Table 2.
Variants included due to previous associations with PD in GWAS
| Variant | Chromosome | Position (bp)a | Candidate Gene | MAF in current study |
|---|---|---|---|---|
| rs2230288 | 1q22 | 155206167 | GBA | 1.7% |
| rs34372695b | 1q22 | 156030037 | SYT11 | 1.8% |
| rs708723 | 1q32 | 205739266 | PARK16 | 32.3% |
| rs10928513b | 2q21 | 135456759 | ACMSD | 44.8% |
| rs2102808b | 2q24 | 169117025 | STK39 | 13.7% |
| rs11711441b | 3q27 | 182821275 | MCCC1/LAMP3 | 12.2% |
| rs6599388b | 4p16 | 939087 | GAK | 30.7% |
| rs11724635b | 4p15 | 15737101 | BST1 | 44.4% |
| rs6812193 | 4q21 | 77198986 | STBD1/SCARB2 | 36.5% |
| rs356219b | 4q22 | 90637601 | SNCA | 40.2% |
| rs3129882b,c | 6p21 | 32409530 | HLA | 42.0% |
| rs156429 | 7p15 | 23306020 | GPNMB | 39.0% |
| rs7077361 | 10p13 | 15561543 | ITGA8 | 12.5% |
| rs1491942b | 12q12 | 40620808 | LRRK2 | 21.3% |
| rs10847864b | 12q24 | 123326598 | CCDC62/HIP1R | 35.1% |
| rs2942168b | 17q21 | 43714850 | MAPT | 19.4% |
| rs12456492 | 18q12 | 40673380 | RIT2 | 33.0% |
a
Chromosomal positions are based on the February 2009 (GRCH37/hg19) genome assembly.
MAF=minor allele frequency.
b
Indicates a variant examined in a previous larger study by Sharma et al.16 that included many of the same subjects utilized in the current study.
c
The association of HLA rs3129882 with PD has been previously reported in essentially the same patient-control group (~97% overlap) utilized in the current study17; these results are reported again in the current study in order to display a more complete replication of GWAS risk factors for PD.