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 |
---|---|---|---|---|
36 | 395 | 0.47 (0.0E+00) |
2.63 (8.4E-03) |
Co-expression Survival |
Regulators | Causal Flows | Enriched GO BPs | Enriched Hallmarks of Cancer |
---|---|---|---|
1 | 1 | 9 | 0 |
Study | FPC Var. Exp. (Perm. p-value) | Survival (p-value) |
---|---|---|
Gravendeel, et al. 2009 | 0.41 (0.0E+00) | 2.39 (1.7E-02) |
Madhavan, et al. 2009 | 0.47 (0.0E+00) | 4.47 (7.7E-06) |
Murat, et al. 2008 | 0.38 (0.0E+00) | -0.70 (4.8E-01) |
Type | Name | Action | Prior Knowledge |
---|---|---|---|
TF | JUNB | Activator | Yes |
Mutation | Regulator | Bicluster | ||
---|---|---|---|---|
HMCN1 | JUNB | TARGETSCAN_482 |
GO Term | GO BP ID | Genes |
Immune system process | GO:0002376 | SQSTM1 |
Response to stress | GO:0006950 | GADD45B SQSTM1 |
Defense response | GO:0006952 | |
Inflammatory response | GO:0006954 | BCL6 CCL2 CSF1 CXCL2 HRH1 LY96 PSTPIP1 RELB TLR2 |
Immune response | GO:0006955 | CXCL2 IFITM2 TLR2 |
Myeloid cell differentiation | GO:0030099 | BCL6 |
Lipopolysaccharide-mediated signaling pathway | GO:0031663 | CCL2 LY96 NFKBIA TLR2 |
Innate immune response | GO:0045087 | C1S CSF1 LY96 NFKBIA PSTPIP1 RELB SERPING1 TLR2 |
Cellular response to lipopolysaccharide | GO:0071222 | CCL2 |
|
Legend: Hanahan and Weinberg, Cell 2011 |