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Table 1 The Power and Type I error of CDEP, Meta-Profile and Meta-RankProd from simulation study.

From: Consistent Differential Expression Pattern (CDEP) on microarray to identify genes related to metastatic behavior

     CDEP Meta-Profile Meta-RankProd
p q |Δ| FDR Power (%) Type I error Power (%) Type I error Power (%) Type I error
0.05 0.05 1 0.05 28.7 1.64 × 10-4 6.40 1.92 × 10-6 23.7 1.21 × 10-2
    0.1 31.0 3.52 × 10-4 9.10 1.92 × 10-6 24.5 1.23 × 10-2
    0.2 70.2 2.21 × 10-3 11.9 1.35 × 10-5 27.2 1.27 × 10-2
   2 0.05 33.4 2.02 × 10-4 15.4 1.35 × 10-5 33.2 1.18 × 10-2
    0.1 34.3 4.22 × 10-4 15.6 1.73 × 10-5 45.0 1.24 × 10-2
    0.2 74.9 2.28 × 10-3 18.2 2.31 × 10-5 56.3 1.38 × 10-2
0.1 0.1 1 0.05 26.2 2.29 × 10-4 8.93 2.84 × 10-6 23.6 2.29 × 10-2
    0.1 27.8 5.31 × 10-4 11.4 4.88 × 10-6 24.4 2.31 × 10-2
    0.2 33.1 1.84 × 10-3 13.4 1.12 × 10-4 26.7 2.36 × 10-2
   2 0.05 32.8 2.99 × 10-4 15.6 5.90 × 10-5 27.0 2.34 × 10-2
    0.1 33.1 6.02 × 10-4 18.2 1.16 × 10-4 32.2 2.39 × 10-2
    0.2 36.8 2.08 × 10-3 23.6 2.32 × 10-4 46.4 2.56 × 10-2
0.05 0.1 1 0.05 28.2 1.61 × 10-4 8.00 8.12 × 10-6 24.3 1.16 × 10-2
    0.1 29.5 3.11 × 10-4 10.7 1.83 × 10-5 25.7 1.18 × 10-2
    0.2 66.5 1.78 × 10-3 13.0 2.64 × 10-5 29.7 1.22 × 10-2
0.1 0.2 1 0.05 21.8 9.36 × 10-5 10.3 4.35 × 10-5 23.3 2.33 × 10-2
    0.1 26.3 4.68 × 10-4 12.5 9.14 × 10-5 23.5 2.34 × 10-2
    0.2 31.7 1.61 × 10-3 14.0 1.94 × 10-4 24.3 2.36 × 10-2
  1. p is the proportion of genes differentially expressed only in a certain dataset, and q is the proportion of consistently differentially expressed genes; Δ is the simulated mean difference between the expression values in case and control condition for the differentially expressed genes. FDR is the proportion of false positives among the genes identified to be consistently differentially expressed across all datasets. The results in the table are the mean values of 10 different simulated datasets. Additional simulation results can be found in Additional File 2.