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 |
---|---|---|---|---|
66 | 396 | 0.45 (0.0E+00) |
3.40 (6.8E-04) |
Co-expression Survival |
Regulators | Causal Flows | Enriched GO BPs | Enriched Hallmarks of Cancer |
---|---|---|---|
1 | 1 | 15 | 2 |
Study | FPC Var. Exp. (Perm. p-value) | Survival (p-value) |
---|---|---|
Gravendeel, et al. 2009 | 0.37 (0.0E+00) | 2.45 (1.4E-02) |
Madhavan, et al. 2009 | 0.40 (0.0E+00) | 3.46 (5.4E-04) |
Murat, et al. 2008 | 0.31 (0.0E+00) | -0.57 (5.7E-01) |
Type | Name | Action | Prior Knowledge |
---|---|---|---|
TF | NFKB1 | Activator | Yes |
Mutation | Regulator | Bicluster | ||
---|---|---|---|---|
LRP2 | NFKB1 | TARGETSCAN_269 |
GO Term | GO BP ID | Genes |
Activation of immune response | GO:0002253 | |
Immune system process | GO:0002376 | |
Regulation of immune system process | GO:0002682 | |
Positive regulation of immune system process | GO:0002684 | |
Immune response-activating signal transduction | GO:0002757 | |
Immune response-regulating signaling pathway | GO:0002764 | |
Defense response | GO:0006952 | CD84 CSF3R |
Immune response | GO:0006955 | HLA-DRA LST1 TLR2 |
Interleukin-8 production | GO:0032637 | |
Regulation of interleukin-8 production | GO:0032677 | |
Cellular lipid metabolic process | GO:0044255 | HADHB |
Innate immune response | GO:0045087 | C1QA C1QB CD84 CLEC4A FCER1G FGR PSTPIP1 TLR2 TLR5 TLR7 TLR8 |
Regulation of response to stimulus | GO:0048583 | |
Regulation of immune response | GO:0050776 | HCST |
Positive regulation of immune response | GO:0050778 |
|
Legend: Hanahan and Weinberg, Cell 2011 |