Table 1.
Empirical sensitivities and specificities of four software for predicting anti-TB drug resistance
| Drug | Number of samples | Sensitivity | Specificity | ||||||
|---|---|---|---|---|---|---|---|---|---|
| TBProfiler | MyKrobe | KVarQ | PhyResSE | TBProfiler | MyKrobe | KVarQ | PhyResSE | ||
| INH | 4840 | 0.92 (0.91, 0.93) | 0.91 (0.89, 0.92) | 0.89 (0.88, 0.90) | 0.91 (0.89, 0.92) | 0.94 (0.93, 0.95) | 0.98 (0.97, 0.98) | 0.98 (0.98, 0.99) | 0.97 (0.96, 0.98) |
| RIF | 4843 | 0.91 (0.89, 0.92) | 0.92 (0.91, 0.94) | 0.92 (0.90, 0.93) | 0.94 (0.93, 0.95) | 0.95 (0.94, 0.96) | 0.97 (0.96, 0.97) | 0.97 (0.96, 0.97) | 0.96 (0.95, 0.97) |
| EMB | 4585 | 0.91 (0.89, 0.92) | 0.83 (0.81, 0.86) | 0.65 (0.62, 0.67) | 0.76 (0.73, 0.78) | 0.83 (0.81, 0.84) | 0.86 (0.85, 0.87) | 0.91 (0.90, 0.92) | 0.88 (0.87, 0.89) |
| PZA | 5026 | 0.59 (0.55, 0.63) | 0.38 (0.34, 0.42) | 0.54 (0.50, 0.58) | 0.58 (0.54, 0.61) | 0.92 (0.91, 0.93) | 0.98 (0.98, 0.99) | 0.94 (0.93, 0.94) | 0.97 (0.97, 0.98) |
| STM | 4357 | 0.82 (0.80, 0.84) | 0.79 (0.77, 0.81) | 0.75 (0.73, 0.77) | 0.76 (0.74, 0.78) | 0.86 (0.85, 0.87) | 0.93 (0.92, 0.94) | 0.92 (0.91, 0.93) | 0.92 (0.91, 0.93) |
| AMK | 1649 | 0.90 (0.86, 0.93) | 0.75 (0.70, 0.80) | 0.75 (0.69, 0.79) | 0.79 (0.74, 0.83) | 0.75 (0.73, 0.78) | 0.99 (0.98, 1.00) | 0.99 (0.98, 0.99) | 0.99 (0.98, 0.99) |
| CAP | 1830 | 0.71 (0.66, 0.76) | 0.67 (0.62, 0.73) | NA | 0.71 (0.65, 0.75) | 0.95 (0.93, 0.96) | 0.93 (0.92, 0.95) | NA | 0.96 (0.94, 0.97) |
| KAN | 1578 | 0.87 (0.83, 0.90) | 0.75 (0.71, 0.80) | 0.72 (0.67, 0.76) | 0.82 (0.77, 0.86) | 0.96 (0.94, 0.97) | 0.98 (0.97, 0.99) | 0.99 (0.98, 0.99) | 0.97 (0.96, 0.98) |
| CIP | 191 | 0.87 (0.75, 0.94) | 0.83 (0.71, 0.92) | 0.82 (0.70, 0.90) | 0.88 (0.77, 0.95) | 0.97 (0.92, 0.99) | 0.98 (0.93, 1.00) | 0.97 (0.92, 0.99) | 0.98 (0.93, 1.00) |
| MFX | 1086 | 0.68 (0.61, 0.75) | 0.61 (0.53, 0.68) | 0.58 (0.50, 0.65) | 0.67 (0.60, 0.74) | 0.93 (0.91, 0.94) | 0.95 (0.94, 0.97) | 0.93 (0.91, 0.94) | 0.95 (0.93, 0.96) |
| OFX | 2424 | 0.81 (0.78, 0.84) | 0.74 (0.71, 0.78) | 0.72 (0.68, 0.75) | 0.81 (0.77, 0.84) | 0.96 (0.95, 0.97) | 0.98 (0.97, 0.98) | 0.96 (0.95, 0.97) | 0.97 (0.97, 0.98) |
| ETO | 835 | 0.41 (0.35, 0.48) | NA | NA | 0.07 (0.04, 0.11) | 0.82 (0.79, 0.85) | NA | NA | 0.97 (0.95, 0.98) |
| PTO | 540 | 0.30 (0.24, 0.37) | NA | NA | 0.02 (0.01, 0.05) | 0.92 (0.89, 0.95) | NA | NA | 1.00 (0.98, 1.00) |
| PAS | 469 | 0.14 (0.08, 0.24) | NA | NA | 0.00 (0.00, 0.04) | 0.97 (0.95, 0.98) | NA | NA | 1.00 (0.99, 1.00) |
Numbers in brackets represent the corresponding 95% confidence intervals. An NA is assigned when the software does not predict the resistance profile for the specific drug