TABLE 1.

Genotype-specific comparison of PGv1 and PGv2^a

Genotypeb	Riskc	No. of samples for each resultd:				% agreement	Total no. positive	% positive agreement	Kappa data			Two-tailed McNemar's P value
		−/−	+/−	−/+	+/+				κ	SD	Int.f
6	L	672	2	3	37	99.30	42	88.1	0.933	0.030	NP	1.000
11	L	705	0	0	9	100.00	9	100.0	1.000	0.000	PE	1.000
16	H	657	2	3	52	99.30	57	91.2	0.950	0.022	NP	1.000
18	H	702	0	4	8	99.44	12	66.7	0.797	0.099	ST	0.125
26	L	712	0	0	2	100.00	2	100.0	1.000	0.000	NA	1.000
31	H	696	0	0	18	100.00	18	100.0	1.000	0.000	PE	1.000
33	H	707	0	0	7	100.00	7	100.0	1.000	0.000	PE	1.000
34	L	713	0	0	1	100.00	1	100.0	1.000	0.000	NA	1.000
35	H	709	0	0	5	100.00	5	100.0	1.000	0.000	PE	1.000
39	H	692	0	1	21	99.86	22	95.5	0.976	0.024	NP	1.000
40	L	712	0	1	1	99.86	2	50.0	0.666	0.315	NA	1.000
42	L	677	1	4	32	99.30	37	86.5	0.924	0.034	NP	0.375
44	L	700	1	0	13	99.86	14	92.9	0.962	0.038	NP	1.000
45	H	699	1	0	14	99.86	15	93.3	0.965	0.035	NP	1.000
51	H	679	2	0	33	99.72	35	94.3	0.969	0.022	NP	0.500
52	H	685	1	1	27	99.72	29	93.1	0.963	0.026	NP	1.000
53	L	675	7	2	30	98.74	39	76.9	0.863	0.045	NP	0.180
54	L	706	0	0	8	100.00	8	100.0	1.000	0.000	PE	1.000
55	L	710	0	0	4	100.00	4	100.0	1.000	0.000	PE	1.000
56	H	696	1	2	15	99.58	18	83.3	0.907	0.053	NP	1.000
57	L	713	0	0	1	100.00	1	100.0	1.000	0.000	NA	1.000
58	H	687	3	0	24	99.58	27	88.9	0.939	0.035	NP	0.250
59	H	694	0	1	19	99.86	20	95.0	0.974	0.026	NP	1.000
66	H	685	0	0	29	100.00	29	100.0	1.000	0.000	PE	1.000
68a	H	701	0	12	1	98.32	13	7.7	0.141	0.126	po	0.000e
68b	H	702	0	0	12	100.00	12	100.0	1.000	0.000	PE	1.000
69	H	714	0	0	0	100.00	0	NA	NA	NA	NA	NA
70	L	703	0	3	8	99.58	11	72.7	0.840	0.091	NP	0.250
73	H	702	0	2	10	99.72	12	83.3	0.908	0.065	NP	0.500
82	H	708	1	0	5	99.86	6	83.3	0.908	0.091	NP	1.000
83	L	709	0	0	5	100.00	5	100.0	1.000	0.000	PE	1.000
84	L	699	1	0	14	99.86	15	93.3	0.965	0.035	NP	1.000
Total, including HPV68a		22,321	23	39	465	99.73	527	88.2	0.936	0.007	NP	0.057
Total, excluding HPV68a		21,620	23	27	464	99.77	514	90.3	0.945	0.007	NP	0.671

^aPGv1, PGMY-CHUV version 1 (standard PGMY primer set); PGv2, PGMY-CHUV version 2 (equivalent to PGv1 with the additional RSMY09-L primer and HPV68a-specific probe).

^bOnly the 32 genotypes represented on the array were considered for analysis.

^cL, low risk; H, high risk. The classification of the risk group was according to Estrade et al. (6). HPV26 was classified as low risk for the sake of simplicity, although it may be a high-risk or risk-undetermined genotype.

^d−/−, negative with both assays; +/−, PGv1 positive and PGv2 negative; −/+, PGv1 negative and PGv2 positive; +/+, positive with both assays.

^eInterpretation (Int.) of the κ values. PO, poor; ST, strong; NP, near perfect; PE, perfect; NA, not applicable.

^fP < 0.05, two-tailed McNemar's test.