":"2010","journal-title":"PLoS Pathog."},{"key":"10.1016\/j.epidem.2017.04.004_bib0015","doi-asserted-by":"crossref","first-page":"220","DOI":"10.1186\/1471-2148-11-220","article-title":"Strength and tempo of selection revealed in viral gene genealogies","volume":"11","author":"Bedford","year":"2011","journal-title":"BMC Evol. Biol."},{"key":"10.1016\/j.epidem.2017.04.004_bib0020","doi-asserted-by":"crossref","first-page":"480","DOI":"10.1186\/1471-2334-14-480","article-title":"Estimates of the reproduction number for seasonal, pandemic, and zoonotic influenza: a systematic review of the literature","volume":"14","author":"Biggerstaff","year":"2014","journal-title":"BMC Infect. Dis."},{"issue":"4","key":"10.1016\/j.epidem.2017.04.004_bib0025","doi-asserted-by":"crossref","first-page":"e1003537","DOI":"10.1371\/journal.pcbi.1003537","article-title":"BEAST 2: a software platform for Bayesian evolutionary analysis","volume":"10","author":"Bouckaert","year":"2014","journal-title":"PLoS Comput. Biol."},{"key":"10.1016\/j.epidem.2017.04.004_bib0030","doi-asserted-by":"crossref","first-page":"49","DOI":"10.1016\/j.vaccine.2008.07.039","article-title":"The biology of influenza viruses","volume":"26","author":"Bouvier","year":"2008","journal-title":"Vaccine"},{"key":"10.1016\/j.epidem.2017.04.004_bib0035","doi-asserted-by":"crossref","first-page":"110","DOI":"10.3201\/eid1201.050593","article-title":"Real-time estimates in early detection of SARS","volume":"12","author":"Cauchemez","year":"2006","journal-title":"Emerg. Infect. Dis."},{"key":"10.1016\/j.epidem.2017.04.004_bib0040","doi-asserted-by":"crossref","first-page":"171","DOI":"10.2471\/BLT.13.125724","article-title":"Estimating the measles effective reproduction number in Australia from routine notification data","volume":"92","author":"Chiew","year":"2014","journal-title":"Bull. World Health Organ."},{"key":"10.1016\/j.epidem.2017.04.004_bib0045","article-title":"Mathematical and Statistical Estimation Approaches in Epidemiology","year":"2009"},{"key":"10.1016\/j.epidem.2017.04.004_bib0050","doi-asserted-by":"crossref","first-page":"267","DOI":"10.1038\/nrg2323","article-title":"Rates of evolutionary change in viruses: patterns and determinants","volume":"9","author":"Duffy","year":"2008","journal-title":"Nat. Rev. Genet."},{"key":"10.1016\/j.epidem.2017.04.004_bib0055","doi-asserted-by":"crossref","first-page":"321","DOI":"10.1017\/S0370164600023993","article-title":"On the dominance ratio","volume":"42","author":"Fisher","year":"1922","journal-title":"Proc. R. Soc. Edinb."},{"issue":"8","key":"10.1016\/j.epidem.2017.04.004_bib0060","doi-asserted-by":"crossref","first-page":"e758","DOI":"10.1371\/journal.pone.0000758","article-title":"Estimating individual and household reproduction numbers in an emerging epidemic","volume":"2","author":"Fraser","year":"2007","journal-title":"PLoS ONE"},{"key":"10.1016\/j.epidem.2017.04.004_bib0065","doi-asserted-by":"crossref","first-page":"88","DOI":"10.1016\/j.epidem.2014.09.001","article-title":"Eight challenges in phylodynamic inference","volume":"10","author":"Frost","year":"2015","journal-title":"Epidemics"},{"key":"10.1016\/j.epidem.2017.04.004_bib0070","doi-asserted-by":"crossref","first-page":"327","DOI":"10.1126\/science.1090727","article-title":"Unifying the epidemiological and evolutionary dynamics of pathogens","volume":"303","author":"Grenfell","year":"2004","journal-title":"Science"},{"key":"10.1016\/j.epidem.2017.04.004_bib0075","doi-asserted-by":"crossref","first-page":"66","DOI":"10.4269\/ajtmh.2009.80.66","article-title":"Intervention measures, turning point, and reproduction number for dengue, Singapore, 2005","volume":"80","author":"Hsieh","year":"2009","journal-title":"Am. J. Trop. Med. Hyg."