Fig. 3

DeepSARS enables diagnostic detection of SARS-CoV-2 from nasopharyngeal and saliva samples. A Nasopharyngeal (swab) and saliva samples of COVID-19 positive and negative patients are subjected to the DeepSARS library preparation protocol using site-13 primer set. Reads mapping to the SARS-CoV-2 genome from three COVID-19 patients and three healthy controls are quantified. Sites 1–13 represent a region in the SARS-CoV-2 genome targeted by the site-13 primer set of DeepSARS. B The ratio of viral to human reads (mean ± SEM) for COVID-19 patients and healthy controls for both swab and saliva samples. Ratio is calculated by summing the reads containing the correct patient barcode across all sites and dividing by the number of reads containing the correct patient barcode mapping to either human GAPDH or human RNAP. Paired t-test, p < 0.05. C Correlation of CT values determined by qPCR and the ratio of viral to human reads recovered using DeepSARS. Red points (35719) correspond to the same patient included in three independent sequencing runs using different patient barcodes each time