Table 1.
Agreement between GeneFinder RT-qPCR and Lyo-CRISPR SARS-CoV-2 kit results for testing samples extracted with spin column (n = 210) and samples in lysis buffer (n = 30) from hospitalized patients.
| Respiratory Samples | GeneFinder RT-qPCR | Lyo-CRISPR SARS-CoV-2 | Agreement | Overall Agreement | Cohen Kappa | ||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| E Gene | N Gene | RdRp Gene | Negative | Positive | |||||||
| RT-qPCR result | Ct mean (range) | Ct mean (range) | Ct mean (range) | n | n | % (95%CI) | % (95%CI) | k (95%CI) | |||
| RNA extracted | |||||||||||
| Negative (n = 105) | - | - | - | 104 | 1 | 99.05 | (94.81–99.97) | 99.52 | (97.38–99.99) | 0.991 | (0.972–1) |
| Positive (n = 105) | 25.65 (10.83–40.02) | 24.19 (11.45–36.90) | 24.03 (11.36–34.27) | 0 | 105 | 100 | (96.55–100) | ||||
| Lysis Buffer | |||||||||||
| Negative (n = 9) | - | - | - | 9 | 0 | 100 | (66.37–100) | 96.67 | (82.78–99.92) | 0.923 | (0.775–1) |
| Positive (n = 21) | 21.33 (9.10–35.60) | 22.58 (9.17–36.65) | 19.57 (8.30–34.32) | 1 | 20 | 95.24 | (76.18–99.88) | ||||
Lyo: lyophilized; SARS-CoV-2: severe acute respiratory syndrome coronavirus 2; CRISPR: clustered regularly interspaced short palindromic repeats; 95%CI: 95% confidence interval; Ct: cycle threshold.