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 |
---|---|---|---|---|
35 | 398 | 0.59 (0.0E+00) |
2.02 (4.3E-02) |
Co-expression |
Regulators | Causal Flows | Enriched GO BPs | Enriched Hallmarks of Cancer |
---|---|---|---|
1 | 1 | 11 | 0 |
Study | FPC Var. Exp. (Perm. p-value) | Survival (p-value) |
---|---|---|
Gravendeel, et al. 2009 | 0.70 (0.0E+00) | 0.45 (6.5E-01) |
Madhavan, et al. 2009 | 0.86 (0.0E+00) | -5.39 (7.2E-08) |
Murat, et al. 2008 | 0.68 (0.0E+00) | -0.46 (6.5E-01) |
Type | Name | Action | Prior Knowledge |
---|---|---|---|
miRNA | hsa-mir-27a | Repressor | Yes |
Mutation | Regulator | Bicluster | ||
---|---|---|---|---|
HMCN1 | hsa-mir-27a | TARGETSCAN_6 |
GO Term | GO BP ID | Genes |
System process | GO:0003008 | |
Ion transport | GO:0006811 | SLC12A5 |
Cation transport | GO:0006812 | |
Cell-cell signaling | GO:0007267 | |
Synaptic transmission | GO:0007268 | ACCN1 CACNG3 CAMK2A CRH DLG2 GABRD GRM1 GRM5 GRM7 KCNA1 KCNC2 KCNQ3 SLC12A5 SYT1 |
Monovalent inorganic cation transport | GO:0015672 | ACCN1 |
Transmission of nerve impulse | GO:0019226 | CACNG3 GRM7 |
Metal ion transport | GO:0030001 | |
Multicellular organismal signaling | GO:0035637 | |
Neurological system process | GO:0050877 | |
Transmembrane transport | GO:0055085 | ABCG4 ACCN1 ATP2B3 CLCN4 SLC12A5 |
|
Legend: Hanahan and Weinberg, Cell 2011 |