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 |
---|---|---|---|---|
24 | 413 | 0.64 (0.0E+00) |
3.19 (1.4E-03) |
Co-expression Survival |
Regulators | Causal Flows | Enriched GO BPs | Enriched Hallmarks of Cancer |
---|---|---|---|
1 | 1 | 29 | 2 |
Study | FPC Var. Exp. (Perm. p-value) | Survival (p-value) |
---|---|---|
Gravendeel, et al. 2009 | 0.52 (0.0E+00) | 2.71 (6.8E-03) |
Madhavan, et al. 2009 | 0.58 (0.0E+00) | 3.48 (5.0E-04) |
Murat, et al. 2008 | 0.50 (0.0E+00) | -1.06 (2.9E-01) |
Type | Name | Action | Prior Knowledge |
---|---|---|---|
miRNA | hsa-mir-181d | Repressor | Yes |
Mutation | Regulator | Bicluster | ||
---|---|---|---|---|
TBC1D29 | hsa-mir-181d | PITA_76 |
GO Term | GO BP ID | Genes |
Cytokine production | GO:0001816 | S100A8 S100A9 |
Response to molecule of bacterial origin | GO:0002237 | |
Activation of immune response | GO:0002253 | |
Immune system process | GO:0002376 | |
Acute inflammatory response | GO:0002526 | ALOX5 S100A8 |
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 | |
Immune response-regulating cell surface receptor signaling pathway | GO:0002768 | |
Response to stress | GO:0006950 | |
Defense response | GO:0006952 | |
Inflammatory response | GO:0006954 | CCL18 IL2RA LY96 NLRC4 S100A8 S100A9 TLR2 |
Immune response | GO:0006955 | CCL18 FCGR2B IL2RA LCP2 LILRB2 OSM TLR2 |
Cellular defense response | GO:0006968 | LILRB2 LY96 MNDA |
Detection of biotic stimulus | GO:0009595 | |
Response to external stimulus | GO:0009605 | |
Response to biotic stimulus | GO:0009607 | CCL18 |
Response to wounding | GO:0009611 | CTSB |
Response to bacterium | GO:0009617 | |
Response to lipopolysaccharide | GO:0032496 | LY96 S100A8 |
Positive regulation of interleukin-6 production | GO:0032755 | FCER1G LILRB2 TLR2 |
Negative regulation of mononuclear cell proliferation | GO:0032945 | |
Negative regulation of lymphocyte proliferation | GO:0050672 | |
Regulation of inflammatory response | GO:0050727 | |
Regulation of immune response | GO:0050776 | FCGR2B LILRB2 |
Multi-organism process | GO:0051704 | |
Response to other organism | GO:0051707 | |
Negative regulation of leukocyte proliferation | GO:0070664 |
|
Legend: Hanahan and Weinberg, Cell 2011 |