TY - JOUR AU - Huang, C. AU - Wang, Y. AU - Li, X. AU - Ren, L. AU - Zhao, J. AU - Hu, Y. PY - 2020 DA - 2020// TI - Clinical features of patients infected with 2019 novel coronavirus in Wuhan, China JO - Lancet (London, England) VL - 395 UR - https://doi.org/10.1016/S0140-6736(20)30183-5 DO - 10.1016/S0140-6736(20)30183-5 ID - Huang2020 ER - TY - JOUR AU - Li, Q. AU - Guan, X. AU - Wu, P. AU - Wang, X. AU - Zhou, L. AU - Tong, Y. PY - 2020 DA - 2020// TI - Early transmission dynamics in Wuhan, China, of novel coronavirus-infected pneumonia JO - N Engl J Med VL - 382 UR - https://doi.org/10.1056/NEJMoa2001316 DO - 10.1056/NEJMoa2001316 ID - Li2020 ER - TY - JOUR AU - Zhao, S. AU - Musa, S. S. AU - Lin, Q. AU - Ran, J. AU - Yang, G. AU - Wang, W. PY - 2020 DA - 2020// TI - Estimating the unreported number of novel coronavirus (2019-nCoV) cases in China in the first half of January 2020: a data-driven Modelling analysis of the early outbreak JO - J Clin Med VL - 9 UR - https://doi.org/10.3390/jcm9020388 DO - 10.3390/jcm9020388 ID - Zhao2020 ER - TY - JOUR AU - Leung, K. AU - Wu, J. T. AU - Liu, D. AU - Leung, G. M. PY - 2020 DA - 2020// TI - First-wave COVID-19 transmissibility and severity in China outside Hubei after control measures, and second-wave scenario planning: a modelling impact assessment JO - Lancet (London, England) VL - 395 UR - https://doi.org/10.1016/S0140-6736(20)30746-7 DO - 10.1016/S0140-6736(20)30746-7 ID - Leung2020 ER - TY - JOUR AU - Parry, J. PY - 2020 DA - 2020// TI - China coronavirus: cases surge as official admits human to human transmission JO - BMJ (Clin Res ed) VL - 368 ID - Parry2020 ER - TY - JOUR AU - Wu, J. T. AU - Leung, K. AU - Leung, G. M. PY - 2020 DA - 2020// TI - Nowcasting and forecasting the potential domestic and international spread of the 2019-nCoV outbreak originating in Wuhan, China: a modelling study JO - Lancet (London, England) VL - 395 UR - https://doi.org/10.1016/S0140-6736(20)30260-9 DO - 10.1016/S0140-6736(20)30260-9 ID - Wu2020 ER - TY - STD TI - Zhao S, Zhuang Z, Cao P, Ran J, Gao D, Lou Y, et al. Quantifying the association between domestic travel and the exportation of novel coronavirus (2019-nCoV) cases from Wuhan, China in 2020: a correlational analysis. J Travel Med. 2020;27(2):taaa022. ID - ref7 ER - TY - STD TI - World Health Organization. Statement on the second meeting of the International Health Regulations Emergency Committee regarding the outbreak of novel coronavirus (2019-nCoV), World Health Organization (WHO). 2020 [Available from: https://www.who.int/news-room/detail/30-01-2020-statement-on-the-second-meeting-of-the-international-health-regulations-(2005)-emergency-committee-regarding-the-outbreak-of-novel-coronavirus-(2019-ncov). UR - https://www.who.int/news-room/detail/30-01-2020-statement-on-the-second-meeting-of-the-international-health-regulations-(2005)-emergency-committee-regarding-the-outbreak-of-novel-coronavirus-(2019-ncov ID - ref8 ER - TY - STD TI - World Health Organization. Novel Coronavirus (2019-nCoV) situation reports, released by the World Health Organization (WHO). 