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Fig. 4 | BMC Genomics

Fig. 4

From: DeepSARS: simultaneous diagnostic detection and genomic surveillance of SARS-CoV-2

Fig. 4

DeepSARS can be rapidly and modularly adapted to perform genomic surveillance by targeting new regions of interest in the SARS-CoV-2 genome. A Nasopharyngeal (swab) samples of COVID-19 positive and negative patients are subjected to the DeepSARS library preparation protocol using primers from site-13, alpha-15, and spike-16 primer sets using one distinct patient barcode and 16 distinct plate barcodes (one per sample per primer set). The number of recovered reads mapping to different regions targeted by DeepSARS on synthetic RNA (control) and three nasopharyngeal patient samples are quantified. Two of the patients had been deemed SARS-CoV-2 positive and one was negative by qPCR. Of the two patients, whole genome sequencing (WGS) had confirmed only one of the two positive cases had the alpha SARS-CoV-2 variant. B Consensus sequences following DeepSARS for the samples in A for the sites targeting the mutations defining the alpha SARS-CoV-2 variant. Deletions are indicated as red dashes. Only reads containing the expected patient barcode were included

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