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• W4381330541 abstract "Abstract We present Crykey, a computational tool for identifying SARS-CoV-2 cryptic mutations from wastewater. While previous exist for identifying cryptic mutations in specific regions of the SARS-CoV-2 genome, there is a need for computational tools capable of tracking cryptic mutations across the entire genome and at scale. Crykey fills this gap and leverages the co-occurrence of single nucleotide variants on the same read combined with variant frequency information. We evaluated Crykey on SARS-CoV-2 sequences from 3175 wastewater samples and more than 14000 clinical samples. Our results are threefold, we show: 1) Crykey can accurately identify cryptic lineages that are rare or missing in existing databases ; 2) the emergence of cryptic lineage can be related to increased transmission rates in the communities, and 3) some cryptic lineages in wastewater mirror intra-host low frequency co-occurring variants in individuals. In summary, Crykey facilitates rapid and comprehensive identification of SARS-CoV-2 cryptic mutations in wastewater samples." @default.
• W4381330541 created "2023-06-21" @default.
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• W4381330541 date "2023-06-20" @default.
• W4381330541 modified "2023-09-25" @default.
• W4381330541 title "Crykey: Comprehensive Identification of SARS-CoV-2 Cryptic Mutations in Wastewater" @default.
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• W4381330541 doi "https://doi.org/10.1101/2023.06.16.23291524" @default.
• W4381330541 hasPublicationYear "2023" @default.
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