Use of compressed sensing to expedite high-throughput diagnostic testing for COVID-19 and beyond.

Autor: Waldstein KA; Interdisciplinary Graduate Program in Immunology, University of Iowa, Iowa City, IA 52242, USA.; Department of Microbiology and Immunology, University of Iowa, Iowa City, IA 52242, USA., Yi J; Department of Electrical and Computer Engineering, University of Iowa, Iowa City, IA 52242, USA., Cho MM; Department of Electrical and Computer Engineering, Penn State Behrend, Erie, PA 16563, USA., Mudumbai R; Department of Electrical and Computer Engineering, University of Iowa, Iowa City, IA 52242, USA., Wu X; Department of Electrical and Computer Engineering, University of Iowa, Iowa City, IA 52242, USA., Varga SM; Interdisciplinary Graduate Program in Immunology, University of Iowa, Iowa City, IA 52242, USA.; Department of Microbiology and Immunology, University of Iowa, Iowa City, IA 52242, USA.; Department of Pathology, University of Iowa, Iowa City, IA 52242, USA., Xu W; Department of Electrical and Computer Engineering, University of Iowa, Iowa City, IA 52242, USA.
Jazyk: angličtina
Zdroj: MedRxiv : the preprint server for health sciences [medRxiv] 2021 Aug 10. Date of Electronic Publication: 2021 Aug 10.
DOI: 10.1101/2021.08.09.21261669
Abstrakt: The rapid spread of SARS-CoV-2 has placed a significant burden on public health systems to provide rapid and accurate diagnostic testing highlighting the critical need for innovative testing approaches for future pandemics. In this study, we present a novel sample pooling procedure based on compressed sensing theory to accurately identify virally infected patients at high prevalence rates utilizing an innovative viral RNA extraction process to minimize sample dilution. At prevalence rates ranging from 0-14.3%, the number of tests required to identify the infection status of all patients was reduced by 75.6% as compared to conventional testing in primary human SARS-CoV-2 nasopharyngeal swabs and a coronavirus model system. Additionally, our modified pooling and RNA extraction process minimized sample dilution which remained constant as pool sizes increased. Our use of compressed sensing can be adapted to a wide variety of diagnostic testing applications to increase throughput for routine laboratory testing as well as a means to increase testing throughput to combat future pandemics.
Databáze: MEDLINE