2020 [Available from: https://www.who.int/emergencies/diseases/novel-coronavirus-2019/situation-reports. UR - https://www.who.int/emergencies/diseases/novel-coronavirus-2019/situation-reports ID - ref9 ER - TY - JOUR AU - Tuite, A. R. AU - Fisman, D. N. PY - 2020 DA - 2020// TI - Reporting, epidemic growth, and reproduction numbers for the 2019 novel coronavirus (2019-nCoV) epidemic JO - Ann Intern Med VL - 172 UR - https://doi.org/10.7326/M20-0358 DO - 10.7326/M20-0358 ID - Tuite2020 ER - TY - STD TI - Zhao S, Cao P, Gao D, Zhuang Z, Cai Y, Ran J, et al. Serial interval in determining the estimation of reproduction number of the novel coronavirus disease (COVID-19) during the early outbreak. J Travel Med. 2020;27(3):taaa033. ID - ref11 ER - TY - STD TI - Riou J, Althaus CL. Pattern of early human-to-human transmission of Wuhan 2019 novel coronavirus (2019-nCoV), December 2019 to January 2020. Euro Surv. 2020;25(4):2000058. ID - ref12 ER - TY - STD TI - Zhao S. To avoid the noncausal association between environmental factor and COVID-19 when using aggregated data: simulation-based counterexamples for demonstration. Sci Total Environ. 2020:141590. ID - ref13 ER - TY - JOUR AU - Kutter, J. S. AU - Spronken, M. I. AU - Fraaij, P. L. AU - Fouchier, R. A. AU - Herfst, S. PY - 2018 DA - 2018// TI - Transmission routes of respiratory viruses among humans JO - Curr Opin Virol VL - 28 UR - https://doi.org/10.1016/j.coviro.2018.01.001 DO - 10.1016/j.coviro.2018.01.001 ID - Kutter2018 ER - TY - JOUR AU - Lau, H. AU - Khosrawipour, V. AU - Kocbach, P. AU - Mikolajczyk, A. AU - Schubert, J. AU - Bania, J. PY - 2020 DA - 2020// TI - The positive impact of lockdown in Wuhan on containing the COVID-19 outbreak in China JO - J Travel Med VL - 27 UR - https://doi.org/10.1093/jtm/taaa037 DO - 10.1093/jtm/taaa037 ID - Lau2020 ER - TY - JOUR AU - Zhao, S. AU - Musa, S. S. AU - Hebert, J. T. AU - Cao, P. AU - Ran, J. AU - Meng, J. PY - 2020 DA - 2020// TI - Modelling the effective reproduction number of vector-borne diseases: the yellow fever outbreak in Luanda, Angola 2015-2016 as an example JO - PeerJ. VL - 8 UR - https://doi.org/10.7717/peerj.8601 DO - 10.7717/peerj.8601 ID - Zhao2020 ER - TY - JOUR AU - Baum, A. AU - Fulton, B. O. AU - Wloga, E. AU - Copin, R. AU - Pascal, K. E. AU - Russo, V. PY - 2020 DA - 2020// TI - Antibody cocktail to SARS-CoV-2 spike protein prevents rapid mutational escape seen with individual antibodies JO - Science. VL - 369 UR - https://doi.org/10.1126/science.abd0831 DO - 10.1126/science.abd0831 ID - Baum2020 ER - TY - JOUR AU - Dorp, L. AU - Acman, M. AU - Richard, D. AU - Shaw, L. P. AU - Ford, C. E. AU - Ormond, L. PY - 2020 DA - 2020// TI - Emergence of genomic diversity and recurrent mutations in SARS-CoV-2 JO - Infect Genet Evol VL - 83 UR - https://doi.org/10.1016/j.meegid.2020.104351 DO - 10.1016/j.meegid.2020.104351 ID - Dorp2020 ER - TY - STD TI - Wan Y, Shang J, Graham R, Baric RS, Li F. Receptor Recognition by the Novel Coronavirus from Wuhan: an Analysis Based on Decade-Long Structural Studies of SARS Coronavirus. J Virol. 2020;94(7). ID - ref19 ER - TY - STD TI - Benvenuto D, Demir AB, Giovanetti M, Bianchi M, Angeletti S, Pascarella S, et al. Evidence for mutations in SARS-CoV-2 Italian isolates potentially affecting virus transmission. J Med Virol. 