Table 3.
HPV genotype-specific comparison between PCR-15 with LA.
| HPV Type * | +/+ | +/− | Test Results ** −/+ | −/− | Agreement (%) | Positive Agreement (%) |
Kappa | 95% CI | Interpretation | p-Value |
|---|---|---|---|---|---|---|---|---|---|---|
| All 37 types | 272 | 95 | 24 | 2384 | 95.7 | 82.1 | 0.796 | 0.761–0.832 | Substantial | <0.000001 |
| 14 HR types | 134 | 34 | 6 | 876 | 96.2 | 87.0 | 0.848 | 0.802–0.894 | Almost perfect | <0.0001 |
| LR types | 138 | 61 | 18 | 1508 | 95.4 | 77.7 | 0.752 | 0.700–0.804 | Substantial | <0.0000001 |
| HPV16/18 | 30 | 1 | 0 | 119 | 99.3 | 98.4 | 0.979 | 0.939–1.00 | Almost perfect | 1 |
| 16 β | 16 | 1 | 0 | 58 | 98.7 | 97 | 0.961 | 0.886–1.00 | Almost perfect | 1 |
| 18 β | 14 | 0 | 0 | 61 | 100 | 100 | 1.000 | 1.000–1.000 | Perfect | 1 |
| 31 β | 8 | 3 | 1 | 63 | 94.7 | 80.0 | 0.77 | 0.554–0.985 | Substantial | 0.617 |
| 33 β | 6 | 3 | 0 | 66 | 96 | 80.0 | 0.779 | 0.54–1.00 | Substantial | 0.248 |
| 35 | 7 | 3 | 0 | 65 | 96 | 82.4 | 0.802 | 0.586–1.00 | Almost perfect | 0.248 |
| 39 | 9 | 3 | 1 | 62 | 94.7 | 81.9 | 0.787 | 0.587–0.987 | Substantial | 0.617 |
| 45 β | 11 | 2 | 0 | 62 | 97.3 | 91.7 | 0.901 | 0.766–1.00 | Almost perfect | 0.479 |
| 51 | 13 | 2 | 0 | 60 | 97.3 | 92.9 | 0.912 | 0.793–1.00 | Almost perfect | 0.479 |
| 52 β | 15 | 3 | 0 | 57 | 96 | 90.9 | 0.884 | 0.756–1.00 | Almost perfect | 0.248 |
| 56 | 5 | 3 | 1 | 66 | 94.7 | 71.4 | 0.686 | 0.397–0.974 | Substantial | 0.617 |
| 58 β | 9 | 2 | 1 | 63 | 96 | 85.7 | 0.834 | 0.651–1.00 | Almost perfect | 1 |
| 59 | 11 | 4 | 1 | 59 | 93.3 | 81.5 | 0.775 | 0.587–0.962 | Substantial | 0.371 |
| 66 | 5 | 4 | 0 | 66 | 94.7 | 71.4 | 0.687 | 0.404–0.971 | Substantial | 0.133 |
| 68b | 5 | 1 | 1 | 68 | 97.3 | 83.3 | 0.819 | 0.574–1.00 | Almost perfect | 0.479 |
| 11 | 4 | 1 | 0 | 70 | 98.7 | 88.9 | 0.882 | 0.654–1.00 | Almost perfect | 1 |
| 26 | 4 | 1 | 0 | 70 | 98.7 | 88.9 | 0.882 | 0.654–1.00 | Almost perfect | 1 |
| 40 | 4 | 1 | 0 | 70 | 98.7 | 88.9 | 0.882 | 0.654–1.00 | Almost perfect | 1 |
| 42 | 11 | 2 | 1 | 61 | 96 | 88.0 | 0.856 | 0.697–1.00 | Almost perfect | 1 |
| 53 | 11 | 2 | 0 | 62 | 97.3 | 91.7 | 0.901 | 0.766–1.00 | Almost perfect | 0.479 |
| 54 | 7 | 3 | 0 | 65 | 96 | 82.4 | 0.802 | 0.586–1.00 | Substantial | 0.248 |
| 55 | 5 | 4 | 0 | 66 | 94.7 | 71.4 | 0.687 | 0.404–0.971 | Substantial | 0.133 |
| 61 | 6 | 2 | 1 | 66 | 96 | 80.0 | 0.778 | 0.536–1.00 | Substantial | 1 |
| 62 | 13 | 2 | 1 | 59 | 96 | 89.7 | 0.872 | 0.730–1.00 | Almost perfect | 1 |
| 64 | 3 | 4 | 0 | 68 | 94.7 | 60.0 | 0.576 | 0.210–0.942 | Moderate | 0.133 |
| 67 | 5 | 4 | 1 | 65 | 93.3 | 66.7 | 0.631 | 0.336–0.926 | Substantial | 0.371 |
| 69 | 3 | 3 | 0 | 69 | 96 | 66.7 | 0.648 | 0.282–1.00 | Substantial | 0.248 |
| 6 | 8 | 6 | 0 | 61 | 92 | 72.7 | 0.684 | 0.455–0.914 | Substantial | 0.041 |
| 70 | 6 | 4 | 0 | 65 | 94.7 | 75.0 | 0.722 | 0.468–0.97 | Substantial | 0.133 |
| 71 | 3 | 0 | 0 | 72 | 100 | 100 | 1 | 1.000–1.000 | Perfect | 1 |
| 72 | 6 | 1 | 0 | 68 | 98.7 | 92.3 | 0.916 | 0.753–1.00 | Almost perfect | 1 |
| 73 | 7 | 1 | 2 | 65 | 96 | 82.4 | 0.801 | 0.583–1.00 | Almost perfect | 1 |
| 81 | 6 | 1 | 0 | 68 | 98.7 | 92.3 | 0.916 | 0.753–1.00 | Almost perfect | 1 |
| 82 Subtype IS39 | 5 | 8 | 1 | 61 | 88.0 | 52.6 | 0.468 | 0.184–0.752 | Moderate | 0.045 |
| 82 | 3 | 5 | 4 | 63 | 88.0 | 40.0 | 0.334 | 0.002–0.669 | Fair | 1 |
| 83 | 3 | 1 | 1 | 70 | 97.3 | 75.0 | 0.736 | 0.385–1.00 | Substantial | 0.479 |
| 84 | 6 | 5 | 5 | 59 | 86.7 | 54.5 | 0.467 | 0.186–0.748 | moderate | 0.751 |
| 89 | 9 | 0 | 1 | 65 | 98.7 | 94.7 | 0.94 | 0.823–1.00 | Almost perfect | 1 |
* HPV Type: Only 37 types shared between PCR-15 and LA are included in the analysis. Bold = 14 High-Risk (HR) types; β = seven nonvalent HR types (16, 18, 31, 33, 45, 52, 58); LR = Low-Risk types. Genotype-sample combination per type = 75; ** Test Results: +/+ (PCR-15+/LA+), +/− (PCR-15+/LA−), −/+ (PCR-15−/LA+) and −/− (PCR-15−/LA−).