Table 1.
The power comparison between our proposed methods and SKAT
| Methods | c1 = 0.7 & c2 = 0.2a | c1 = 1.0 & c2 = 0.3 | c1 = 1.5 & c2 = 0.5 | Elapsed time* (minutes) | |||
|---|---|---|---|---|---|---|---|
| CSMD1 | SGCZ | CSMD1 | SGCZ | CSMD1 | SGCZ | ||
| MinP | 0.224 | 0.309 | 0.763 | 0.956 | 0.998 | 1 | 4.5 |
| iART.A | 0.295 | 0.366 | 0.898 | 0.960 | 1 | 1 | |
| Min-O | 0.303 | 0.380 | 0.898 | 0.974 | 1 | 1 | |
| SKAT (L) | 0 | 0 | 0 | 0 | 0 | 0 | 2.4 |
| SKAT (IBS) | 0 | 0.014 | 0 | 0.482 | 0.002 | 1 | 70 |
L denotes the linear kernel, and IBS denotes the IBS kernel.
ac1 and c2 refer to SNP effects for gene CSMD1 and SGCZ, respectively (see simulation Case II in the supplemental file for details).
bElapsed time is the average time for a single simulation based on the genome-wide data.