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434. Tracking COVID-19 in Real Time: Leveraging Public Data Sources to Inform Infection Prevention Practices

BACKGROUND: Global spread of SARS-CoV-2 led to an urgent need for data on national and regional prevalence to inform public health policy. Healthcare systems were also in need of data to develop best practices around defining patient risk. We describe a data analytics tool developed at our instituti...

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Autores principales: O’Callaghan, Kevin P, Winser, Kyle, Mehta, Vaidehi, Kitt, Eimear, Mojica, Coralee DelValle, Kerman, Caryn, Coffin, Susan E, Sammons, Julia S
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7776942/
http://dx.doi.org/10.1093/ofid/ofaa439.628
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author O’Callaghan, Kevin P
Winser, Kyle
Mehta, Vaidehi
Kitt, Eimear
Mojica, Coralee DelValle
Kerman, Caryn
Coffin, Susan E
Coffin, Susan E
Sammons, Julia S
author_facet O’Callaghan, Kevin P
Winser, Kyle
Mehta, Vaidehi
Kitt, Eimear
Mojica, Coralee DelValle
Kerman, Caryn
Coffin, Susan E
Coffin, Susan E
Sammons, Julia S
author_sort O’Callaghan, Kevin P
collection PubMed
description BACKGROUND: Global spread of SARS-CoV-2 led to an urgent need for data on national and regional prevalence to inform public health policy. Healthcare systems were also in need of data to develop best practices around defining patient risk. We describe a data analytics tool developed at our institution which uses public data sources to track county-level prevalence of COVID-19 so as to delineate risk for individual patients. METHODS: We investigated a number of data sources tracking COVID-19 case counts, assessing for (1) frequency of updates, (2) granularity of geographic detail (optimally to zip-code or county) and (3) completeness of the data. We chose the Johns Hopkins University CSSE COVID-19 data set. This contains counts of new diagnoses per day by county using Federal Information Processing System (FIPS) codes. The dataset is updated daily with adjustments made for backdated corrections. We developed a data analytics tool which allowed for direct comparison of county period prevalence. We developed a metric of 10-day rolling period prevalence calculated as a total case count from the preceding 10 days, divided by county population from 2018 American Community Survey (ACS) estimates. RESULTS: Benchmarking against local (peak of 3.12 cases per 1,000 persons) and regional prevalence, we set 6 cases/1,000 persons as the threshold for a Geographic Region with Widespread Community Transmission (GReWCoT). Counties have to reach this threshold for at least 4 out of 7 days within the period 3 to 10 days prior to the evaluation, to adjust for bulking of test results and delayed reporting. We used the analytics tool to support a semimonthly review of geographic regions, and made specific recommendations for patients from qualifying regions including use of modified enhanced precautions (including surgical mask and eye protection), as well as restricted visitation of caregivers. Figure 1. Epidemic curves for 10-day rolling period prevalence of COVID-19 in the Mid-Atlantic Region: Philadelphia County, PA [Image: see text] Figure 2. Epidemic curves for 10-day rolling period prevalence of COVID-19 in the Mid-Atlantic Region: Westchester County, NY [Image: see text] Figure 3. Epidemic curves for 10-day rolling period prevalence of COVID-19 in the Mid-Atlantic Region: Bergen County, NJ [Image: see text] CONCLUSION: This approach allowed for a nuanced investigation of COVID-19 prevalence in real-time, and provided support for risk stratification of patients throughout our large catchment area. The dashboard was shared on an inward-facing site to support staff messaging about regions of increased risk. Next steps include leveraging international data to inform a similar approach to international travel for our patients and staff. DISCLOSURES: All Authors: No reported disclosures
