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

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

  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* -
  1. *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.