Table 2.
Accuracy of the BMRT HPV PCR assay compared with sequencing from all the 817 samples
| Type | +a/+b | +/- | -/+ | -/- | Sensitivity | Specificity | False positive rate | False negative rate | Concordance rate | PPV | NPV | k | 95 % CI |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| HPV16 | 361 | 7 | 3 | 446 | 99.2 % | 98.5 % | 1.5 % | 0.8 % | 98.8 % | 98.1 % | 99.3 % | 0.975 | 0.960–0.991 |
| HPV18 | 138 | 1 | 4 | 674 | 97.2 % | 99.9 % | 0.1 % | 2.8 % | 99.4 % | 99.3 % | 99.4 % | 0.979 | 0.960–0.997 |
| HPV31 | 35 | 1 | 1 | 780 | 97.2 % | 99.9 % | 0.1 % | 2.8 % | 99.8 % | 97.2 % | 99.9 % | 0.971 | 0.931–1.011 |
| HPV59 | 32 | 3 | 0 | 782 | 100.0 % | 99.6 % | 0.4 % | 0.0 % | 99.6 % | 91.4 % | 100.0 % | 0.953 | 0.901–1.006 |
| HPV66 | 33 | 0 | 0 | 784 | 100.0 % | 100.0 % | 0.0 % | 0.0 % | 100.0 % | 100.0 % | 100.0 % | 1 | ~ |
| HPV53 | 54 | 3 | 0 | 760 | 100.0 % | 99.6 % | 0.4 % | 0.0 % | 99.6 % | 94.7 % | 100.0 % | 0.971 | 0.938–1.004 |
| HPV33 | 39 | 1 | 3 | 774 | 92.9 % | 99.9 % | 0.1 % | 7.1 % | 99.5 % | 97.5 % | 99.6 % | 0.949 | 0.896–0.999 |
| HPV58 | 85 | 1 | 4 | 727 | 95.5 % | 99.9 % | 0.1 % | 4.5 % | 99.4 % | 98.8 % | 99.5 % | 0.968 | 0.940–0.996 |
| HPV45 | 20 | 0 | 0 | 797 | 100.0 % | 100.0 % | 0.0 % | 0.0 % | 100.0 % | 100.0 % | 100.0 % | 1 | ~ |
| HPV56 | 56 | 9 | 0 | 752 | 100.0 % | 98.8 % | 1.2 % | 0.0 % | 98.9 % | 86.2 % | 100.0 % | 0.920 | 0.868–0.972 |
| HPV52 | 104 | 5 | 2 | 706 | 98.1 % | 99.3 % | 0.7 % | 1.9 % | 99.1 % | 95.4 % | 99.7 % | 0.963 | 0.935–0.990 |
| HPV35 | 21 | 3 | 0 | 793 | 100.0 % | 99.6 % | 0.4 % | 0.0 % | 99.6 % | 87.5 % | 100.0 % | 0.932 | 0.854–1.008 |
| HPV68 | 48 | 1 | 0 | 768 | 100.0 % | 99.9 % | 0.1 % | 0.0 % | 99.9 % | 98.0 % | 100.0 % | 0.989 | 0.968–1.011 |
| HPV51 | 40 | 2 | 0 | 775 | 100.0 % | 99.7 % | 0.3 % | 0.0 % | 99.8 % | 95.2 % | 100.0 % | 0.974 | 0.939–1.010 |
| HPV39 | 30 | 1 | 0 | 786 | 100.0 % | 99.9 % | 0.1 % | 0.0 % | 99.9 % | 96.8 % | 100.0 % | 0.983 | 0.950–1.016 |
| HPV82 | 12 | 0 | 0 | 805 | 100.0 % | 100.0 % | 0.0 % | 0.0 % | 100.0 % | 100.0 % | 100.0 % | 1 | ~ |
| HPV26 | 2 | 1 | 0 | 814 | 100.0 % | 99.9 % | 0.1 % | 0.0 % | 99.9 % | 66.7 % | 100.0 % | 0.799 | 0.415–1.184 |
| HPV73 | 4 | 0 | 0 | 813 | 100.0 % | 100.0 % | 0.0 % | 0.0 % | 100.0 % | 100.0 % | 100.0 % | 1 | ~ |
| HPV6 | 70 | 3 | 1 | 743 | 98.6 % | 99.6 % | 0.4 % | 1.4 % | 99.5 % | 95.9 % | 99.9 % | 0.970 | 0.940–0.999 |
| HPV11 | 26 | 8 | 0 | 783 | 100.0 % | 99.0 % | 1.0 % | 0.0 % | 99.0 % | 76.5 % | 100.0 % | 0.862 | 0.767–0.956 |
| HPV81 | 45 | 6 | 2 | 764 | 95.7 % | 99.2 % | 0.8 % | 4.3 % | 99.0 % | 88.2 % | 99.7 % | 0.913 | 0.854–0.973 |
| Total | 1255 | 56 | 20 | 15826 | 98.4 % | 99.6 % | 0.4 % | 1.6 % | 99.6 % | 95.7 % | 99.9 % | 0.968 | 0.961–0.975 |
Note: aindicates the results of the BMRT HPV PCR assay, and bindicates the results of the sequencing