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spelling pubmed-77769422021-01-07 434. Tracking COVID-19 in Real Time: Leveraging Public Data Sources to Inform Infection Prevention Practices O’Callaghan, Kevin P Winser, Kyle Mehta, Vaidehi Kitt, Eimear Mojica, Coralee DelValle Kerman, Caryn Coffin, Susan E Coffin, Susan E Sammons, Julia S Open Forum Infect Dis Poster Abstracts BACKGROUND: Global spread of SARS-CoV-2 led to an urgent need for data on national and regional prevalence to inform public health policy. Healthcare systems were also in need of data to develop best practices around defining patient risk. We describe a data analytics tool developed at our institution which uses public data sources to track county-level prevalence of COVID-19 so as to delineate risk for individual patients. METHODS: We investigated a number of data sources tracking COVID-19 case counts, assessing for (1) frequency of updates, (2) granularity of geographic detail (optimally to zip-code or county) and (3) completeness of the data. We chose the Johns Hopkins University CSSE COVID-19 data set. This contains counts of new diagnoses per day by county using Federal Information Processing System (FIPS) codes. The dataset is updated daily with adjustments made for backdated corrections. We developed a data analytics tool which allowed for direct comparison of county period prevalence. We developed a metric of 10-day rolling period prevalence calculated as a total case count from the preceding 10 days, divided by county population from 2018 American Community Survey (ACS) estimates. RESULTS: Benchmarking against local (peak of 3.12 cases per 1,000 persons) and regional prevalence, we set 6 cases/1,000 persons as the threshold for a Geographic Region with Widespread Community Transmission (GReWCoT). Counties have to reach this threshold for at least 4 out of 7 days within the period 3 to 10 days prior to the evaluation, to adjust for bulking of test results and delayed reporting. We used the analytics tool to support a semimonthly review of geographic regions, and made specific recommendations for patients from qualifying regions including use of modified enhanced precautions (including surgical mask and eye protection), as well as restricted visitation of caregivers. Figure 1. Epidemic curves for 10-day rolling period prevalence of COVID-19 in the Mid-Atlantic Region: Philadelphia County, PA [Image: see text] Figure 2. Epidemic curves for 10-day rolling period prevalence of COVID-19 in the Mid-Atlantic Region: Westchester County, NY [Image: see text] Figure 3. Epidemic curves for 10-day rolling period prevalence of COVID-19 in the Mid-Atlantic Region: Bergen County, NJ [Image: see text] CONCLUSION: This approach allowed for a nuanced investigation of COVID-19 prevalence in real-time, and provided support for risk stratification of patients throughout our large catchment area. The dashboard was shared on an inward-facing site to support staff messaging about regions of increased risk. Next steps include leveraging international data to inform a similar approach to international travel for our patients and staff. DISCLOSURES: All Authors: No reported disclosures Oxford University Press 2020-12-31 /pmc/articles/PMC7776942/ http://dx.doi.org/10.1093/ofid/ofaa439.628 Text en © The Author 2020. Published by Oxford University Press on behalf of Infectious Diseases Society of America. http://creativecommons.org/licenses/by-nc-nd/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution-NonCommercial-NoDerivs licence (http://creativecommons.org/licenses/by-nc-nd/4.0/), which permits non-commercial reproduction and distribution of the work, in any medium, provided the original work is not altered or transformed in any way, and that the work is properly cited. For commercial re-use, please contact journals.permissions@oup.com
spellingShingle Poster Abstracts
O’Callaghan, Kevin P
Winser, Kyle
Mehta, Vaidehi
Kitt, Eimear
Mojica, Coralee DelValle
Kerman, Caryn
Coffin, Susan E
Coffin, Susan E
Sammons, Julia S
434. Tracking COVID-19 in Real Time: Leveraging Public Data Sources to Inform Infection Prevention Practices
title 434. Tracking COVID-19 in Real Time: Leveraging Public Data Sources to Inform Infection Prevention Practices
title_full 434. Tracking COVID-19 in Real Time: Leveraging Public Data Sources to Inform Infection Prevention Practices
title_fullStr 434. Tracking COVID-19 in Real Time: Leveraging Public Data Sources to Inform Infection Prevention Practices
title_full_unstemmed 434. Tracking COVID-19 in Real Time: Leveraging Public Data Sources to Inform Infection Prevention Practices
title_short 434. Tracking COVID-19 in Real Time: Leveraging Public Data Sources to Inform Infection Prevention Practices
title_sort 434. tracking covid-19 in real time: leveraging public data sources to inform infection prevention practices
topic Poster Abstracts
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7776942/
http://dx.doi.org/10.1093/ofid/ofaa439.628
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