From: Identification of a novel Parkinson’s disease locus via stratified genome-wide association study
CHR Gene | SNP | Base pair position* | Minor/major allele | Allele frequency | Association with PD | |||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Case | Control | All-PD | Sporadic-PD | Familial-PD | ||||||||||||
All-PD | Sporadic | Familial | OR | SE | P | OR | SE | P | OR | SE | P | |||||
Known highly significant loci | ||||||||||||||||
4 SNCA | rs356220 | 90641340 | T/C | 0.440 | 0.439 | 0.443 | 0.364 | 1.38 | 0.07 | 3×10-11 | 1.37 | 0.07 | 1×10-9 | 1.40 | 0.11 | 2×10-5 |
6 HLA | rs3129882 | 32409530 | G/A | 0.459 | 0.470 | 0.418 | 0.395 | 1.31 | 0.06 | 3×10-8 | 1.38 | 0.07 | 5×10-10 | 1.12 | 0.09 | 0.15 |
17 MAPT | rs199498 | 44865603 | C/T | 0.190 | 0.197 | 0.162 | 0.236 | 0.74 | 0.05 | 2×10-6 | 0.78 | 0.05 | 2×10-4 | 0.59 | 0.06 | 8×10-7 |
New Signals in NGRC | ||||||||||||||||
1 | rs2338971 | 101880005 | T/C | 0.187 | 0.179 | 0.213 | 0.232 | 0.74 | 0.04 | 2×10-7 | 0.71 | 0.04 | 4×10-8 | 0.86 | 0.08 | 0.12 |
8 | rs12681349 | 4277990 | T/C | 0.376 | 0.369 | 0.403 | 0.426 | 0.78 | 0.04 | 7×10-7 | 0.75 | 0.04 | 5×10-8 | 0.88 | 0.07 | 0.10 |
Replication | ||||||||||||||||
1 | rs2338971 | 101880005 | T/C | 0.184 | 0.182 | 0.188 | 0.212 | 0.82 | 0.06 | 5×10-3 | 0.81 | 0.07 | 6×10-3 | 0.83 | 0.08 | 0.03 |
8 | rs12681349 | 4277990 | T/C | 0.427 | 0.420 | 0.442 | 0.419 | 1.02 | 0.06 | 0.38 | 0.99 | 0.06 | 0.41 | 1.09 | 0.08 | 0.13 |
Pooled NGRC and Replication | ||||||||||||||||
1 | rs2338971 | 101880005 | T/C | 0.185 | 0.181 | 0.197 | 0.227 | 0.76 | 0.03 | 5×10-10 | 0.74 | 0.04 | 4×10-10 | 0.82 | 0.05 | 2×10-3 |