Table 2 Performance of the identified modules in predicting TNBC
From: Ensemble learning model for identifying the hallmark genes of NFκB/TNF signaling pathway in cancers
Module | #genes | TCGA | E-GEOD-76250 | E-GEOD-58135 | |||
|---|---|---|---|---|---|---|---|
AUC | AUCPR | AUC | AUCPR | AUC | AUCPR | ||
Mononuclear cell differentiation | 20 | 0.93 ± 0.01 | 0.51 ± 0.05 | 0.93 ± 0.03 | 0.98 ± 0.01 | 0.95 ± 0.03 | 0.85 ± 0.08 |
Positive regulation of leukocyte proliferation | 15 | 0.91 ± 0.02 | 0.50 ± 0.06 | 0.93 ± 0.03 | 0.99 ± 0.01 | 0.83 ± 0.05 | 0.63 ± 0.09 |
Cellular response to cytokine stimulus | 52 | 0.91 ± 0.02 | 0.51 ± 0.05 | 0.91 ± 0.04 | 0.98 ± 0.02 | 0.95 ± 0.03 | 0.89 ± 0.07 |
Positive regulation of cell–cell adhesion | 27 | 0.91 ± 0.02 | 0.52 ± 0.06 | 0.92 ± 0.04 | 0.98 ± 0.02 | 0.90 ± 0.03 | 0.71 ± 0.08 |
Cellular response to lipid | 36 | 0.90 ± 0.02 | 0.55 ± 0.06 | 0.91 ± 0.04 | 0.97 ± 0.02 | 0.94 ± 0.03 | 0.85 ± 0.07 |
Transmembrane receptor protein tyrosine kinase signaling pathway | 46 | 0.90 ± 0.03 | 0.51 ± 0.06 | 0.92 ± 0.04 | 0.98 ± 0.01 | 0.92 ± 0.03 | 0.78 ± 0.09 |
Positive regulation of cell migration | 78 | 0.90 ± 0.02 | 0.52 ± 0.07 | 0.93 ± 0.04 | 0.98 ± 0.02 | 0.94 ± 0.03 | 0.79 ± 0.10 |
Regulation of T cell activation | 21 | 0.90 ± 0.02 | 0.48 ± 0.06 | 0.94 ± 0.03 | 0.99 ± 0.01 | 0.91 ± 0.05 | 0.73 ± 0.10 |
Negative regulation of protein metabolic process | 90 | 0.89 ± 0.03 | 0.48 ± 0.06 | 0.90 ± 0.03 | 0.97 ± 0.02 | 0.95 ± 0.02 | 0.87 ± 0.07 |
Positive regulation of gene expression | 112 | 0.88 ± 0.03 | 0.45 ± 0.06 | 0.93 ± 0.03 | 0.98 ± 0.02 | 0.94 ± 0.03 | 0.83 ± 0.07 |
Negative regulation of gene expression | 88 | 0.87 ± 0.03 | 0.45 ± 0.07 | 0.92 ± 0.03 | 0.98 ± 0.01 | 0.95 ± 0.02 | 0.86 ± 0.07 |
Regulation of protein modification process | 117 | 0.85 ± 0.03 | 0.48 ± 0.05 | 0.94 ± 0.04 | 0.99 ± 0.02 | 0.95 ± 0.02 | 0.86 ± 0.07 |
Positive regulation of cellular biosynthetic process | 147 | 0.84 ± 0.03 | 0.42 ± 0.06 | 0.91 ± 0.04 | 0.98 ± 0.02 | 0.95 ± 0.02 | 0.88 ± 0.06 |
Positive regulation of macromolecule biosynthetic process | 139 | 0.84 ± 0.03 | 0.43 ± 0.05 | 0.91 ± 0.04 | 0.98 ± 0.02 | 0.95 ± 0.02 | 0.87 ± 0.05 |
Antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway | 3 | 0.69 ± 0.04 | 0.19 ± 0.02 | 0.81 ± 0.04 | 0.96 ± 0.01 | 0.48 ± 0.08 | 0.26 ± 0.05 |
Antigen processing and presentation of endogenous peptide antigen via MHC class I via ER pathway, TAP-independent | 3 | 0.69 ± 0.03 | 0.18 ± 0.02 | 0.80 ± 0.05 | 0.96 ± 0.01 | 0.48 ± 0.08 | 0.25 ± 0.04 |