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Rapid, large-scale, and effective detection of COVID-19 via non-adaptive testing

Pooling of samples can increase lab capacity when using Polymerase chain reaction (PCR) to detect diseases such as COVID-19. However, pool testing is typically performed via an adaptive testing strategy which requires a feedback loop in the lab and at least two PCR runs to confirm positive results....

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Autor principal: Täufer, Matthias
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Elsevier Ltd. 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7428746/
https://www.ncbi.nlm.nih.gov/pubmed/32814072
http://dx.doi.org/10.1016/j.jtbi.2020.110450
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author Täufer, Matthias
author_facet Täufer, Matthias
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description Pooling of samples can increase lab capacity when using Polymerase chain reaction (PCR) to detect diseases such as COVID-19. However, pool testing is typically performed via an adaptive testing strategy which requires a feedback loop in the lab and at least two PCR runs to confirm positive results. This can cost precious time. We discuss a non-adaptive testing method where each sample is distributed in a prescribed manner over several pools, and which yields reliable results after one round of testing. More precisely, assuming knowledge about the overall incidence rate, we calculate explicit error bounds on the number of false positives which scale favourably with pool size and sample multiplicity. This allows for hugely streamlined PCR testing and cuts in detection times for a large-scale testing scenario. A viable consequence of this method could be real-time screening of entire communities, frontline healthcare workers and international flight passengers, for example, using the PCR machines currently in operation.
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spelling pubmed-74287462020-08-17 Rapid, large-scale, and effective detection of COVID-19 via non-adaptive testing Täufer, Matthias J Theor Biol Article Pooling of samples can increase lab capacity when using Polymerase chain reaction (PCR) to detect diseases such as COVID-19. However, pool testing is typically performed via an adaptive testing strategy which requires a feedback loop in the lab and at least two PCR runs to confirm positive results. This can cost precious time. We discuss a non-adaptive testing method where each sample is distributed in a prescribed manner over several pools, and which yields reliable results after one round of testing. More precisely, assuming knowledge about the overall incidence rate, we calculate explicit error bounds on the number of false positives which scale favourably with pool size and sample multiplicity. This allows for hugely streamlined PCR testing and cuts in detection times for a large-scale testing scenario. A viable consequence of this method could be real-time screening of entire communities, frontline healthcare workers and international flight passengers, for example, using the PCR machines currently in operation. Elsevier Ltd. 2020-12-07 2020-08-16 /pmc/articles/PMC7428746/ /pubmed/32814072 http://dx.doi.org/10.1016/j.jtbi.2020.110450 Text en © 2020 Elsevier Ltd. All rights reserved. Since January 2020 Elsevier has created a COVID-19 resource centre with free information in English and Mandarin on the novel coronavirus COVID-19. The COVID-19 resource centre is hosted on Elsevier Connect, the company's public news and information website. Elsevier hereby grants permission to make all its COVID-19-related research that is available on the COVID-19 resource centre - including this research content - immediately available in PubMed Central and other publicly funded repositories, such as the WHO COVID database with rights for unrestricted research re-use and analyses in any form or by any means with acknowledgement of the original source. These permissions are granted for free by Elsevier for as long as the COVID-19 resource centre remains active.
spellingShingle Article
Täufer, Matthias
Rapid, large-scale, and effective detection of COVID-19 via non-adaptive testing
title Rapid, large-scale, and effective detection of COVID-19 via non-adaptive testing
title_full Rapid, large-scale, and effective detection of COVID-19 via non-adaptive testing
title_fullStr Rapid, large-scale, and effective detection of COVID-19 via non-adaptive testing
title_full_unstemmed Rapid, large-scale, and effective detection of COVID-19 via non-adaptive testing
title_short Rapid, large-scale, and effective detection of COVID-19 via non-adaptive testing
title_sort rapid, large-scale, and effective detection of covid-19 via non-adaptive testing
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7428746/
https://www.ncbi.nlm.nih.gov/pubmed/32814072
http://dx.doi.org/10.1016/j.jtbi.2020.110450
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