Table 1.

Performance of the rs4406273-A allele as a surrogate for HLA-C*06:02.

Variable	Michigan sample (10,018 alleles)	Pakistan sample (1,670 alleles)	Thailand sample (614 alleles)
frequency HLA-C*06:02	0.1624 (0.1553–0.1698)1	0.1725 (0.1551–0.1913)	0.1303 (0.1060–0.1592)
frequency rs4406273-A	0.1612 (0.1541–0.1685)	0.1683 (0.1511–0.1870)	0.1336 (0.1089–0.1628)
D′ measure of LD	0.9963 (0.9927–0.9993)	0.9870 (0.9710–1.0000)	1.0000 (1.0000–1.0000)
r2 measure of LD	0.9839 (0.9769–0.9903)	0.9456 (0.9150–0.9722)	0.9706 (0.9255–1.0000)
genotype concordance	0.9956 (0.9934–0.9971)	0.9844 (0.9736–0.9909)	0.9935 (0.9766–0.9988)
sensitivity	0.9896 (0.9833–0.9935)	0.9653 (0.9373–0.9810)	1.0000 (0.9542–1.0000)
specificity	0.9994 (0.9986–0.9997)	0.9978 (0.9936–0.9994)	0.9963 (0.9864–0.9993)
PPV	0.9969 (0.9928–0.9987)	0.9893 (0.9691–0.9971)	0.9756 (0.9154–0.9957)
NPV	0.9980 (0.9968–0.9987)	0.9928 (0.9868–0.9961)	1.0000 (0.9928–1.0000)
accuracy	0.9978 (0.9967–0.9985)	0.9922 (0.9867–0.9954)	0.9967 (0.9882–0.9994)
MCC	0.9919 (0.9885–0.9953)	0.9726 (0.9579–0.9875)	0.9859 (0.9667–1.0000)

Abbreviations: LD, linkage disequilibrium; PPV, positive predictive value; NPV, negative predictive value; MCC, Matthews correlation coefficient

¹95% confidence intervals shown in parentheses for all values