},{"key":"10.1016\/j.epidem.2017.04.004_bib0080","doi-asserted-by":"crossref","first-page":"2015","DOI":"10.1093\/genetics\/155.4.2015","article-title":"The coalescent in an exponentially growing metapopulation and its application to Arabidopsis thaliana","volume":"155","author":"Innan","year":"2000","journal-title":"Genetics"},{"key":"10.1016\/j.epidem.2017.04.004_bib0085","series-title":"Mammalian Protein Metabolism","first-page":"21","article-title":"Evolution of protein molecules","author":"Jukes","year":"1969"},{"key":"10.1016\/j.epidem.2017.04.004_bib0090","doi-asserted-by":"crossref","first-page":"772","DOI":"10.1093\/molbev\/mst010","article-title":"MAFFT multiple sequence alignment software version 7: improvements in performance and usability","volume":"30","author":"Katoh","year":"2013","journal-title":"Mol. Biol. Evol."},{"key":"10.1016\/j.epidem.2017.04.004_bib0095","series-title":"Modeling Infectious Diseases in Humans and Animals","author":"Keeling","year":"2008"},{"issue":"1","key":"10.1016\/j.epidem.2017.04.004_bib0100","doi-asserted-by":"crossref","first-page":"e0147021","DOI":"10.1371\/journal.pone.0147021","article-title":"Host-specific and segment-specific evolutionary dynamics of avian and human influenza A viruses: a systematic review","volume":"11","author":"Kim","year":"2016","journal-title":"PLoS ONE"},{"key":"10.1016\/j.epidem.2017.04.004_bib0105","doi-asserted-by":"crossref","first-page":"289","DOI":"10.1186\/1471-2105-14-289","article-title":"Calculation of Tajima's D and other neutrality test statistics from low depth next-generation sequencing data","volume":"14","author":"Korneliussen","year":"2013","journal-title":"BMC Bioinform."},{"key":"10.1016\/j.epidem.2017.04.004_bib0110","doi-asserted-by":"crossref","first-page":"15324","DOI":"10.1073\/pnas.0306899100","article-title":"Markov chain Monte Carlo without likelihoods","volume":"100","author":"Marjoram","year":"2003","journal-title":"Proc. Natl. Acad. Sci. U. S. A."},{"key":"10.1016\/j.epidem.2017.04.004_bib0115","doi-asserted-by":"crossref","first-page":"181","DOI":"10.1016\/j.tree.2004.01.011","article-title":"Ruminating on complexity: macroparasites of wildlife and livestock","volume":"19","author":"Morgan","year":"2004","journal-title":"Trends Ecol. Evol."},{"key":"10.1016\/j.epidem.2017.04.004_bib0120","doi-asserted-by":"crossref","first-page":"297","DOI":"10.1098\/rsif.2009.0153","article-title":"The ideal reporting interval for an epidemic to objectively interpret the epidemiological time course","volume":"7","author":"Nishiura","year":"2010","journal-title":"J. R. Soc. Interface"},{"key":"10.1016\/j.epidem.2017.04.004_bib0125","doi-asserted-by":"crossref","first-page":"48","DOI":"10.1016\/j.jtbi.2011.10.039","article-title":"Estimating the transmission potential of supercritical processes based on the final size distribution of minor outbreaks","volume":"294","author":"Nishiura","year":"2012","journal-title":"J. Theor. Biol."},{"key":"10.1016\/j.epidem.2017.04.004_bib0130","doi-asserted-by":"crossref","first-page":"2483","DOI":"10.1093\/molbev\/msv123","article-title":"Phylodynamic inference with kernel ABC and its application to HIV epidemiology","volume":"32","author":"Poon","year":"2015","journal-title":"Mol. Biol. Evol."},{"key":"10.1016\/j.epidem.2017.04.004_bib0135","doi-asserted-by":"crossref","first-page":"540","DOI":"10.1038\/nrg2583","article-title":"Evolutionary analysis of the dynamics of viral infectious disease","volume":"10","author":"Pybus","year":"2009","journal-title":"Nat. Rev. Genet."},{"key":"10.1016\/j.epidem.2017.04.004_bib0140","doi-asserted-by":"crossref","first-page":"1429","DOI":"10.1093\/genetics\/155.3.1429","article-title":"An integrated framework for the inference of viral population history from reconstructed genealogies","volume":"155","author":"Pybus","year":"2000","journal-title":"Genetics"},{"issue":"12","key":"10.1016\/j.epidem.2017.04.004_bib0145","doi-asserted-by":"crossref","first-page":"e1002835","DOI":"10.1371\/journal.pcbi.1002835","article-title":"Phylodynamic inference and model assessment with approximate bayesian computation: influenza as a case study","volume":"8","author":"Ratmann","year":"2012","journal-title":"PLoS Comput. Biol."},{"key":"10.1016\/j.epidem.2017.04.004_bib0150","doi-asserted-by":"crossref","first-page":"803","DOI":"10.1007\/s00285-007-0112-8","article-title":"Model-consistent estimation of the basic reproduction number from the incidence of an emerging infection","volume":"55","author":"Roberts","year":"2007","journal-title":"J. Math. Biol."