Table 1 Results from FDR program QVALUE in 11 replicates
From: Comparison of false-discovery rate for genome-wide and fine mapping regions
| Â | Genome-wide (n = 9187 SNPs) | Fine mapping (n = 2094 SNPs) | ||||||
|---|---|---|---|---|---|---|---|---|
| Â | Number significant (%) | Â | Number significant (%) | Â | ||||
Replicate | p ≤ 0.05 | Bonferroni | FDR | FDR π0 | p ≤ 0.05 | Bonferroni | FDR | FDR π0 |
90 | 498 (5.4) | 21 (0.23) | 28 (0.30) | 0.982 | 944 (45.1) | 489 (23.4) | 1001 (47.8) | 0.339 |
91 | 483 (5.3) | 21 (0.23) | 28 (0.30) | 0.997 | 948 (45.3) | 448 (21.4) | 940 (44.9) | 0.464 |
92 | 484 (5.3) | 23 (0.25) | 24 (0.26) | 1 | 939 (44.9) | 459 (21.9) | 1082 (51.7) | 0.248 |
93 | 501 (5.5) | 18 (0.20) | 25 (0.27) | 1 | 914 (43.7) | 435 (20.8) | 910 (43.5) | 0.468 |
94 | 526 (5.7) | 19 (0.21) | 23 (0.25) | 0.989 | 899 (43.0) | 444 (21.2) | 879 (42.0) | 0.471 |
95 | 493 (5.4) | 20 (0.22) | 26 (0.28) | 0.992 | 1010 (48.3) | 432 (20.6) | 1069 (51.1) | 0.355 |
96 | 494 (5.4) | 18 (0.20) | 26 (0.28) | 1 | 945 (45.2) | 463 (22.1) | 966 (46.1) | 0.411 |
97 | 533 (5.8) | 17 (0.19) | 22 (0.24) | 0.992 | 1000 (47.8) | 443 (21.2) | 1010 (48.2) | 0.439 |
98 | 500 (5.4) | 19 (0.21) | 22 (0.24) | 0.958 | 939 (44.9) | 437 (20.9) | 926 (44.2) | 0.467 |
99 | 501 (5.5) | 21 (0.23) | 26 (0.28) | 1 | 923 (44.1) | 459 (21.9) | 915 (43.7) | 0.486 |
100 | 528 (5.8) | 20 (0.22) | 22 (0.24) | 0.988 | 955 (45.6) | 428 (20.4) | 981 (46.8) | 0.366 |
Average | 503.7 (5.5) | 19.7 (0.21) | 24.7 (0.27) | 0.991 | 946.9 (45.2) | 448.8 (21.4) | 970.8 (46.4) | 0.410 |