From: The bench scientist's guide to statistical analysis of RNA-Seq data
Functional Category | Optimized | DESeq marginal | edgeR marginal | |||
---|---|---|---|---|---|---|
 | # of genes | p-value | # of genes | p-value | # of genes | p-value |
Stress | 497 | 0 * | 70 | 2.20E-03 * | 19 | 0.17 |
Signaling | 909 | 0 * | 102 | 0.43 | 40 | 0.70 |
Cell wall | 263 | 8.51E-29 * | 28 | 0.14 | 4 | 0.50 |
Photosynthesis | 117 | 3.79E-05 * | 22 | 0.76 | 4 | 0.23 |
RNA | 1132 | 6.04E-05 * | 222 | 0.01 * | 98 | 4.40E-03 * |
Hormone metabolism | 321 | 3.08E-04 * | 36 | 0.01 * | 19 | 0.51 |
DNA | 133 | 0.002 * | 34 | 0.70 | 19 | 0.03 * |
Major CHO metabolism | 76 | 0.003 * | 5 | 0.72 | 7 | 0.42 |
Lipid metabolism | 223 | 0.023 * | 23 | 0.34 | 16 | 0.88 |
Mitochondrial electron transport / ATP synthesis | 71 | 0.042 * | 2 | 0.17 | 10 | 0.04 * |
TCA cycle | 44 | 0.049 * | --- | --- | 7 | 0.53 |