Table IV.
The number of SNPs with p-values below thresholds (0.05 and 1×10-4) out of 131,880 SNPs. Gonomic control (GC) correction preserved type I error.
| Analysis | 1DF Main Only | 1DF Main | 1DF Interaction | 2DF Joint Main and Int. | |
|---|---|---|---|---|---|
| P < 0.05 | Mega-analysis | 6,617 (6%) | 5,935 (5%) | 13,584 (11%) | 11,691 (9%) |
| Meta-analysis | 6,617 (6%) | 5,935 (5%) | 13,584 (11%) | 11,691 (9%) | |
| Mega-GC analysis | 6,896 (5%) | 7,167 (5%) | 6,469 (5%) | 7,529 (6%) | |
| Meta-GC analysis | 6,970 (5%) | 7,024 (5%) | 6,604 (5%) | 7,945 (6%) | |
| GC-Meta analysis | 6,527 (5%) | 5,710 (4%) | 6,752 (5%) | 7,790 (6%) | |
|
| |||||
| P < 1×10-4 | Mega-analysis | 37 | 2 | 215 | 108 |
| Meta-analysis | 20 | 3 | 188 | 118 | |
| Mega-GC analysis | 20 | 2 | 8 | 35 | |
| Meta-GC analysis | 32 | 4 | 9 | 36 | |
| GC-Meta analysis | 20 | 2 | 8 | 35 | |
For Mega-GC and Meta-GC, GC correction was applied after mega-analysis and meta-analysis, respectively. For GC-Meta, GC correction was applied for each study-specific analysis before meta-analysis.