Incorporating dynamic flight network in SEIR to model mobility between populations
Tóm tắt
Current efforts of modelling COVID-19 are often based on the standard compartmental models such as SEIR and their variations. As pre-symptomatic and asymptomatic cases can spread the disease between populations through travel, it is important to incorporate mobility between populations into the epidemiological modelling. In this work, we propose to modify the commonly-used SEIR model to account for the dynamic flight network, by estimating the imported cases based on the air traffic volume and the test positive rate. We conduct a case study based on data found in Canada to demonstrate how this modification, called Flight-SEIR, can potentially enable (1) early detection of outbreaks due to imported pre-symptomatic and asymptomatic cases, (2) more accurate estimation of the reproduction number and (3) evaluation of the impact of travel restrictions and the implications of lifting these measures. The proposed Flight-SEIR is essential in navigating through this pandemic and the next ones, given how interconnected our world has become.
Tài liệu tham khảo
Abdollahi E, Champredon D, Langley JM, Galvani AP, Moghadas SM (2020) Temporal estimates of case-fatality rate for COVID-19 outbreaks in Canada and the United States. CMAJ 192(25):E666–E670. https://doi.org/10.1503/cmaj.200711
ACAPS: ACAPS COVID-19 (2020) Government measures dataset. https://data.humdata.org/dataset/acaps-covid19-government-measures-dataset. Accessed 2020-07-05
Airlines for America (2020) A impact of COVID-19: data updates. https://www.airlines.org/dataset/impact-of-covid19-data-updates. Accessed 28 Aug 2020
Barabási A-L (2013) Network science. Philos Trans R Soc A Math Phys Eng Sci 371(1987):20120375
Berry I, Soucy J-PR, Tuite A, Fisman D (2020) Open access epidemiologic data and an interactive dashboard to monitor the COVID-19 outbreak in Canada. CMAJ 192(15):E420. https://doi.org/10.1503/cmaj.75262
Block P, Hoffman M, Raabe IJ, Dowd JB, Rahal C, Kashyap R, Mills MC (2020) Social network-based distancing strategies to flatten the COVID-19 curve in a post-lockdown world. Nat Hum Behav 4:588–596. https://doi.org/10.1038/s41562-020-0898-6
Bogoch II, Watts A, Thomas-Bachli A, Huber C, Kraemer MU, Khan K (2020) Potential for global spread of a novel coronavirus from China. J Travel Med 27(2):011
Böttcher L, Antulov-Fantulin N (2020) Unifying continuous, discrete, and hybrid susceptible-infected-recovered processes on networks. Phys Rev Res 2(3):033121
Chinazzi M, Davis JT, Ajelli M, Gioannini C, Litvinova M, Merler S, y Piontti A.P., Mu K., Rossi L., Sun K et al (2020) The effect of travel restrictions on the spread of the 2019 novel coronavirus (COVID-19) outbreak. Science 368(6489):395–400
CTV News (2020a) Confirmed COVID-19 cases in Quebec near 32,000 after missing April data found. https://montreal.ctvnews.ca/confirmed-covid-19-cases-in-quebec-near-32-000-after-missing-april-data-found-1.4922826. Accessed 13 Mar 2021
CTV News (2020b) Active coronavirus cases in Canada Plummet as Quebec changes recovery criteria. https://www.ctvnews.ca/health/coronavirus/active-coronavirus-cases-in-canada-plummet-as-quebec-changes-recovery-criteria-1.5028586. Accessed 13 Mar 2021
Ferguson N, Laydon D, Nedjati Gilani G, Imai N, Ainslie K, Baguelin M, Bhatia S, Boonyasiri A, Cucunuba Perez Z, Cuomo-Dannenburg G et al (2020) Report 9: impact of non-pharmaceutical interventions (NPIS) to reduce COVID19 mortality and healthcare demand
Flightradar24 (2020) Flightradar24. https://www.flightradar24.com/ Accessed 2020-07-05
Government of Canada (2020a) Coronavirus disease (COVID-19): outbreak update. https://www.canada.ca/en/public-health/services/diseases/2019-novel-coronavirus-infection.html#a1. Accessed 13 Sept 2020
Government of Canada (2020b) Population estimates, quarterly. https://www150.statcan.gc.ca/t1/tbl1/en/tv.action?pid=1710000901. Accessed 13 Sept 2020
Int. Trade Administration (2020) Airline capacity. https://legacy.trade.gov/travelindicators/airline-capacity.asp. Accessed 5 July 2020
