From: Filtering for increased power for microarray data analysis
 |  |  | Filtering Method | ||||
---|---|---|---|---|---|---|---|
Case Study | Preprocessing Method | FDR Method | None | Detection Call | Variance (log2) | Variance (original) | Signal |
Wheat Comp 1 | RMA | None | 15511 | 12524 | 12601 | 12932 | 12459 |
 |  | BH | 8546 | 9355 | 9464 | 9725 | 9163 |
 |  | q-value | 10333 | 12237 | 12369 | 13125 | 12233 |
Wheat Comp 1 | MAS5 | None | 12547 | 10520 | 3497 | 10728 | 10539 |
 |  | BH | 5869 | 6896 | 1096 | 7088 | 6880 |
 |  | q-value | 6687 | 8968 | 1137 | 9305 | 8989 |
Wheat Comp 1 | PLIER | None | 17224 | 13127 | 8151 | 13992 | 13305 |
 |  | BH | 9713 | 9811 | 5436 | 10714 | 9913 |
 |  | q-value | 12167 | 13366 | 6010 | 15541 | 14242 |
Wheat Comp 2 | RMA | None | 10309 | 7454 | 7751 | 7776 | 7391 |
 |  | BH | 643 | 1593 | 1733 | 1704 | 1329 |
 |  | q-value | 1416 | 3390 | 3874 | 3791 | 3175 |
Wheat Comp 2 | MAS5 | None | 8149 | 6187 | 2620 | 6353 | 6201 |
 |  | BH | 162 | 569 | 42 | 585 | 511 |
 |  | q-value | 328 | 1337 | 53 | 1485 | 1330 |
Wheat Comp 2 | PLIER | None | 10928 | 7473 | 5690 | 8150 | 7539 |
 |  | BH | 1048 | 1654 | 1219 | 2109 | 1633 |
 |  | q-value | 2067 | 3386 | 1736 | 4402 | 3366 |
Diabetes | RMA | None | 3469 | 3043 | 2710 | 3018 | 2991 |
 |  | BH | 644 | 781 | 710 | 807 | 783 |
 |  | q-value | 728 | 892 | 778 | 904 | 884 |
Diabetes | MAS5 | None | 3097 | 2599 | 1555 | 2597 | 2595 |
 |  | BH | 412 | 481 | 239 | 484 | 478 |
 |  | q-value | 449 | 520 | 241 | 523 | 517 |
Diabetes | PLIER | None | 3266 | 2895 | 1792 | 2912 | 2921 |
 |  | BH | 541 | 646 | 388 | 682 | 665 |
 |  | q-value | 615 | 765 | 440 | 793 | 759 |
Smoking | RMA | None | 3414 | 2511 | 2155 | 2196 | 2146 |
 |  | BH | 126 | 155 | 143 | 135 | 107 |
 |  | q-value | 135 | 184 | 177 | 158 | 121 |
Smoking | MAS5 | None | 3684 | 2522 | 1843 | 2510 | 2506 |
 |  | BH | 112 | 145 | 109 | 146 | 137 |
 |  | q-value | 130 | 166 | 116 | 164 | 155 |
Smoking | PLIER | None | 3097 | 1832 | 1824 | 1704 | 1643 |
 |  | BH | 64 | 80 | 78 | 77 | 70 |
 |  | q-value | 70 | 91 | 85 | 81 | 72 |