Table S3. Diagnostic performance of mNGS, traditional culture, and Xpert in TB.
| Samples | Sensitivity (95% CI) | Specificity (95% CI) | +PV (95% CI) | −PV (95% CI) | Youden index |
|---|---|---|---|---|---|
| All samples | |||||
| Traditional culture | 46.2% (0.204–0.739) | 100% (0.517–1.000) | 100% (0.517–1.000) | 46.2% (0.204–0.739) | 46.2% |
| mNGS | 76.9% (0.460–0.938) | 100% (0.517–1.000) | 100% (0.655–1.000) | 66.7% (0.309–0.910) | 76.9% |
| Xpert | 61.5% (0.323–0.849) | 100% (0.517–1.000) | 100% (0.598–1.000) | 54.5% (0.246–0.819) | 61.5% |
| mNGS + Xpert | 84.6% (0.537–0.973) | 100% (0.517–1.000) | 100% (0.679–1.000) | 75.0% (0.356–0.955) | 84.6% |
| mNGS + Xpert + traditional culture | 92.3% (0.621–0.996) | 100% (0.517–1.000) | 100% (0.699–1.000) | 85.7% (0.420–0.992) | 92.3% |
| Pulmonary samples | |||||
| Traditional culture | 62.5% (0.259–0.898) | 100% (0.198–1.000) | 100% (0.463–1.000) | 40.0% (0.073–0.830) | 62.5% |
| mNGS | 87.5% (0.467–0.993) | 100% (0.198–1.000) | 100% (0.560–1.000) | 66.7% (0.125–0.982) | 87.5% |
| Xpert | 75.0% (0.356–0.955) | 100% (0.198–1.000) | 100% (0.517–1.000) | 50.0% (0.092–0.908) | 75.0% |
| mNGS + Xpert | 100.0% (0.598–1.00) | 100% (0.198–1.000) | 100% (0.598–1.000) | 100% (0.198–1.00) | 100% |
| mNGS + Xpert + traditional culture | 100.0% (0.598–1.00) | 100% (0.198–1.000) | 100% (0.598–1.000) | 100% (0.198–1.00) | 100% |
| Extrapulmonary samples | |||||
| Traditional culture | 20.0% (0.011–0.701) | 100% (0.396–1.000) | 100% (0.055–1.000) | 50.0% (0.174–0.826) | 20.0% |
| mNGS | 60.0% (0.170–0.927) | 100% (0.396–1.000) | 100% (0.310–1.000) | 66.7% (0.241–0.940) | 60.0% |
| Xpert | 40.0% (0.073–0.830) | 100% (0.396–1.000) | 100% (0.198–1.000) | 57.1% (0.202–0.882) | 40.0% |
| mNGS + Xpert | 60.0% (0.170–0.927) | 100% (0.396–1.000) | 100% (0.310–1.000) | 66.7% (0.241–0.940) | 66.7% |
| mNGS + Xpert + traditional culture | 80.0% (0.396–1.00) | 100% (0.396–1.000) | 100% (0.396–1.000) | 80.0% (0.299–0.989) | 80.0% |
TB, tuberculosis; mNGS, metagenomic next-generation sequencing; Xpert, GeneXpert MTB/RIF assay; 95% CI, 95% confidence interval; +PV, positive predictive value; −PV, negative predictive value.