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 |
---|---|---|---|---|
60 | 393 | 0.36 (0.0E+00) |
2.85 (4.4E-03) |
Co-expression |
Regulators | Causal Flows | Enriched GO BPs | Enriched Hallmarks of Cancer |
---|---|---|---|
1 | 1 | 13 | 2 |
Study | FPC Var. Exp. (Perm. p-value) | Survival (p-value) |
---|---|---|
Gravendeel, et al. 2009 | 0.33 (0.0E+00) | 1.81 (7.1E-02) |
Madhavan, et al. 2009 | 0.34 (7.5E-02) | 1.57 (1.2E-01) |
Murat, et al. 2008 | 0.29 (2.0E-03) | -1.12 (2.6E-01) |
Type | Name | Action | Prior Knowledge |
---|---|---|---|
TF | MYB | Repressor | Yes |
Mutation | Regulator | Bicluster | ||
---|---|---|---|---|
IFN_GAMMA_PATHWAY | MYB | TFBS_DB_122 |
GO Term | GO BP ID | Genes |
Cytokine production | GO:0001816 | FABP4 LIPA |
Regulation of cytokine production | GO:0001817 | |
Positive regulation of cytokine production | GO:0001819 | HTR2B |
Cytokine production involved in immune response | GO:0002367 | |
Regulation of production of molecular mediator of immune response | GO:0002700 | |
Positive regulation of production of molecular mediator of immune response | GO:0002702 | |
Regulation of cytokine production involved in immune response | GO:0002718 | |
Positive regulation of cytokine production involved in immune response | GO:0002720 | |
Protein phosphorylation | GO:0006468 | ACVR1 ACVRL1 IRAK3 PRKCH |
Macrophage cytokine production | GO:0010934 | |
Regulation of macrophage cytokine production | GO:0010935 | |
Positive regulation of defense response | GO:0031349 | |
Myeloid leukocyte cytokine production | GO:0061082 |
|
Legend: Hanahan and Weinberg, Cell 2011 |