Table 1 |
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Functional network generated by Ingenuity knowledge database analysis |
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|
Hub gene |
Score |
GATMs |
Top functions |
|
|
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|
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 |
|
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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. |
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Calogero et al. Breast Cancer Research 2007 9:211 doi:10.1186/bcr1745 |
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