Katul GG, Mrad A, Bonetti S, Manoli G, Parolari AJ (2020) Global convergence of COVID-19 basic reproduction number and estimation from early-time sir dynamics. medRxiv
Kraemer MU, Yang C-H, Gutierrez B, Wu C-H, Klein B, Pigott DM, Du Plessis L, Faria NR, Li R, Hanage WP et al (2020) The effect of human mobility and control measures on the COVID-19 epidemic in China. Science 368(6490):493–497
Krantz SG, Rao ASS (2020) Level of underreporting including underdiagnosis before the first peak of covid-19 in various countries: Preliminary retrospective results based on wavelets and deterministic modeling. Infect Control Hosp Epidemiol 41(7):857–859
Kucharski AJ, Russell TW, Diamond C, Liu Y, Edmunds J, Funk S, Eggo RM, Sun F, Jit M, Munday JD et al (2020) Early dynamics of transmission and control of COVID-19: a mathematical modelling study. Lancet Infect Dis 20(5):553–558
Lin Q, Zhao S, Gao D, Lou Y, Yang S, Musa SS, Wang MH, Cai Y, Wang W, Yang L et al (2020) A conceptual model for the outbreak of coronavirus disease 2019 (COVID-19) in Wuhan, China with individual reaction and governmental action. Int J Infect Dis 93:211–216
Linka K, Peirlinck M, Kuhl E (2020) The reproduction number of covid-19 and its correlation with public health interventions. medRxiv
Ogden NH, Fazil A, Arino J, Berthiaume P, Fisman DN, Greer AL, Ludwig A, Ng V, Tuite AR, Turgeon P, Waddell LA, Wu J (2020) Modelling scenarios of the epidemic of COVID-19 in Canada. Can Commun Dis Rep 46(6):198–204. https://doi.org/10.14745/ccdr.v46i06a08
Reich O, Shalev G, Kalvari T (2020) Modeling COVID-19 on a network: super-spreaders, testing and containment. medRxiv
Roser M, Ritchie H, Ortiz-Ospina E, Hasell J (2020) Coronavirus Pandemic (COVID-19) Testing. https://ourworldindata.org/coronavirus-testing. Accessed 5 July 2020
Statistics Canada (2020) Table 23-10-0008-01 domestic and international itinerant movements, by type of operation, airports with NAV CANADA towers, monthly. https://www150.statcan.gc.ca/t1/tbl1/en/tv.action?pid=2310000801. Accessed 28 Aug 2020
Tuite AR, Fisman DN, Greer AL (2020) Mathematical modelling of COVID-19 transmission and mitigation strategies in the population of Ontario, Canada. CMAJ 192(19):497–505
U.S.D of Transportation (2020) Passengers all carriers—all airports, flights all carriers—all airports, load factor (passenger-miles as a proportion of available seat-miles in percent all carriers—all airports. https://www.transtats.bts.gov/Data_Elements.aspx?Data=5. Accessed 2020-08-28
Verity R, Okell LC, Dorigatti I, Winskill P, Whittaker C, Imai N, Cuomo-Dannenburg G, Thompson H, Walker PG, Fu H et al (2020) Estimates of the severity of coronavirus disease 2019: a model-based analysis. Lancet Infect Dis 20(6):669–677
Vetter P, Vu DL, L’Huillier AG, Schibler M, Kaiser L, Jacquerioz F (2020) Clinical features of COVID-19. Br Med J Publ Group
Wei WE, Li Z, Chiew CJ, Yong SE, Toh MP, Lee VJ (2020) Presymptomatic transmission of SARS-CoV-2—Singapore, January 23–March 16, 2020. Morb Mortal Wkly Rep 69(14):411
WHO (2020a) Coronavirus Disease (COVID-19) Situation report-166. https://www.who.int/docs/default-source/coronaviruse/situation-reports/20200704-covid-19-sitrep-166.pdf?sfvrsn=6247972_2. Accessed 5 July 2020
WHO (2020b) Report of the WHO-China Joint Mission on Coronavirus Disease 2019 (COVID-19). https://www.who.int/docs/default-source/coronaviruse/who-china-joint-mission-on-covid-19-final-report.pdf. Accessed 5 July 2020
WHO (2020c) Disease outbreaks. https://www.who.int/environmental_health_emergencies/disease_outbreaks/en/ Accessed 5 Sep 2020
Wu JT, Leung K, Leung GM (2020) Nowcasting and forecasting the potential domestic and international spread of the 2019-nCoV outbreak originating in Wuhan, China: a modelling study. Lancet 395(10225):689–697
Yamana T, Pei S, Shaman J (2020) Projection of COVID-19 cases and deaths in the us as individual states re-open may 4, 2020. medRxiv
Yang Z, Zeng Z, Wang K, Wong S-S, Liang W, Zanin M, Liu P, Cao X, Gao Z, Mai Z et al (2020) Modified SEIR and AI prediction of the epidemics trend of COVID-19 in China under public health interventions. J Thorac Dis 12(3):165