Table 3 Eighteen common literature-defined oncogenic concepts (MCM) across the four breast cancer gene signatures (significance of overlap, P = 0.0002)
From: Pathway analysis reveals functional convergence of gene expression profiles in breast cancer
| Â | 70-gene profile | Wound Response | Intrinsic Subtype | Meta-90 | Â | Â |
|---|---|---|---|---|---|---|
Common GeneSet | No. of mapped genes (Enrichment p-value**) | MCM size | Description | |||
MCM258 | 7 (3e-04) | 25 (2e-04) | 19 (0.21) | 6 (0.09) | 350 | Downregulated genes in prostate cancer cells in response to MSA (full list) |
MCM458 | 2 (0.16) | 24 (1e-04) | 34 (0.005) | 6 (0.24) | 322 | Differentially expressed genes in MCF7 cells expressing Myb |
MCM396 | 10 (0.13) | 89 (2e-04) | 117 (0.005) | 20 (0.21) | 2265 | Upregulated genes in U937 cells expressing the PLZF/RAR fusion protein |
MCM691 | 1 (0.1) | 6 (0.06) | 19 (6e-04) | 3 (0.16) | 101 | Up-regulated genes in untreated or permanently tamoxifen-treated MaCa 3366/TAM compared with MaCa 3366 |
MCM513 | 2 (0.22) | 24 (6e-04) | 29 (0.13) | 12 (0.04) | 375 | Differentially expressed genes in EcR-293 cells in response to BRCA1 expression |
MCM277 | 1 (0.01) | 3 (0.02) | 5 (0.05) | 1 (0.16) | 22 | Upregulated genes in NCCIT cells in response to Wnt-3A |
MCM30 | 1 (0.01) | 4 (0.004) | 3 (0.25) | 1 (0.15) | 24 | Upregulated genes in colorectal cancer cells |
MCM673 | 2 (0.01) | 7 (0.008) | 7 (0.28) | 3 (0.15) | 79 | Androgen |
MCM6209872 | 2 (0.003) | 2 (0.13) | 5 (0.09) | 1 (0.16) | 34 | Skin |
MCM349 | 1 (0.01) | 2 (0.05) | 2 (0.25) | 2 (0.04) | 23 | Downregulated genes in hSNF5/INI1-deficient malignant rhabdoid tumor cell line upon hSNF5/INI1 expression |
MCM12 | 2 (0.008) | 2 (0.25) | 7 (0.09) | 2 (0.14) | 56 | Aniogenic and Non-angiogenic tumours Signature |
MCM363 | 5 (0.13) | 37 (0.007) | 46 (0.28) | 14 (0.15) | 808 | Upregulated genes in monocytes in response to IL-10 stimulation for 1 and 4 hours |
MCM574 | 4 (0.04) | 22 (0.03) | 23 (0.27) | 6 (0.13) | 497 | Upregulated genes in advanced papillary serous tumor specimens |
MCM683 | 1 (0.1) | 6 (0.06) | 11 (0.06) | 2 (0.17) | 111 | Downregulated genes wrt 3,5-diaryl-1,2,4-oxadiazole (MX-126374) |
MCM379 | 1 (0.13) | 7 (0.07) | 12 (0.12) | 2 (0.29) | 129 | Unique genes regulated by tamoxifen, but not estradiol in osteosarcoma cells |
MCM1067 | 1 (0.05) | 3 (0.15) | 5 (0.27) | 1 (0.21) | 64 | Upregulated genes in immmortilized epithelial cells in respense to Ad5-GFP infection |
MCM375 | 1 (0.13) | 6 (0.12) | 10 (0.14) | 2 (0.27) | 127 | Unique genes regulated by estradiol, but not raloxifene in osteosarcoma cells |
MCM402 | 1 (0.11) | 4 (0.25) | 8 (0.28) | 3 (0.14) | 116 | Downregulated genes in HepG2 T1 treated cells resulting from MIZ depletion |