Table 1.
Description of the 17 hubs in the three functional interaction networks
| Gene symbol | Function | Summary | |
|---|---|---|---|
| OnlyTr1 hubs | GRB2 (17) | Important link between growth factor receptors on the cell surface and Ras signalling | Cell cycle/ Proliferation |
| STAT3 (15) | In response to cytokines and growth factors, STAT family members are phosphorylated and translocate to the nucleus to function as transcription factors | Immune | |
| CDC42 (12) | A GTP-ase involved in signalling for several processes, cell migration, morphology, endocytosis, cell cycle progression and cell proliferation | Cell cycle/ Proliferation | |
| CAV1 (11) | Encodes a scaffolding protein that is an essential part of caveolar membranes | Immune | |
| FOS (11) | The FOS family encodes for leucine zipper proteins. Regulates cell proliferation, differentiation, transformation and apoptotic cell death | Cell cycle/ proliferation | |
| Tr1&Tr2 hubs | MYC (31) | Transcription factor that activates growth related genes | Cell cycle/ Proliferation |
| MAPK14 (24) | Important for the cascades of cellular responses evoked by extracellular stimuli leading to direct activation of transcription factors | ||
| RELA (24) | Forms a complex with NFKB transcription factor and regulates the NFKB pathway | Immune | |
| UBE2D2 (24) | Ubiquitin conjugating enzyme that catalyses covalent attachment of activated ubiquitin to other ubiquitin ligases | Ubiquitination | |
| ITCH (23) | Ubiquitin-protein ligase which accepts ubiquitin from an ubiquitin-conjugating enzyme and then directly transfers the ubiquitin to targeted substrates | Ubiquitination | |
| IKBKG (22) | Regulatory subunit of the IKK core complex which phosphorylates inhibitors of NFKB and ultimately the degradation of the inhibitor | Immune | |
| SP1 (22) | Transcription factor (activator or repressor) that regulates many cellular processes | Cell cycle/ Proliferation | |
| RHOA (20) | Regulates signalling from plasma membrane receptors to the assembly of focal adhesions and actin stress fibers | Cell cycle/ Proliferation | |
| RPS3 (20) | Component of the 40S ribosomal subunit, where translation is initiated | ||
| FBXW7 (19) | Part of the ubiquitin ligase complex (SCF) which recognizes and binds to phosphorylated targets | Ubiquitination | |
| OnlyTr2 hubs | UBA52 (20) | One of the four genes that code for ubiquitin, and ribosomal components which are part of the ribosome 60S subunit | Ubiquitination |
| STAT1 (12) | In response to cytokines and growth factors, STAT family members are phosphorylated and translocate to the nucleus to function as transcription factors | Immune |
The number of connections of each gene in their respective network is given in brackets along with the gene symbol. The information about the genes is adapted from www.genecards.org. The hubs can be clustered into three broad groups, given in the last column, based on their functions. All these genes have significantly different time profiles in the treatment compared to the control