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 |
---|---|---|---|---|
47 | 405 | 0.47 (0.0E+00) |
4.03 (5.5E-05) |
Co-expression Survival |
Regulators | Causal Flows | Enriched GO BPs | Enriched Hallmarks of Cancer |
---|---|---|---|
1 | 1 | 3 | 0 |
Study | FPC Var. Exp. (Perm. p-value) | Survival (p-value) |
---|---|---|
Gravendeel, et al. 2009 | 0.37 (0.0E+00) | 3.65 (2.6E-04) |
Madhavan, et al. 2009 | 0.45 (0.0E+00) | 5.40 (6.8E-08) |
Murat, et al. 2008 | 0.31 (0.0E+00) | 0.63 (5.3E-01) |
Type | Name | Action | Prior Knowledge |
---|---|---|---|
TF | MYB | Repressor | Yes |
Mutation | Regulator | Bicluster | ||
---|---|---|---|---|
IFN_GAMMA_PATHWAY | MYB | TARGETSCAN_467 |
GO Term | GO BP ID | Genes |
Inflammatory response | GO:0006954 | CCL18 GBP5 HCK SLC11A1 SPP1 STAB1 TLR3 TPST1 |
Immune response | GO:0006955 | ADAMDEC1 CCL18 CIITA RGS1 TRIM22 |
Response to interferon-gamma | GO:0034341 | CIITA SLC11A1 |
|
Legend: Hanahan and Weinberg, Cell 2011 |