Genotypic prediction of HIV-1 subtype D tropism

Retrovirology

Table 1 Genotypic prediction of HIV-1 subtype D tropism compared to the TTT phenotypic assay

		TTT		Concordance	Genotypic Prediction
Genotypic tool		R5	R5X4/X4		Sen^a	Spe^b
Geno2pheno10	R5	12	1	58%	75%	54%
	X4	10	3	κ = 0.15 (p = 0.14)
Combined 11/25 and net charge rules	R5	15	0	73%	100%	68%
	X4	7	4	κ = 0.40 (p < 0.01)

^aSen: sensitivity is the capacity for detecting CXCR4-using viruses, calculated by the number of concordant X4/R5X4 results divided by the number of viruses phenotyped as R5X4/X4.
^bSpe: specificity is the capacity for detecting exclusive CCR5-using viruses, calculated by the number of concordant R5 results divided by the number of viruses phenotyped as R5.
κ: kappa coefficient.

ISSN: 1742-4690