Table 2.
Type 1 error rate for common variants, compared to rare variants collapsed by CMC or burden tests.
| Cases that are of African Ancestry, % | Correction | Rare (CMC) | Rare (Burden) | Common |
|---|---|---|---|---|
| 50% | Before | 0.045 | 0.056 | 0.036 |
| PCA | 0.055 | 0.060 | 0.032 | |
| GC | 0.045 | 0.056 | 0.036 | |
|
| ||||
| 90% | Before | 0.58 | 0.61 | 0.87 |
| PCA | 0.07 | 0.06 | 0.036 | |
| GC | 0 | 0 | 0.01 | |
Rates are presented before and after correction by principal component (PCA correction) and genomic control (GC correction). Simulations are based on 10-kb regions in 1,000 cases and 1,000 controls. All simulations assumed 50% of controls have African Ancestry.