Table 1. PWAS and SMR identified PD-associated genes of PD GWAS.
| Gene | Chr | PWAS | SMR | TWAS significant | |||||||||||||
| ROSMAP | Banner | Plasma | ROSMAP | BRAIN(Yang al) | CSF(Yang al) | Plasma | |||||||||||
| Zscore | P-valuea | Zscore | P-valueb | Zscore | P-valuec | p_SMR | p_HEIDI | p_SMR | p_HEIDI | p_SMR | p_HEIDI | p_SMR | p_HEIDI | ||||
| RAB29 | 1 | 6.04 | 1.57E-09 | - | - | - | - | - | - | - | - | - | - | - | - | Suggestive | |
| EFNA3 | 1 | -5.05 | 4.39E-07 | - | - | - | - | - | - | - | - | - | - | - | - | - | |
| FCGR2A | 1 | - | - | - | - | 4.16 | 3.22E-05 | - | - | 8.60E-05 | 6.85E-01 | - | - | - | - | - | |
| FCGR2B | 1 | - | - | - | - | - | - | - | - | - | - | 4.91E-05 | 5.13E-01 | - | - | - | |
| BST1 | 4 | - | - | - | - | 5.51 | 3.55E-08 | - | - | - | - | - | - | - | - | Suggestive | |
| CD38 | 4 | -6.58 | 4.77E-11 | -5.99 | 2.16E-09 | - | - | 9.90E-07 | 7.31E-01 | - | - | 4.78E-08 | 7.93E-01 | 5.85E-01 | 5.47E-01 | Suggestive | |
| GAK | 4 | - | - | -4.49 | 6.99E-06 | - | - | - | - | - | - | - | - | - | - | Suggestive | |
| TMEM175 | 4 | -9.36 | 8.14E-21 | - | - | - | - | - | - | - | - | - | - | - | - | Suggestive | |
| HLA-DRB5 | 6 | -4.19 | 2.78E-05 | - | - | - | - | - | - | - | - | - | - | - | - | - | |
| GPNMB | 7 | 5.06 | 4.17E-07 | 5.69 | 1.24E-08 | - | - | - | - | 2.14E-06 | 4.68E-01 | - | - | - | - | Suggestive | |
| CTSB | 8 | - | - | - | - | -4.64 | 3.46E-06 | - | - | - | - | 8.02E-05 | 2.00E-02 | - | - | Suggestive | |
| HIP1R | 12 | -4.44 | 9.21E-06 | - | - | - | - | - | - | - | - | - | - | - | - | Suggestive | |
| VKORC1 | 16 | - | - | 5.08 | 3.87E-07 | - | - | - | - | - | - | - | - | - | - | Suggestive | |
| PRSS8 | 16 | - | - | - | - | -4.45 | 8.47E-06 | - | - | - | - | - | - | - | - | - | |
| STX4 | 16 | 4.24 | 2.25E-05 | - | - | - | - | - | - | - | - | - | - | - | - | Suggestive | |
| TTC19 | 17 | -5.11 | 3.29E-07 | - | - | - | - | - | - | - | - | - | - | - | - | Suggestive | |
aProteome-wide significance level in the ROSMAP dataset was set at p<3.39E-5 (adjusted by Bonferroni multiple testing correction method).
bProteome-wide significance level in the Banner dataset was set at p<4.36E-5 (adjusted by Bonferroni multiple testing correction method).
cProteome-wide significance level in the Plasma dataset was set at p<3.78E-5 (adjusted by Bonferroni multiple testing correction method).
The genes in bold are the ones that are significant in both the proteome-wide and transcriptome-wide levels.