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Table 1 Top-k pathways ranked by the iDRW method in breast cancer (k = 25) and neuroblastoma data (k = 5). For each pathway, total number of genes, significant genes from gene expression (EXP) and copy number data (CNA) are shown (p-value of t-test / DESeq2 or χ2-test < 0.05)

From: Robust pathway-based multi-omics data integration using directed random walks for survival prediction in multiple cancer studies

Dataset Pathway ID Pathway name Total genes EXP CNA
Breast cancer hsa04740 Olfactory transduction 419 54 268
hsa04014 Ras signaling pathway 232 68 164
hsa04015 Rap1 signaling pathway 206 64 142
hsa04916 Melanogenesis 101 37 73
hsa04722 Neurotrophin signaling pathway 119 38 84
hsa05200 Pathways in cancer 526 166 359
hsa04933 AGE-RAGE signaling pathway in diabetic complications 99 37 67
hsa04530 Tight junction 170 53 107
hsa04510 Focal adhesion 199 76 125
hsa04080 Neuroactive ligand-receptor interaction 278 64 193
hsa05225 Hepatocellular carcinoma 168 56 112
hsa04020 Calcium signaling pathway 182 59 136
hsa04024 cAMP signaling pathway 198 58 139
hsa04217 Necroptosis 164 49 97
hsa04060 Cytokine-cytokine receptor interaction 270 70 192
hsa05152 Tuberculosis 179 58 112
hsa05165 Human papillomavirus infection 319 103 210
hsa04810 Regulation of actin cytoskeleton 208 64 132
hsa04151 PI3K-Akt signaling pathway 352 119 241
hsa04022 cGMP-PKG signaling pathway 163 58 109
hsa04630 Jak-STAT signaling pathway 162 43 112
hsa05167 Kaposi’s sarcoma-associated herpesvirus infection 186 61 114
hsa04010 MAPK signaling pathway 295 87 209
hsa04371 Apelin signaling pathway 137 46 99
hsa04390 Hippo signaling pathway 154 58 100
Neuroblastoma hsa04976 Bile secretion 71 13 5
hsa05034 Alcoholism 180 22 7
hsa01100 Metabolic pathways 1273 43 93
hsa04080 Neuroactive ligand-receptor interaction 278 21 24
hsa04151 PI3K-Akt signaling pathway 352 19 31