Table 2:
The number of independent discoveries for various phenotypes analyzed under both the knockoff framework and the conventional marginal hypothesis testing. GK stands for ghost-knockoff and FDR stands for false-discovery rate. The target FDR is set to 10% and 20%. Note the runtime corresponds to the runtime of GhostKnockoffGWAS and does not include the runtime for solveblock, since the later only needs to be done once for a population of interest.
| Phenotype | # marginal | GK FDR 10% | GK FDR 20% | GK runtime (seconds) |
|---|---|---|---|---|
|
| ||||
| Height | 450 | 544 | 722 | 533 |
| Weight | 258 | 210 | 401 | 540 |
| Waist circumference | 166 | 73 | 245 | 540 |
| Body mass index | 209 | 165 | 344 | 760 |
| Body fat mass | 211 | 146 | 333 | 485 |
| Diastolic blood pressure | 121 | 123 | 207 | 746 |
| Systolic blood pressure | 142 | 138 | 241 | 698 |
| Whitecell | 184 | 190 | 326 | 756 |
| Redcell | 258 | 281 | 446 | 766 |
| Haemoglobin | 198 | 218 | 361 | 768 |
| Haematocrit | 181 | 211 | 348 | 717 |
| Corpuscular volume | 229 | 278 | 403 | 754 |
| Corpuscular haemoglobin | 212 | 238 | 344 | 835 |
| Redcell width | 152 | 186 | 246 | 759 |
| Platelet | 318 | 390 | 524 | 540 |
| Platelet volume | 291 | 357 | 465 | 805 |
| Platelet width | 216 | 258 | 378 | 693 |
| Lymphocyte | 56 | 66 | 138 | 711 |
| Monocyte | 134 | 176 | 336 | 705 |
| Neutrophill | 211 | 236 | 354 | 824 |
| Eosinophill | 181 | 189 | 329 | 725 |
| Basophill | 45 | 65 | 92 | 700 |
| Nucleated redcell | 21 | 97 | 330 | 484 |
| Reticulocyte | 76 | 75 | 330 | 485 |
| Reticulocyte volume | 225 | 275 | 397 | 485 |
| Spheredcell volume | 221 | 275 | 417 | 492 |