},{"key":"10.1016\/j.epidem.2017.04.004_bib0155","doi-asserted-by":"crossref","first-page":"228","DOI":"10.1073\/pnas.1207965110","article-title":"Birth\u2013death skyline plot reveals temporal changes of epidemic spread in HIV and hepatitis C virus (HCV)","volume":"110","author":"Stadler","year":"2013","journal-title":"Proc. Natl. Acad. Sci. U. S. A."},{"key":"10.1016\/j.epidem.2017.04.004_bib0160","doi-asserted-by":"crossref","first-page":"585","DOI":"10.1093\/genetics\/123.3.585","article-title":"Statistical method for testing the neutral mutation hypothesis by DNA polymorphism","volume":"123","author":"Tajima","year":"1989","journal-title":"Genetics"},{"key":"10.1016\/j.epidem.2017.04.004_bib0165","doi-asserted-by":"crossref","first-page":"597","DOI":"10.1093\/genetics\/123.3.597","article-title":"The effect of change in population size on DNA polymorphism","volume":"123","author":"Tajima","year":"1989","journal-title":"Genetics"},{"key":"10.1016\/j.epidem.2017.04.004_bib0170","doi-asserted-by":"crossref","first-page":"187","DOI":"10.1098\/rsif.2008.0172","article-title":"Approximate Bayesian computation scheme for parameter inference and model selection in dynamical systems","volume":"6","author":"Toni","year":"2009","journal-title":"J. R. Soc. Interface"},{"key":"10.1016\/j.epidem.2017.04.004_bib0175","doi-asserted-by":"crossref","first-page":"131","DOI":"10.1503\/cmaj.091807","article-title":"Estimated epidemiologic parameters and morbidity associated with pandemic H1N1 influenza","volume":"182","author":"Tuite","year":"2010","journal-title":"CMAJ"},{"key":"10.1016\/j.epidem.2017.04.004_bib0180","doi-asserted-by":"crossref","first-page":"1421","DOI":"10.1534\/genetics.109.106021","article-title":"Phylodynamics of infectious disease epidemics","volume":"183","author":"Volz","year":"2009","journal-title":"Genetics"},{"key":"10.1016\/j.epidem.2017.04.004_bib0185","first-page":"599","article-title":"How generation intervals shape the relationship between growth rates and reproductive numbers","volume":"274","author":"Wallinga","year":"2007","journal-title":"Proc. Biol. Sci."},{"key":"10.1016\/j.epidem.2017.04.004_bib0190","doi-asserted-by":"crossref","first-page":"509","DOI":"10.1093\/aje\/kwh255","article-title":"Different epidemic curves for severe acute respiratory syndrome reveal similar impacts of control measures","volume":"160","author":"Wallinga","year":"2004","journal-title":"Am. J. Epidemiol."},{"key":"10.1016\/j.epidem.2017.04.004_bib0195","series-title":"FluNet","author":"WHO","year":"2009"},{"key":"10.1016\/j.epidem.2017.04.004_bib0200","doi-asserted-by":"crossref","first-page":"97","DOI":"10.1093\/genetics\/16.2.97","article-title":"Evolution in Mendelian populations","volume":"16","author":"Wright","year":"1931","journal-title":"Genetics"}],"container-title":["Epidemics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S1755436517300853?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S1755436517300853?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2025,10,29]],"date-time":"2025-10-29T00:38:47Z","timestamp":1761698327000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S1755436517300853"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2017,12]]},"references-count":40,"alternative-id":["S1755436517300853"],"URL":"https:\/\/doi.org\/10.1016\/j.epidem.2017.04.004","relation":{},"ISSN":["1755-4365"],"issn-type":[{"value":"1755-4365","type":"print"}],"subject":[],"published":{"date-parts":[[2017,12]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"Inferring epidemiological dynamics of infectious diseases using Tajima's D statistic on nucleotide sequences of pathogens","name":"articletitle","label":"Article Title"},{"value":"Epidemics","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.epidem.2017.04.004","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2017 The Authors. Published by Elsevier B.V.","name":"copyright","label":"Copyright"}]}}