Table 1 Concordance between RT–qPCR and SHERLOCK detection of SARS-CoV-2 RNA

		SARS-CoV-2 diagnosis by RT–qPCR
		Clinical validation samples (154 total)				Samples collected for pre-operative assessment (380 total)
		All samples		Samples within SHERLOCK LoD		Samples collected for pre-operative assessment (380 total)
		Positive	Negative	Positive	Negative	Positive	Negative
SHERLOCK lateral-flow readout	Positive	71 (true positive)	0 (false positive)	68 (true positive)	0 (false positive)	N/A	N/A
	Negative	10 (false negative)	73 (true negative)	2 (false negative)	73 (true negative)	N/A	N/A
	Total	81	73	70	73	N/A	N/A
SHERLOCK fluorescence readout	Positive	78 (true positive)	0 (false positive)	70 (true positive)	0 (false positive)	0 (true positive)	0 (false positive)
	Negative	3 (false negative)	73 (true negative)	0 (false negative)	73 (true negative)	0 (false negative)	380 (true negative)
	Total	81	73	70	73	0	380

In total, 154 clinical samples (81 positive and 73 negative) were analysed for both lateral-flow and fluorescence readouts for clinical validation of SHERLOCK. An additional 380 clinical samples collected as part of pre-operative assessment of surgical patients at Siriraj Hospital, Bangkok during May 2020 were further analysed using the fluorescence readout of SHERLOCK. The LoD of SARS-CoV-2 S gene by SHERLOCK was at C_t < 33.5 (Fig. 2). N/A, not applicable.

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