Appendix 2:
Full table for type 1 errors results based on 20,000 replications (in %)
| Continuous | Binary | ||||||
|---|---|---|---|---|---|---|---|
| Scenarios (+/−/0) | α level | famGEa | rareGEb | BTc | famGEa | rareGEb | BTc |
| 4/0/16 | 5 | 4.96 | 5.30 | 5.01 | 5.03 | 5.51 | 5.07 |
| 1 | 1.00 | 1.10 | 1.02 | 1.02 | 1.25 | 1.05 | |
| 0.1 | 0.10 | 1.70 | 0.10 | 0.12 | 0.18 | 0.10 | |
| 8/0/12 | 5 | 4.88 | 5.21 | 4.99 | 4.84 | 5.57 | 4.92 |
| 1 | 1.00 | 1.03 | 1.00 | 0.97 | 1.34 | 0.95 | |
| 0.1 | 0.10 | 0.11 | 0.10 | 0.11 | 0.19 | 0.09 | |
| 12/0/8 | 5 | 4.95 | 5.20 | 4.99 | 4.82 | 5.54 | 4.98 |
| 1 | 0.94 | 1.20 | 0.96 | 1.06 | 1.22 | 0.90 | |
| 0.1 | 0.10 | 0.15 | 0.10 | 0.08 | 0.15 | 0.10 | |
| 16/0/4 | 5 | 5.04 | 5.38 | 5.00 | 4.84 | 5.70 | 5.00 |
| 1 | 0.91 | 1.16 | 0.99 | 0.97 | 1.41 | 0.94 | |
| 0.1 | 0.11 | 0.16 | 0.10 | 0.12 | 0.20 | 0.10 | |
| 2/2/16 | 5 | 4.80 | 5.25 | 5.00 | 4.97 | 5.56 | 5.06 |
| 1 | 0.95 | 1.20 | 1.01 | 0.94 | 1.16 | 0.97 | |
| 0.1 | 0.10 | 0.14 | 0.11 | 0.11 | 0.16 | 0.11 | |
| 4/4/12 | 5 | 4.99 | 5.33 | 5.02 | 4.84 | 5.52 | 4.89 |
| 1 | 0.93 | 1.05 | 1.00 | 0.97 | 1.16 | 0.96 | |
| 0.1 | 0.10 | 0.19 | 0.10 | 0.10 | 0.14 | 0.09 | |
| 6/6/8 | 5 | 4.93 | 5.41 | 4.94 | 4.88 | 5.61 | 4.88 |
| 1 | 1.03 | 1.10 | 1.04 | 0.92 | 1.37 | 1.00 | |
| 0.1 | 0.10 | 0.14 | 0.10 | 0.11 | 0.17 | 0.11 | |
| 8/8/4 | 5 | 5.02 | 5.31 | 4.93 | 4.89 | 5.55 | 4.79 |
| 1 | 0.90 | 1.11 | 0.99 | 0.97 | 1.27 | 0.94 | |
| 0.1 | 0.10 | 0.17 | 0.12 | 0.10 | 0.16 | 0.10 | |
+/−/0: number of variants with main genotype effect sizes that are positive, negative, and neutral
a
famGE: our proposed method accounting for family correlation
b
rareGE: interaction test ignoring family correlation
c
BT: burden test