Table 1.
Functional network generated by Ingenuity knowledge database analysis
| Hub gene | Score | GATMs | Top functions |
| TNF↑ | 34 | 35 | Lipid metabolism, small molecule biochemistry, cell death |
| IFNG↑ | 34 | 35 | Lipid metabolism, molecular transport, small molecule biochemistry |
| IL1B↑ | 34 | 35 | Immune response, cellular movement, haematological system development and function |
| MYC↑ | 34 | 35 | Cell cycle, cellular movement, cancer |
| CCL2↑, KDR↓, VEGF↓ | 34 | 35 | Cellular movement, cancer, tumour morphology |
| SRC↑ | 34 | 35 | Haematological system development and function, immune and lymphatic system development and function, tissue morphology |
| BCL2↑ | 34 | 35 | Cancer, cell death, cell morphology |
| AGT↓ | 34 | 35 | Cell-to-cell signalling and interaction, haematological system development and function, immune and lymphatic system development and function |
| TIMP1↑, EDN1↓ | 34 | 35 | Cancer, cellular movement, cellular development |
| LEP↓ | 34 | 35 | Lipid metabolism, molecular transport, small molecule biochemistry |
| AR↓ | 34 | 35 | Cellular growth and proliferation, gene expression, cellular development |
| IGF2↓, ERBB3↑ | 34 | 35 | DNA replication, recombination, and repair, cancer, cell cycle |
| HOXA9↓, CDH1↑ | 34 | 35 | Cellular growth and proliferation, cell death, cancer |
| ARNT2↑, ZAP70↑ | 34 | 35 | Cellular growth and proliferation, haematological system development and function, immune response |
| PPARA↓, IL6, SERBF1 | 15 | 24 | Lipid metabolism, small molecule biochemistry, molecular transport |
| CDC42, RAC1 | 13 | 22 | Cell signalling, free radical scavenging, nucleic acid metabolism |
| ERBB2↑ | 12 | 17 | Cancer, tumour morphology, cell cycle |
| FN1 | 12 | 21 | Cell-to-cell signalling and interaction, cellular movement, reproductive system development and function |
| FOS | 12 | 21 | Gene expression, cell cycle, haematological system development and function |
| IGF1, CCND1, BMP2 | 12 | 21 | Cellular growth and proliferation, connective tissue development and function, skeletal and muscular system development and function |
| IL4 | 12 | 21 | Cellular assembly and organization, cell cycle, DNA replication, recombination, and repair |
| NFYB | 11 | 16 | Cancer, cell cycle, cellular assembly and organization |
| IL13, MAPK8, NFKB1 | 11 | 20 | Haematological system development and function, immune and lymphatic system development and function, tissue morphology |
| STAT3, INSR, PTPN | 11 | 20 | Cellular growth and proliferation, haematological system development and function, immune response |
| NFKBIA, CD40LG, HGF | 11 | 20 | Cell death, cellular movement, haematological system development and function |
| KRAS, CDKN1A | 10 | 19 | Cellular growth and proliferation, cell signalling, cancer |
| TNF↑ | 10 | 19 | Carbohydrate metabolism, molecular transport, small molecule biochemistry |
Out of the 55 available networks, only those containing at least 10 genes associated with mammary tumour microenvironment (GATMs) are shown. ↑ and ↓ indicate gene expression increasing and decreasing on passing from the pre-neoplastic condition to neoplasia, respectively.