Table S4.
Nodes from the regulation by tumor suppressors submodel of the DACS Network that are predicted as HYPs by RCR on the GSE28464 test data set.
| Regulation by Tumor Suppressors HYPs | Expected Direction | Test Data set |
|---|---|---|
| GSE28464 | ||
| Predicted in consistent directions | ||
| BRCA1 | ||
| CCL2 | ||
| CDKN1A | ||
| CDKN2A | ||
| CDKN2A NP_000068 | ||
| Cell aging | ||
| CSF2 | ||
| CXCL1 | ||
| HGF | ||
| IFNA1 | ||
| IL6 * | ||
| IL13 | ||
| IL1B | ||
| IL6ST | ||
| IL8 | ||
| ING1 | ||
| IRF1 | ||
| IRF3 | ||
| Kaof(RAF1) | ||
| Oncogene induced senescence | ||
| RAF1 | ||
| RB1 | ||
| RBL2 | ||
| replicative cell aging | ||
| taof(IRF1) | ||
| taof(RB1) | ||
| TNFRSF1A | ||
| CCND1 | ||
| E2F1 | ||
| E2F2 | ||
| E2F3 | ||
| ENO1 | ||
| taof(E2F family Hs) | ||
| taof(E2F1) | ||
| taof(E2F2) | ||
| taof(E2F3) | ||
| TFDP1 | ||
| Predicted in inconsistent directions | ||
| PTEN | ||
Notes: Expected direction is based on internal causality of the regulation by tumor suppressors submodel. Yellow = predicted increase in abundance or activity, blue = predicted decrease in abundance or activity. Submodel nodes that are shared with other senescence models are bolded.
*
IL6 is shown as predicted increased in this table, in contrast to the initial prediction by RCR (See Section 3.3 Application of the DACS Network to an Independent Data Set for additional detail and Supplementary Fig. 2).
Abbreviations: kaof(X), kinase activity of X; taof(X), transcriptional activity of X.