ArticleMolecular biology and evolution2022
A2B-COVID: A Tool for Rapidly Evaluating Potential SARS-CoV-2 Transmission Events.
Article in Molecular biology and evolution, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed.
- The NOSTRA model: Coherent estimation of infection sources in the case of possible nosocomial transmission.PLoS computational biology · 2025Article
- Variable rates of SARS-CoV-2 evolution in chronic infections.PLoS pathogens · 2025Article
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- Evaluating pooled testing for asymptomatic screening of healthcare workers in hospitals.BMC infectious diseases · 2023Article
- Drug resistance and vaccine target surveillance of Plasmodium falciparum using nanopore sequencing in Ghana.Nature microbiology · 2023Article
- A qualitative process evaluation using the behaviour change wheel approach: Did a whole genome sequence report form (SRF) used to reduce nosocomial SARS-CoV-2 within UK hospitals operate as anticipated?British journal of health psychology · 2023Article
- How public health authorities can use pathogen genomics in health protection practice: a consensus-building Delphi study conducted in the United Kingdom.Microbial genomics · 2023Article
- Applying the digital data and the bioinformatics tools in SARS-CoV-2 research.Computational and structural biotechnology journal · 2023Review
- Investigating healthcare worker mobility and patient contacts within a UK hospital during the COVID-19 pandemic.Communications medicine · 2022Article
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- Genomic epidemiology of SARS-CoV-2 in a university outbreak setting and implications for public health planning.Scientific reports · 2022Article
- Transmission of B.1.617.2 Delta variant between vaccinated healthcare workers.Scientific reports · 2022Article
- Genomic epidemiology of SARS-CoV-2 in a UK university identifies dynamics of transmission.Nature communications · 2022Article
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Authors and funding
39 authors.
Funding
Abstract
Identifying linked cases of infection is a critical component of the public health response to viral infectious diseases. In a clinical context, there is a need to make rapid assessments of whether cases of infection have arrived independently onto a ward, or are potentially linked via direct transmission. Viral genome sequence data are of great value in making these assessments, but are often not the only form of data available. Here, we describe A2B-COVID, a method for the rapid identification of potentially linked cases of COVID-19 infection designed for clinical settings. Our method combines knowledge about infection dynamics, data describing the movements of individuals, and evolutionary analysis of genome sequences to assess whether data collected from cases of infection are consistent or inconsistent with linkage via direct transmission. A retrospective analysis of data from two wards at Cambridge University Hospitals NHS Foundation Trust during the first wave of the pandemic showed qualitatively different patterns of linkage between cases on designated COVID-19 and non-COVID-19 wards. The subsequent real-time application of our method to data from the second epidemic wave highlights its value for monitoring cases of infection in a clinical context.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.