2020. ID - ref20 ER - TY - JOUR AU - Rimmelzwaan, G. F. AU - Berkhoff, E. G. M. AU - Nieuwkoop, N. J. AU - Fouchier, R. A. M. AU - Osterhaus, A. PY - 2004 DA - 2004// TI - Functional compensation of a detrimental amino acid substitution in a cytotoxic-T-lymphocyte epitope of influenza a viruses by comutations JO - J Virol VL - 78 UR - https://doi.org/10.1128/JVI.78.16.8946-8949.2004 DO - 10.1128/JVI.78.16.8946-8949.2004 ID - Rimmelzwaan2004 ER - TY - JOUR AU - Rimmelzwaan, G. F. AU - Berkhoff, E. G. M. AU - Nieuwkoop, N. J. AU - Smith, D. J. AU - Fouchier, R. A. M. AU - Osterhaus, A. PY - 2005 DA - 2005// TI - Full restoration of viral fitness by multiple compensatory co-mutations in the nucleoprotein of influenza a virus cytotoxic T-lymphocyte escape mutants JO - J Gen Virol VL - 86 UR - https://doi.org/10.1099/vir.0.80867-0 DO - 10.1099/vir.0.80867-0 ID - Rimmelzwaan2005 ER - TY - JOUR AU - Gog, J. R. AU - Rimmelzwaan, G. F. AU - Osterhaus, A. D. M. E. AU - Grenfell, B. T. PY - 2003 DA - 2003// TI - Population dynamics of rapid fixation in cytotoxic T lymphocyte escape mutants of influenza a JO - Proc Natl Acad Sci VL - 100 UR - https://doi.org/10.1073/pnas.1830296100 DO - 10.1073/pnas.1830296100 ID - Gog2003 ER - TY - STD TI - Shu Y, McCauley J. GISAID: global initiative on sharing all influenza data–from vision to reality. Euro Surv. 2017;22(13):30494. ID - ref24 ER - TY - STD TI - Wu T, Ge X, Yu G, Hu E. Open-source analytics tools for studying the COVID-19 coronavirus outbreak. medRxiv. 2020:2020.02.25.20027433. ID - ref25 ER - TY - JOUR AU - Cori, A. AU - Ferguson, N. M. AU - Fraser, C. AU - Cauchemez, S. PY - 2013 DA - 2013// TI - A new framework and software to estimate time-varying reproduction numbers during epidemics JO - Am J Epidemiol VL - 178 UR - https://doi.org/10.1093/aje/kwt133 DO - 10.1093/aje/kwt133 ID - Cori2013 ER - TY - JOUR AU - Wallinga, J. AU - Teunis, P. PY - 2004 DA - 2004// TI - Different epidemic curves for severe acute respiratory syndrome reveal similar impacts of control measures JO - Am J Epidemiol VL - 160 UR - https://doi.org/10.1093/aje/kwh255 DO - 10.1093/aje/kwh255 ID - Wallinga2004 ER - TY - JOUR AU - Ferretti, L. AU - Wymant, C. AU - Kendall, M. AU - Zhao, L. AU - Nurtay, A. AU - Abeler-Dorner, L. PY - 2020 DA - 2020// TI - Quantifying SARS-CoV-2 transmission suggests epidemic control with digital contact tracing JO - Science VL - 368 UR - https://doi.org/10.1126/science.abb6936 DO - 10.1126/science.abb6936 ID - Ferretti2020 ER - TY - STD TI - He X, Lau EHY, Wu P, Deng X, Wang J, Hao X, et al. Temporal dynamics in viral shedding and transmissibility of COVID-19. Nat Med. 2020;26(5):672-5. ID - ref29 ER - TY - JOUR AU - Zhao, S. PY - 2020 DA - 2020// TI - Estimating the time interval between transmission generations when negative values occur in the serial interval data: using COVID-19 as an example JO - Math Biosci Eng VL - 17 UR - https://doi.org/10.3934/mbe.2020198 DO - 10.3934/mbe.2020198 ID - Zhao2020 ER - TY - JOUR AU - Ganyani, T. AU - Kremer, C. AU - Chen, D. AU - Torneri, A. AU - Faes, C. AU - Wallinga, J. PY - 2020 DA - 2020// TI - Estimating the generation interval for coronavirus disease (COVID-19) based on symptom onset data, March 2020 JO - Euro Surv VL - 25 ID - Ganyani2020 ER - TY - JOUR AU - Tindale, L. C. AU - Stockdale, J. E. AU - Coombe, M. AU - Garlock, E. S. AU - Lau, W. Y. V. AU - Saraswat, M. PY - 2020 DA - 2020// TI - Evidence for transmission of COVID-19 prior to symptom onset JO - Elife. VL - 9 UR - https://doi.org/10.7554/eLife.57149 DO - 10.7554/eLife.57149 ID - Tindale2020 ER - TY - STD TI - Zhao S, Gao D, Zhuang Z, Chong MKC, Cai Y, Ran J, et al. Estimating the serial interval of the novel coronavirus disease (COVID-19): a statistical analysis using the public data in Hong Kong from January 16 to February 15, 2020. Front Phys. 2020;8:347. ID - ref33 ER - TY - STD TI - Wang K, Zhao S, Liao Y, Zhao T, Wang X, Zhang X, et al. Estimating the serial interval of the novel coronavirus disease (COVID-19) based on the public surveillance data in Shenzhen, China, from 19 January to 2020. Transbound Emerg Dis. 2020;67(6):2818-22 ID - ref34 ER - TY - STD TI - Ma S, Zhang J, Zeng M, Yun Q, Guo W, Zheng Y, et al. Epidemiological parameters of coronavirus disease 2019: a case series study. J Med Internet Res. 2020;22(10):e19994. ID - ref35 ER - TY - STD TI - Wang MH, Lou J, Cao L, Zhao S, Chan PKS, Chan MC-W, et al. Characterization of the evolutionary dynamics of influenza A H3N2 hemagglutinin. bioRxiv. 2020:2020.06.16.155994. ID - ref36 ER - TY - STD TI - Wang MH, Lou J, Zee BCY, Chong KC. US Provisional Patent No. 62/687645, 2019 PCT/CN2019/091652. Measurement and Prediction on Influenza Virus Genetic Mutation Patterns. . US Patent. 2018. ID - ref37 ER - TY - JOUR AU - Zhao, S. AU - Lou, J. AU - Cao, L. AU - Chen, Z. AU - Chan, R. W. AU - Chong, M. K. PY - 2020 DA - 2020// TI - Quantifying the importance of the key sites on haemagglutinin in determining the selection advantage of influenza virus: using a/H3N2 as an example JO - J Inf Secur VL - 81 ID - Zhao2020 ER - TY - STD TI - Lou J, Zhao S, Cao L, Chong MK, Chan RW, Chan PK, et al. Predicting the dominant influenza A serotype by quantifying mutation activities. Int J Infect Dis. 2020;100:255-7. ID - ref39 ER - TY - JOUR AU - Ali, S. T. AU - Kadi, A. AU - Ferguson, N. M. PY - 2013 DA - 2013// TI - Transmission dynamics of the 2009 influenza a (H1N1) pandemic in India: the impact of holiday-related school closure JO - Epidemics. VL - 5 UR - https://doi.org/10.1016/j.epidem.2013.08.001 DO - 10.1016/j.epidem.2013.08.001 ID - Ali2013 ER - TY - JOUR AU - Lloyd-Smith, J. O. AU - Schreiber, S. J. AU - Kopp, P. E. AU - Getz, W. M. PY - 2005 DA - 2005// TI - Superspreading and the effect of individual variation on disease emergence JO - Nature. VL - 438 UR - https://doi.org/10.1038/nature04153 DO - 10.1038/nature04153 ID - Lloyd-Smith2005 ER - TY - JOUR AU - Ali, S. T. AU - Wang, L. AU - Lau, E. H. Y. AU - Xu, X. K. AU - Du, Z. W. AU - Wu, Y. PY - 2020 DA - 2020// TI - Serial interval of SARS-CoV-2 was shortened over time by nonpharmaceutical interventions JO - Science. VL - 369 UR - https://doi.org/10.1126/science.abc9004 DO - 10.1126/science.abc9004 ID - Ali2020 ER - TY - JOUR AU - Chinazzi, M. AU - Davis, J. T. AU - Ajelli, M. AU - Gioannini, C. AU - Litvinova, M. AU - Merler, S. PY - 2020 DA - 2020// TI - The effect of travel restrictions on the spread of the 2019 novel coronavirus (COVID-19) outbreak JO - Science. VL - 368 UR - https://doi.org/10.1126/science.aba9757 DO - 10.1126/science.aba9757 ID - Chinazzi2020 ER - TY - JOUR AU - Gatto, M. AU - Bertuzzo, E. AU - Mari, L. AU - Miccoli, S. AU - Carraro, L. AU - Casagrandi, R. PY - 2020 DA - 2020// TI - Spread and dynamics of the COVID-19 epidemic in Italy: effects of emergency containment measures JO - Proc Natl Acad Sci U S A VL - 117 UR - https://doi.org/10.1073/pnas.2004978117 DO - 10.1073/pnas.2004978117 ID - Gatto2020 ER - TY - STD TI - Jung SM, Akhmetzhanov AR, Hayashi K, Linton NM, Yang Y, Yuan B, et al. Real-Time Estimation of the Risk of Death from Novel Coronavirus (COVID-19) Infection: Inference Using Exported Cases. J Clin Med. 2020;9(2):523. ID - ref45 ER - TY - JOUR AU - Musa, S. S. AU - Zhao, S. AU - Wang, M. H. AU - Habib, A. G. AU - Mustapha, U. T. AU - He, D. PY - 2020 DA - 2020// TI - Estimation of exponential growth rate and basic reproduction number of the coronavirus disease 2019 (COVID-19) in Africa JO - Infect Dis Poverty VL - 9 UR - https://doi.org/10.1186/s40249-020-00718-y DO - 10.1186/s40249-020-00718-y ID - Musa2020 ER - TY - JOUR AU - Ran, J. AU - Zhao, S. AU - Han, L. AU - Liao, G. AU - Wang, K. AU - Wang, M. H. PY - 2020 DA - 2020// TI - A re-analysis in exploring the association between temperature and COVID-19 transmissibility: an ecological study with 154 Chinese cities JO - Eur Respir J VL - 56 UR - https://doi.org/10.1183/13993003.01253-2020 DO - 10.1183/13993003.01253-2020 ID - Ran2020 ER - TY - STD TI - Xu XK, Liu XF, Wu Y, Ali ST, Du Z, Bosetti P, et al. Reconstruction of transmission pairs for novel coronavirus disease 2019 (COVID-19) in mainland China: estimation of super-spreading events, serial interval, and hazard of infection. Clin Infect Dis. 2020;71(12):3163–7. ID - ref48 ER - TY - STD TI - Korber B, Fischer WM, Gnanakaran S, Yoon H, Theiler J, Abfalterer W, et al. Tracking Changes in SARS-CoV-2 Spike: Evidence that D614G Increases Infectivity of the COVID-19 Virus. Cell. 2020;182(4):812–27. ID - ref49 ER - TY - JOUR AU - Yurkovetskiy, L. AU - Wang, X. AU - Pascal, K. E. AU - Tomkins-Tinch, C. AU - Nyalile, T. P. AU - Wang, Y. PY - 2020 DA - 2020// TI - Structural and functional analysis of the D614G SARS-CoV-2 spike protein variant JO - Cell. VL - 183 UR - https://doi.org/10.1016/j.cell.2020.09.032 DO - 10.1016/j.cell.2020.09.032 ID - Yurkovetskiy2020 ER - TY - STD TI - Volz E, Hill V, McCrone JT, Price A, Jorgensen D, O’Toole Á, et al. Evaluating the effects of SARS-CoV-2 spike mutation D614G on transmissibility and pathogenicity. Cell. 2020;184(1):64-75. ID - ref51 ER - TY - JOUR AU - Koel, B. F. AU - Burke, D. F. AU - Bestebroer, T. M. AU - Vliet, S. AU - Zondag, G. C. AU - Vervaet, G. PY - 2013 DA - 2013// TI - Substitutions near the receptor binding site determine major antigenic change during influenza virus evolution JO - Science. VL - 342 UR - https://doi.org/10.1126/science.1244730 DO - 10.1126/science.1244730 ID - Koel2013 ER - TY - JOUR AU - Zhao, S. AU - Cao, P. AU - Chong, M. K. C. AU - Gao, D. AU - Lou, Y. AU - Ran, J. PY - 2020 DA - 2020// TI - COVID-19 and gender-specific difference: analysis of public surveillance data in Hong Kong and Shenzhen, China, from January 10 to February 15, 2020 JO - Infect Control Hosp Epidemiol VL - 41 UR - https://doi.org/10.1017/ice.2020.64 DO - 10.1017/ice.2020.64 ID - Zhao2020 ER -