Table 4.
Summary of the Statistically Significant SNPs from the Meta Analysis of the Discovery and Replication Samples and for Conditional Analyses of the Combined Sample
| Region | # of markers tested | Marker | Chr | Position | Alleles (Ref/Other) | Discovery
|
Replication
|
Combined Sample
|
|||
|---|---|---|---|---|---|---|---|---|---|---|---|
| p-value | Ref Freq | p-value | OR (95% CI) | # SNPs tagged | p-value | ||||||
| GBA | 7 | E326K | 1 | 153472791 | A/G | 2 × 10−5 | 0.017 | 0.0009 | 1.71 (1.55–1.89) | 2 | 5 × 10−8 |
| N370S† | 1 | 153472258 | C/T | NAa | 0.009 | 7 × 10−5 | 3.08 (2.32–4.09) | 2 | 7 × 10−5 | ||
| GAK | 13 | rs11248060 | 4 | 954359 | T/C | 1 × 10−9 | 0.131 | 0.045 | 1.26 (1.21–1.31) | 7 | 3 × 10−9 |
| SNCA | 33 | rs356220 | 4 | 90860363 | T/C | 9 × 10−21 | 0.414 | 1 × 10−15 | 1.38 (1.34–1.42) | 12 | 8 × 10−35 |
| rs356198† | 4 | 90901527 | A/G | 4 × 10−5 | 0.175 | 2 × 10−5 | 0.82 (0.79–0.84) | 3 | 5 × 10−9 | ||
| HLA region | 24 | rs2395163 | 6 | 32495787 | C/T | 3 × 10−7 | 0.197 | 1 × 10−5 | 0.81 (0.78–0.84) | 11 | 3 × 10−11 |
| MAPT | 40 | rs199515 | 17 | 42211804 | G/C | 2 × 10−11 | 0.187 | 4 × 10−7 | 0.76 (0.74–0.79) | 29 | 3 × 10−17 |
| RIT2 | 8 | rs12456492 | 18 | 38927378 | G/A | 4 × 10−5 | 0.340 | 5 × 10−7 | 1.19 (1.16–1.22) | 6 | 2 × −10 |
†
Indicates a conditional analysis that includes the most significant SNPs in the region as a covariate(additive model); odds ratios and p-values for these SNPs are from the conditional analysis. The same conditional analysis was then performed in the Discovery Sample and meta-analyzed.
a
N370S was not tagged in the discovery set and could not be included in a conditional analysis of that dataset.