Bicluster Expression of Patient Tumors
Expression of genes from patient tumors in bicluster on left side of red dashed line and out of bicluster on right of red dashed line. Each patient tumor is represented as a boxplot, ordered by their median expression for the bicluster genes (smallest to largest) and colored according to it's GBM subtype. |
Enrichment of Tumor Subtypes in Qunitiles
Patient tumors are sorted as on the left and broken into quintiles following the dashed grey lines. Then each quintile is tested for enrichment of each tumor subtype. The deviation from zero indicate -log10(enrichment p-value), and positive values indicate over-enrichment and negative values underenrichment. |
Genes | Patient Tumors | FPC Var. Exp. (Perm. p-value) | Survival (p-value) | Independent Replication |
---|---|---|---|---|
30 | 351 | 0.35 (0.0E+00) |
2.93 (3.4E-03) |
Co-expression Survival |
Regulators | Causal Flows | Enriched GO BPs | Enriched Hallmarks of Cancer |
---|---|---|---|
1 | 2 | 13 | 0 |
Study | FPC Var. Exp. (Perm. p-value) | Survival (p-value) |
---|---|---|
Gravendeel, et al. 2009 | 0.33 (0.0E+00) | 2.81 (4.9E-03) |
Madhavan, et al. 2009 | 0.37 (4.5E-02) | 2.53 (1.2E-02) |
Murat, et al. 2008 | 0.41 (0.0E+00) | 0.92 (3.6E-01) |
Type | Name | Action | Prior Knowledge |
---|---|---|---|
TF | IRF1 | Activator | Yes |
Mutation | Regulator | Bicluster | ||
---|---|---|---|---|
EPHB_FORWARD_SIGNALING | IRF1 | TFBS_DB_559 | ||
TRAIL_SIGNALING_PATHWAY | IRF1 | TFBS_DB_559 |
GO Term | GO BP ID | Genes |
Immune system process | GO:0002376 | |
Response to stress | GO:0006950 | |
Defense response | GO:0006952 | HCP5 MX1 |
Immune response | GO:0006955 | AIM2 CCRL1 CXCL11 IFI44L IFI6 |
Cytokine-mediated signaling pathway | GO:0019221 | IFI27 IFI6 IFIT2 IFIT3 MX1 OAS2 RSAD2 XAF1 |
Response to cytokine stimulus | GO:0034097 | |
Response to type i interferon | GO:0034340 | MX1 |
Response to interferon-alpha | GO:0035455 | |
Cellular response to interferon-alpha | GO:0035457 | IFIT2 IFIT3 |
Innate immune response | GO:0045087 | AIM2 CTSK MX1 PSMB10 |
Type i interferon-mediated signaling pathway | GO:0060337 | IFI27 IFI6 IFIT2 IFIT3 MX1 OAS2 RSAD2 XAF1 |
Cellular response to cytokine stimulus | GO:0071345 | |
Cellular response to type i interferon | GO:0071357 |
|
Legend:![]() Hanahan and Weinberg, Cell 2011 |