Efficient high throughput SARS-CoV-2 testing to detect asymptomatic carriers Article Swipe
Noam Shental
,
Shlomia Levy
,
Vered Wuvshet
,
Shosh Skorniakov
,
Yonat Shemer‐Avni
,
Angel Porgador
,
Tomer Hertz
·
YOU?
·
· 2020
· Open Access
·
· DOI: https://doi.org/10.1101/2020.04.14.20064618
YOU?
·
· 2020
· Open Access
·
· DOI: https://doi.org/10.1101/2020.04.14.20064618
The COVID-19 pandemic is rapidly spreading throughout the world. Recent reports suggest that 10-30% of SARS-CoV-2 infected patients are asymptomatic. Other studies report that some subjects have significant viral shedding prior to symptom onset. Since both asymptomatic and pre-symptomatic subjects can spread the disease, identifying such individuals is critical for effective control of the SARS-CoV-2 pandemic. Therefore, there is an urgent need to increase diagnostic testing capabilities in order to also screen asymptomatic carriers. In fact, such tests will be routinely required until a vaccine is developed. Yet, a major bottleneck of managing the COVID-19 pandemic in many countries is diagnostic testing, due to limited laboratory capabilities as well as limited access to genome-extraction and Polymerase Chain Reaction (PCR) reagents. We developed P-BEST - a method for Pooling-Based Efficient SARS-CoV-2 Testing, using a non-adaptive group-testing approach, which significantly reduces the number of tests required to identify all positive subjects within a large set of samples. Instead of testing each sample separately, samples are pooled into groups and each pool is tested for SARS-CoV-2 using the standard clinically approved PCR-based diagnostic assay. Each sample is part of multiple pools, using a combinatorial pooling strategy based on compressed sensing designed for maximizing the ability to identify all positive individuals. We evaluated P-BEST using leftover samples that were previously clinically tested for COVID-19. In our current proof-of-concept study we pooled 384 patient samples into 48 pools providing an 8-fold increase in testing efficiency. Five sets of 384 samples, containing 1-5 positive carriers were screened and all positive carriers in each set were correctly identified. P-BEST provides an efficient and easy-to-implement solution for increasing testing capacity that will work with any clinically approved genome-extraction and PCR-based diagnostic methodologies.
Related Topics
Concepts
Asymptomatic
Pooling
Coronavirus disease 2019 (COVID-19)
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2)
Pandemic
Medicine
Group testing
Virology
Asymptomatic carrier
Bottleneck
Disease
Computer science
Internal medicine
Infectious disease (medical specialty)
Artificial intelligence
Mathematics
Embedded system
Combinatorics
Metadata
- Type
- preprint
- Language
- en
- Landing Page
- https://doi.org/10.1101/2020.04.14.20064618
- https://www.medrxiv.org/content/medrxiv/early/2020/04/20/2020.04.14.20064618.full.pdf
- OA Status
- green
- Cited By
- 54
- References
- 18
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W3016584567
All OpenAlex metadata
Raw OpenAlex JSON
- OpenAlex ID
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https://openalex.org/W3016584567Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.1101/2020.04.14.20064618Digital Object Identifier
- Title
-
Efficient high throughput SARS-CoV-2 testing to detect asymptomatic carriersWork title
- Type
-
preprintOpenAlex work type
- Language
-
enPrimary language
- Publication year
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2020Year of publication
- Publication date
-
2020-04-20Full publication date if available
- Authors
-
Noam Shental, Shlomia Levy, Vered Wuvshet, Shosh Skorniakov, Yonat Shemer‐Avni, Angel Porgador, Tomer HertzList of authors in order
- Landing page
-
https://doi.org/10.1101/2020.04.14.20064618Publisher landing page
- PDF URL
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https://www.medrxiv.org/content/medrxiv/early/2020/04/20/2020.04.14.20064618.full.pdfDirect link to full text PDF
- Open access
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YesWhether a free full text is available
- OA status
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greenOpen access status per OpenAlex
- OA URL
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https://www.medrxiv.org/content/medrxiv/early/2020/04/20/2020.04.14.20064618.full.pdfDirect OA link when available
- Concepts
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Asymptomatic, Pooling, Coronavirus disease 2019 (COVID-19), Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), Pandemic, Medicine, Group testing, Virology, Asymptomatic carrier, Bottleneck, Disease, Computer science, Internal medicine, Infectious disease (medical specialty), Artificial intelligence, Mathematics, Embedded system, CombinatoricsTop concepts (fields/topics) attached by OpenAlex
- Cited by
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54Total citation count in OpenAlex
- Citations by year (recent)
-
2024: 1, 2023: 2, 2022: 8, 2021: 12, 2020: 31Per-year citation counts (last 5 years)
- References (count)
-
18Number of works referenced by this work
- Related works (count)
-
10Other works algorithmically related by OpenAlex
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