Efficient and effective single-step screening of individual samples for SARS-CoV-2 RNA using multi-dimensional pooling and Bayesian inference
| Autor: | Matthew H. Samore, Michael T. Pyne, Jeanmarie Mayer, Adam Barker, Kimberly E. Hanson, Rodrigo Noriega, Juliana Sobczyk |
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| Jazyk: | angličtina |
| Rok vydání: | 2021 |
| Předmět: |
0301 basic medicine
Computer science Sample (material) Bayesian probability Pooling Biomedical Engineering Biophysics RT-PCR Bioengineering Bayesian inference Machine learning computer.software_genre Biochemistry Bayesian Sensitivity and Specificity Biomaterials 03 medical and health sciences Bayes' theorem 0302 clinical medicine Life Sciences–Chemistry interface Humans pooling 030212 general & internal medicine Sensitivity (control systems) Throughput (business) Monte Carlo Pandemics Research Articles Protocol (science) business.industry SARS-CoV-2 non-adaptive screening COVID-19 Bayes Theorem 030104 developmental biology RNA Viral Artificial intelligence business computer Biotechnology |
| Zdroj: | Journal of the Royal Society Interface |
| ISSN: | 1742-5662 1742-5689 |
| Popis: | Rapid and widespread implementation of infectious disease surveillance is a critical component in the response to novel health threats. Molecular assays are the preferred method to detect a broad range of viral pathogens with high sensitivity and specificity. The implementation of molecular assay testing in a rapidly evolving public health emergency, such as the ongoing COVID-19 pandemic, can be hindered by resource availability or technical constraints. We present a screening strategy that is easily scaled up to support a sustained large volume of testing over long periods of time. This non-adaptive pooled-sample screening protocol employs Bayesian inference to yield a reportable outcome for each individual sample in a single testing step (no confirmation of positive results required). The proposed method is validated using clinical specimens tested using a real-time reverse transcription polymerase chain reaction test for SARS-CoV-2. This screening protocol has substantial advantages for its implementation, including higher sample throughput, faster time to results, no need to retrieve previously screened samples from storage to undergo retesting, and excellent performance of the algorithm's sensitivity and specificity compared with the individual test's metrics. |
| Databáze: | OpenAIRE |
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