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      Predicting onset risk of COVID-19 symptom to support healthy travel route planning in the new normal of long-term coexistence with SARS-CoV-2

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          Abstract

          Due to the increased outdoor transmission risk of new SARS-COV-2 variants, the health of urban residents in daily travel is being threatened. In the new normal of long-term coexistence with SARS-CoV-2, how to avoid being infected by SARS-CoV-2 in daily travel has become a key issue. Hence, a spatiotemporal solution has been proposed to assist healthy travel route planning. Firstly, an enhanced urban-community-scale geographic model was proposed to predict daily COVID-19 symptom onset risk by incorporating the real-time effective reproduction numbers, and daily population variation of fully vaccinated. On-road onset risk predictions in the next following days were then extracted for searching healthy routes with the least onset risk values. The healthy route planning was further implemented in a mobile application. Hong Kong, one of the representative highly populated cities, has been chosen as an example to apply the spatiotemporal solution. The application results in the four epidemic waves of Hong Kong show that based on the high accurate prediction of COVID-19 symptom onset risk, the healthy route planning could reduce people’s exposure to the COVID-19 symptoms onset risk. To sum, the proposed solution can be applied to support the healthy travel of residents in more cities in the new normalcy.

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          Most cited references46

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          Temporal dynamics in viral shedding and transmissibility of COVID-19

          We report temporal patterns of viral shedding in 94 patients with laboratory-confirmed COVID-19 and modeled COVID-19 infectiousness profiles from a separate sample of 77 infector-infectee transmission pairs. We observed the highest viral load in throat swabs at the time of symptom onset, and inferred that infectiousness peaked on or before symptom onset. We estimated that 44% (95% confidence interval, 25-69%) of secondary cases were infected during the index cases' presymptomatic stage, in settings with substantial household clustering, active case finding and quarantine outside the home. Disease control measures should be adjusted to account for probable substantial presymptomatic transmission.
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            Increased mortality in community-tested cases of SARS-CoV-2 lineage B.1.1.7

            SARS-CoV-2 lineage B.1.1.7, a variant that was first detected in the UK in September 20201, has spread to multiple countries worldwide. Several studies have established that B.1.1.7 is more transmissible than pre-existing variants, but have not identified whether it leads to any change in disease severity2. Here we analyse a dataset that links 2,245,263 positive SARS-CoV-2 community tests and 17,452 deaths associated with COVID-19 in England from 1 November 2020 to 14 February 2021. For 1,146,534 (51%) of these tests, the presence or absence of B.1.1.7 can be identified because mutations in this lineage prevent PCR amplification of the spike (S) gene target (known as S gene target failure (SGTF)1). On the basis of 4,945 deaths with known SGTF status, we estimate that the hazard of death associated with SGTF is 55% (95% confidence interval, 39-72%) higher than in cases without SGTF after adjustment for age, sex, ethnicity, deprivation, residence in a care home, the local authority of residence and test date. This corresponds to the absolute risk of death for a 55-69-year-old man increasing from 0.6% to 0.9% (95% confidence interval, 0.8-1.0%) within 28 days of a positive test in the community. Correcting for misclassification of SGTF and missingness in SGTF status, we estimate that the hazard of death associated with B.1.1.7 is 61% (42-82%) higher than with pre-existing variants. Our analysis suggests that B.1.1.7 is not only more transmissible than pre-existing SARS-CoV-2 variants, but may also cause more severe illness.
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              Population flow drives spatio-temporal distribution of COVID-19 in China

              Sudden, large-scale and diffuse human migration can amplify localized outbreaks of disease into widespread epidemics1-4. Rapid and accurate tracking of aggregate population flows may therefore be epidemiologically informative. Here we use 11,478,484 counts of mobile phone data from individuals leaving or transiting through the prefecture of Wuhan between 1 January and 24 January 2020 as they moved to 296 prefectures throughout mainland China. First, we document the efficacy of quarantine in ceasing movement. Second, we show that the distribution of population outflow from Wuhan accurately predicts the relative frequency and geographical distribution of infections with severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) until 19 February 2020, across mainland China. Third, we develop a spatio-temporal 'risk source' model that leverages population flow data (which operationalize the risk that emanates from epidemic epicentres) not only to forecast the distribution of confirmed cases, but also to identify regions that have a high risk of transmission at an early stage. Fourth, we use this risk source model to statistically derive the geographical spread of COVID-19 and the growth pattern based on the population outflow from Wuhan; the model yields a benchmark trend and an index for assessing the risk of community transmission of COVID-19 over time for different locations. This approach can be used by policy-makers in any nation with available data to make rapid and accurate risk assessments and to plan the allocation of limited resources ahead of ongoing outbreaks.
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                Author and article information

                Journal
                Environ Plan B Urban Anal City Sci
                Environ Plan B Urban Anal City Sci
                spepb
                EPB
                Environment and Planning. B, Urban Analytics and City Science
                SAGE Publications (Sage UK: London, England )
                2399-8083
                2399-8091
                17 September 2022
                17 September 2022
                : 23998083221127703
                Affiliations
                [1-23998083221127703]Otto Poon Charitable Foundation Smart Cities Research Institute and Department of Land Surveying and Geo-Informatics, Ringgold 26680, universityThe Hong Kong Polytechnic University; , Hong Kong, China
                [2-23998083221127703]Research Institute for Smart Cities, School of Architecture and Urban Planning, Ringgold 47890, universityShenzhen University; , China
                Author notes
                Wenzhong Shi, Otto Poon Charitable Foundation Smart Cities Research Institute and Department of Land Surveying and Geo-Informatics, The Hong Kong Polytechnic University, 181 Chatham Road South, Hung Hom, Hong Kong, China. Email: john.wz.shi@polyu.edu.hk
                Author information
                https://orcid.org/0000-0002-3886-7027
                Article
                10.1177_23998083221127703
                10.1177/23998083221127703
                9482944
                23049238-64a8-461e-b66e-076f462cdd5f
                © The Author(s) 2022

                This article is made available via the PMC Open Access Subset for unrestricted re-use and analyses in any form or by any means with acknowledgement of the original source. These permissions are granted for the duration of the COVID-19 pandemic or until permissions are revoked in writing. Upon expiration of these permissions, PMC is granted a perpetual license to make this article available via PMC and Europe PMC, consistent with existing copyright protections.

                History
                Funding
                Funded by: National Key R&D Program of China;
                Funded by: Otto Poon Char-itable Foundation Smart Cities Research Institute, The Hong Kong Polytechnic University;
                Award ID: Work Program: CD03
                Categories
                Special Issue: Urban Analytical Approaches to Combatting Covid-19
                Custom metadata
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                ts10

                healthy route planning,covid-19,onset risk,spatiotemporal prediction

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