assayM: a web application to monitor mutations in COVID-19 diagnostic assays.
KAUST DepartmentPathogen Genomics Laboratory, King Abdullah University of Science and Technology (KAUST), Thuwal, 23955-6900, Kingdom of Saudi Arabia.
Biological and Environmental Sciences and Engineering (BESE) Division
Permanent link to this recordhttp://hdl.handle.net/10754/666618
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AbstractReverse Transcriptase - Polymerase Chain Reaction (RT-PCR) is the gold standard as diagnostic assays for the detection of COVID-19 and the specificity and sensitivity of these assays depend on the complementarity of the RT-PCR primers to the genome of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). Since the virus mutates over time during replication cycles, there is an urgent need to continuously monitor the virus genome for appearances of mutations and mismatches in the PCR primers used in these assays. Here we present assayM, a web application to explore and monitor mutations introduced in the primer and probe sequences published by the World Health Organisation (WHO) or in any custom-designed assay primers for SARS-CoV-2 detection assays in globally available SARS-CoV-2 genome datasets.
CitationMohamed Ghazzali, R. N., & Pain, A. (2020). assayM: a web application to monitor mutations in COVID-19 diagnostic assays. doi:10.1101/2020.12.18.423467
SponsorsThis work has been supported by the KAUST Rapid Research Response Team (R3T) funding and the BAS/01-01-1020 fund to Arnab Pain.
PublisherCold Spring Harbor Laboratory