Table 2.
Loci with strongest association with generalized vitiligo age of onset
| Chr. | Locus region1 | SNP | Location (nt) | Genome-wide association analysis
|
Replication analysis
|
Combined analysis
|
||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Early-onset allele | Risk allele frequency | Linear regression P-value (two tailed) | Cox model P-value (two tailed) | Hazard ratio2 | Early-onset allele | Linear regression P-value (one tailed) | Cox model P-value (one tailed) | Hazard ratio2 | Early-onset allele | Linear regression P-value (two tailed) | Cox model P-value (two tailed) | Hazard ratio2 | ||||
| 6p21.3 | C6orf10/BTNL2 | rs7758128 | 32345283 | A | 0.06 | 3.22 × 10−9 | 4.92 × 10−9 | 1.61 | A | 2.05 × 10−3 | 0.014 | 1.30 | A | 8.14 × 10−11 | 1.36 × 10−9 | 1.50 |
|
| ||||||||||||||||
| 6p21.3 | HLA-DRB1-DQA1 | rs532098 | 32578052 | T | 0.60 | 1.56 × 10−5 | 1.30 × 10−5 | 1.19 | T | 0.081 | 0.044 | 1.09 | T | 1.83 × 10−5 | 4.23 × 10−6 | 1.15 |
Abbreviations: Chr., chromosome; SNP, single-nucleotide polymorphism.
1
Genes in close proximity to the designated SNP.
2
Effect sizes are measured as multiplicative effects, corresponding to the average change in phenotype when one later-onset allele is replaced with one early-onset-associated allele.
For each SNP, the P-values were calculated with family history as a covariate in a linear regression model or in a Cox model.
SNP nucleotide positions are from genome build GRCh37.