SNPs† | Haplotype | Control Neg | Control Pos | Case Neg | Case Pos | OR | p Value‡ |
---|---|---|---|---|---|---|---|
Single-SNPs | |||||||
rs11154801_A | 1 | 7592 | 10 908 | 4212 | 7152 | 1.24 (1.18 to 1.30) | 2×10−18 |
rs1475069_C | 1 | 9444 | 9299 | 5036 | 6032 | 1.22 (1.16 to 1.28) | 3×10−16 |
Multiple SNPs | |||||||
rs7739635 _A | |||||||
rs10223338_A | |||||||
rs12202212_A | |||||||
rs1475069_C | 0001000 | 18 616 | 34 | 10 815 | 175 | 8.9 (6.1 to 13.2) | 5×10−44 |
rs2038551_A | |||||||
rs9399161_G | |||||||
rs4896180_G |
The SNP rs11154801_A is the top single-SNP ‘hit’ in the region. The SNP rs1475069_C is the top single-SNP ‘hit’ within the multi-SNP-haplotype but the fourth most significant single-SNP ‘hit’ overall. These two SNPs are separated by 317 kb of DNA. The 95% CIs for the OR are shown in parentheses.
*In all cases the model selected was dominant.
†Letters designate the minor allele nucleotide at the SNP location in the control population. Thus, the letters, which follow each SNP’s so-called ‘rs ID’ number, indicate the allele that was designated as the ‘1’ allele.
‡The p values presented have not been corrected for the total number of SNP-haplotypes or single-SNPs tested. The total number of SNP-haplotypes (of any length from 1 to 15 SNPs) was 110 310. Therefore, the Bonferroni-corrected p value for the multi-SNP-haplotype is 6×10−39, which is still well below the uncorrected p value for the single-SNP.
SNP, single nucleotide polymorphism.