From: MeV+R: using MeV as a graphical user interface for Bioconductor applications in microarray analysis
 |  |  | t-test |  | |
---|---|---|---|---|---|
Dataset | Benchmark | BRIDGE | p-value cut-off 0.01, no correction | p-value cut-off 0.05, standard Bonferroni correction | SAM |
HIV data | 13 positive controls, 24 negative controls | Â | Â | Â | Â |
   DE |  | 13 | 14 | 1 | 12 |
   TP |  | 13 | 13 | 1 | 12 |
   FP |  | 0 | 1 | 0 | 0 |
Affymetrix spike-in data | 65 spike-in genes | Â | Â | Â | Â |
   DE |  | 45 | 33 | 4 | 8 |
   TP |  | 45 | 31 | 4 | 8 |
   FP |  | 0 | 2 | 0 | 0 |