| Literature DB >> 17663796 |
Lynne Gaffikin1, John A McGrath, Marc Arbyn, Paul D Blumenthal.
Abstract
BACKGROUND: The purpose of this study was to validate the accuracy of an alternative cervical cancer test - visual inspection with acetic acid (VIA) - by addressing possible imperfections in the gold standard through latent class analysis (LCA). The data were originally collected at peri-urban health clinics in Zimbabwe.Entities:
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Year: 2007 PMID: 17663796 PMCID: PMC2018715 DOI: 10.1186/1471-2288-7-36
Source DB: PubMed Journal: BMC Med Res Methodol ISSN: 1471-2288 Impact factor: 4.615
Trichotomous coding scheme for the four tests
| Test | Low | Medium | High |
| VIA | Normal | Atypical | Abnormal, Cancer |
| Pap | Normal, Inflammation, Ascus, Agus | LGSIL | HGSIL, Cancer |
| HPV | < 1.0 RLU compared to control | >= 1.0 RLU and < 20.0 RLU compared to control | >= 20.0 RLU compared to control |
| Colposcopy/Biopsy* | Normal, Inflammation, Pure HPV | LGSIL | HGSIL, Cancer |
* For subjects with both biopsy and colposcopy results, biopsy result was used.
Comparative statistics for various LCA models involving all four tests
| Model | Parameters | LL | L2 | p | AIC |
| 1-class | 8 | -6592.39 | 1121.16 | 5.70E-188 | 13200.77 |
| 2-class | 17 | -6106.87 | 150.13 | 4.50E-09 | 12247.74 |
| 2-class with one adjustment | 21 | -6074.14 | 84.67 | 0.016 | 12190.28 |
| 2-class with two adjustments | 25 | -6065.57 | 67.54 | 0.12 | 12181.15 |
| 3-class with one adjustment | 30 | -6059.23 | 54.86 | 0.3 | 12178.47 |
Bivariate residuals for various LCA models
| 1-class (baseline) | 2-class | 2-class with adjustment for VIA * Colpo/Biop1 | 2-class with additional adjustment for Pap * Colpo/Biop | 3-class with adjustment for VIA * Colpo/Biop | |
| VIA * Pap | 25.734 | 0.778 | 0.419 | 0.661 | 0.823 |
| VIA * Colpo/Biop | 46.100 | 10.027 | 0.000 | 0.000 | 0.000 |
| VIA * HPV | 42.092 | 0.549 | 0.775 | 0.299 | 0.267 |
| Pap * Colpo/Biop | 61.058 | 1.848 | 2.457 | 0.000 | 0.597 |
| Pap * HPV | 126.607 | 0.772 | 0.507 | 0.455 | 0.198 |
| Colp/Biop * HPV | 63.347 | 1.136 | 1.111 | 1.163 | 0.446 |
1 Colpo/Biop = colposcopy/biopsy
Figure 1Probability of the Two Class LCA Model Test Result Conditional on the Latent Class*. *model probabilities generated from trichotomous results for all four tests.
Figure 2Probability of the Three Class LCA Model Test Result Conditional on the Latent Class*. *model probabilities generated from trichotomous results for all four tests.
Comparative values: conventional versus LCA model results
| Reference standard | Disease prevalence (± SE) | Test positive | Sensitivity (± SE) (*) | Specificity (± SE) |
| 1. Colposcopy/Biopsy LGSIL+ | 0.233 | VIA Abnormal, CA | 0.640 (0.022) | 0.671 (0.012) |
| Pap LGSIL + | 0.298 (0.021) | 0.923 (0.007) | ||
| HPV >= 1.0 RLU | 0.649 (0.022) | 0.638 (0.012) | ||
| 2. Colposcopy/Biopsy HGSIL+ | 0.096 | VIA Abnormal, CA | 0.775 (0.030) | 0.639 (0.011) |
| Pap LGSIL + | 0.445 (0.035) | 0.905 (0.007) | ||
| HPV >= 1.0 RLU | 0.800 (0.028) | 0.613 (0.011) | ||
| 3. LCA disease derived from Trichotomous (†) VIA, Pap, HPV, including colposcopy/biopsy: 2 class solution | 0.302 | VIA Abnormal, CA | 0.637 | 0.701 |
| Pap LGSIL + | 0.417 | 0.997 | ||
| HPV >= 1.0 RLU | 0.973 | 0.807 | ||
| Colposcopy/Biopsy LGSIL+ (‡) | 0.442 | 0.857 | ||
| Colposcopy/Biopsy HGSIL+ | 0.251 | 0.970 | ||
| 4. LCA disease derived from Trichotomous (†) VIA, Pap, HPV, including colposcopy/biopsy: 3 class solution | 0.118 (§) | VIA Abnormal, CA | 0.744 | 0.568 |
| Pap LGSIL+ | 0.560 | 0.820 | ||
| HPV >= 1.0 RLU | 0.972 | 0.568 | ||
| Colposcopy/Biopsy LGSIL+ | 0.926 | 0.758 | ||
| Colposcopy/Biopsy HGSIL+ | 0.632 | 0.860 |
(*) Standard errors (SE) are not given for the LCA-derived sensitivity and specificity estimates because some of these estimates are themselves calculated from combinations of conditional probabilities, which have individual maximum-likelihood estimated (MLE) standard errors. The MLE standard errors for these component conditional probabilities are given in Figures 1 and 2, in parentheses.
(†) Trichotomous response codes are used to define the latent classes, but results are re-interpreted dichotomously in order to calculate sensitivity and specificity estimates.
(‡) Results are given for Colposcopy/Biopsy with a low threshold (LGSIL+ is test positive, as it would be for Pap smears), and also with a high threshold (HGSIL+) as the latter is the threshold at which the gold standard for VIA testing is usually set when using the traditional formula.
(§) Prevalence of class 3 (disease) in a 3-class model; all other LCA prevalence estimates are from 2-class models.