TABLE 2

Haplotype analyses

HaplotypeInitial samples
Replication samples
SNPs* 1 2 3 4 5 6Case frequencyControl frequencyPermutation P valueCase frequencyControl frequencyPermutation P value
n192272657360
    GGTAAT0.140.180.1620.140.170.227
    AGTAAT0.380.290.0090.360.320.021
    GACGGT0.160.190.2560.200.190.495
    GACAAC0.080.110.0960.120.120.481
HaplotypeHiroshima samples
Joint (initial + replication+ Hiroshima) samples
SNPs* 1 2 3 4 5 6Case frequencyControl frequencyPermutation P valueCase frequencyControl frequencyPermutation P value
n3561921,205824
    GGTAAT0.150.130.2720.150.160.1175
    AGTAAT0.350.260.0070.370.300.0001
    GACGGT0.190.160.2370.190.180.6447
    GACAAC0.110.080.2320.110.110.6643
  • *

    * SNP1 is equivalent to rs2051040, SNP2 to rs2796495, SNP3 to rs2143754, SNP4 to rs1418442, SNP5 to rs932447, and SNP6 to rs3738568. The total of the frequencies of the common haplotypes does not reach 1.0 because rare haplotypes with frequencies <0.05 were excluded. P values <0.05 are shown in boldface. Given the conservative Bonferroni correction, a P value <0.0125 (0.05 divided by four common haplotypes obtained from haplotype frequency estimation) is considered significant in the initial samples. In the replication samples, a P value <0.05 is considered significant.