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Table 2 Parameters to generate simulated gene expression datasets

From: Meta-analysis approach as a gene selection method in class prediction: does it improve model performance? A case study in acute myeloid leukemia

Simulation ID n Δ ρ DEGMA a DEGIND b
1 50 0.1 0.75 12 72
2 50 0.5 0.5 57 34
3 50 0.75 0.25 70 62
4 100 0.1 0.75 12 14
5 100 0.5 0.5 53 56
6 100 0.75 0.25 67 50
7 150 0.1 0.75 15 23
8 150 0.5 0.5 52 26
9 150 0.75 0.25 58 57
  1. Symbols. n: the number of samples in each generated dataset; Δ: the log2 fold changes of differentially expressed (DE) genes. ρ: pairwise correlation of DE genes
  2. aThe number of genes that were stated as differentially expressed (DE) genes by MA approach from 50 cumulative studies. All the selected genes are true positives
  3. bThe number of true DE genes among the top-100 DE genes selected by limma procedure