DNA sequence variants in the LOXL1 gene are associated with pseudoexfoliation glaucoma in a U.S. clinic-based population with broad ethnic diversity

Table 3 Haplotype analysis of rs1048661, rs3825942 and rs2165241 in PXF patients and Controls

	Estimated haplotype frequency (%)
Haplotype	PXF	Controls	Combined	P_value	OR (95%CI)
GGT	75.3	45.4	66.3	2.8 × 10^-11	3.66 (2.53, 5.30)
TGC	16.3	26.3	19.3	0.0057	0.54 (0.35, 0.83)
GAC	1.3	19.7	6.8	1.9 × 10^-12	0.05 (0.02, 0.13)
GGC	6.6	7.2	6.8	0.78	0.88 (0.44, 1.74)
TGT	0.6	0.7	0.6	0.78	0.85 (0.08, 9.45)
GAT	0.0	0.6	0.2	0.11	-
TAC	0.0	0.0	0.0	1.00	-
TAT	0.0	0.0	0.0	1.00	-
Total	100.0	100.0	100.0	1.8 × 10^-11*	-

*This P value was obtained from the omnibus test using WHAP,³¹ while the other P values were obtained from the haplotype-specific test. OR was calculated for each individual haplotype compared to all the other haplotypes. 'GGT' is the combination of 'at risk' alleles at all three SNPs.

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