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 |
---|---|---|---|---|
40 | 413 | 0.64 (0.0E+00) |
2.67 (7.5E-03) |
Co-expression Survival |
Regulators | Causal Flows | Enriched GO BPs | Enriched Hallmarks of Cancer |
---|---|---|---|
1 | 2 | 32 | 2 |
Study | FPC Var. Exp. (Perm. p-value) | Survival (p-value) |
---|---|---|
Gravendeel, et al. 2009 | 0.60 (0.0E+00) | 2.60 (9.3E-03) |
Madhavan, et al. 2009 | 0.58 (0.0E+00) | 1.67 (9.6E-02) |
Murat, et al. 2008 | 0.55 (0.0E+00) | -1.29 (2.0E-01) |
Type | Name | Action | Prior Knowledge |
---|---|---|---|
TF | ELF1 | Activator | Yes |
Mutation | Regulator | Bicluster | ||
---|---|---|---|---|
NEUROTROPHIC_FACTOR_MEDIATED_TRK_RECEPTOR_SIGNALING | ELF1 | TARGETSCAN_411 | ||
SIGNALING_EVENTS_MEDIATED_BY_THE_HEDGEHOG_FAMILY | ELF1 | TARGETSCAN_411 |
GO Term | GO BP ID | Genes |
Cell activation | GO:0001775 | |
Activation of immune response | GO:0002253 | |
Immune system process | GO:0002376 | |
Immune response-activating cell surface receptor signaling pathway | GO:0002429 | |
Regulation of immune system process | GO:0002682 | |
Positive regulation of immune system process | GO:0002684 | |
Regulation of leukocyte activation | GO:0002694 | |
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 | CSF3R LILRA2 LILRA3 WAS |
Inflammatory response | GO:0006954 | AIF1 AOAH C3AR1 IL18 LY86 |
Immune response | GO:0006955 | CD4 CD86 HLA-DRB5 IL18 LST1 WAS |
Interleukin-2 production | GO:0032623 | |
Interleukin-2 biosynthetic process | GO:0042094 | IL18 |
T cell activation | GO:0042110 | CD86 WAS |
Positive regulation of interleukin-2 biosynthetic process | GO:0045086 | CD4 CD86 |
Leukocyte activation | GO:0045321 | |
Lymphocyte activation | GO:0046649 | |
Regulation of response to stimulus | GO:0048583 | |
Regulation of immune response | GO:0050776 | HCST |
Positive regulation of immune response | GO:0050778 | |
Regulation of biological process | GO:0050789 | |
Antigen receptor-mediated signaling pathway | GO:0050851 | |
Regulation of t cell activation | GO:0050863 | CD4 |
Regulation of cell activation | GO:0050865 | |
Positive regulation of cell activation | GO:0050867 | |
Positive regulation of t cell activation | GO:0050870 | |
Response to stimulus | GO:0050896 | |
Regulation of lymphocyte activation | GO:0051249 | |
Biological regulation | GO:0065007 |
|
Legend: Hanahan and Weinberg, Cell 2011 |