Table 2. Association between xMHC genetic variants and BCP-ALL in children.
| Frequencya
|
Single SNP |
Mutually adjusted |
||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| SNP | Position | Region of xMHC | Minor allele | Cases | Controls | OR | 95% CIb | p-value | OR | 95% CIb | p-value | p-value (FWE) c |
| rs7747023 | 29133659 | Extended class I | G | 0.17 | 0.21 | 0.73 | (0.60-0.89) | 1.7x10-3 | 0.72 | (0.59-0.88) | 1.4x10-3 | 0.518 |
| rs3130785 | 30904717 | Class I | A | 0.14 | 0.11 | 1.45 | (1.16-1.82) | 1.3x10-3 | 1.37 | (1.09-1.74) | 7.9x10-3 | 0.973 |
| rs1632856 | 31079715 | Class I | A | 0.25 | 0.29 | 0.80 | (0.68-0.95) | 9.9x10-3 | 0.79 | (0.66-0.94) | 8.6x10-3 | 0.898 |
| rs2524279 | 31500885 | Class I | G | 0.11 | 0.15 | 0.73 | (0.58-0.92) | 7.9 x10-3 | 0.70 | (0.55-0.89) | 3.0x10-3 | 0.749 |
| rs9296068 | 33096673 | Class II | C | 0.42 | 0.36 | 1.37 | (1.17-1.61) | 1.2x10-4 | 1.40 | (1.19-1.66) | 5.7x10-5 | 0.036 |
| rs213203d | 33346382 | Extended class II | A | 0.47 | 0.49 | 0.68 | (0.55-0.84) | 3.6x10-4 | 0.69 | (0.55-0.86) | 7.4x10-4 | 0.347 |
Abbreviations: CI, confidence interval; FWE, family-wise type I error; OR, odds ratio; SNP, single nucleotide polymorphism; xMHC, extended major histocompatibility complex
a Frequency of the minor allele in case and control subjects
b ORs and 95% CI for each SNP in the single SNP analysis were derived using logistic regression assuming a log-additive genetic model of inheritance and adjusting for child’s age, sex, and race/ethnicity (non-Hispanic white versus Hispanic). The mutually adjusted analysis included additional adjustment for the effects of all other SNPs in the table.
c Adjustment for multiple testing was performed with 10,000 permutations of case-control status on 1,145 SNPs and using FWE rate of 0.05. An adjusted p-value of less than 0.05 was considered statistically significant.
d Evaluation of the genetic model of inheritance indicated a significant deviation from the log-additive model with an effect associated with heterozygotes. ORs and 95% CI were estimated for heterozygous genotypes compared to homozygous genotypes.