Table 3.
Comparison of the four methods using the PGC SCZ and UKB T2D GWAS summary data
| Methods | aSPU | GATES | GW | TS |
|---|---|---|---|---|
| PGC SCZ | ||||
| Total significant genes (m,%) | 76 (31, 40.8%) | 73 (23, 31.5%) | 93 (32, 34.4%) | 215 (43, 20%) |
| Unique significant genes (u,%) | 4 (1, 25%) | 14 (0, 0%) | 15 (1, 6.7%) | 155 (13, 8.4%) |
| UKB T2D | ||||
| Total significant genes (m,%) | 54 (25, 46.3%) | 40 (12, 30%) | 57 (27, 47.4%) | 217 (47, 21.7%) |
| Unique significant genes (u,%) | 0 (0, 0%) | 7 (1, 14.3%) | 1 (0, 0%) | 155 (17, 11%) |
Note: m denotes the number of significant SNPs in GWAS and u denotes the number of significant SNPs in GWAS. GW denotes a combination of ST, S2T, and AT.