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 |
---|---|---|---|---|
22 | 413 | 0.65 (0.0E+00) |
2.77 (5.6E-03) |
Co-expression Survival |
Regulators | Causal Flows | Enriched GO BPs | Enriched Hallmarks of Cancer |
---|---|---|---|
1 | 1 | 27 | 2 |
Study | FPC Var. Exp. (Perm. p-value) | Survival (p-value) |
---|---|---|
Gravendeel, et al. 2009 | 0.55 (0.0E+00) | 2.30 (2.1E-02) |
Madhavan, et al. 2009 | 0.57 (0.0E+00) | 3.52 (4.3E-04) |
Murat, et al. 2008 | 0.51 (0.0E+00) | -1.03 (3.0E-01) |
Type | Name | Action | Prior Knowledge |
---|---|---|---|
miRNA | hsa-mir-181d | Repressor | Yes |
Mutation | Regulator | Bicluster | ||
---|---|---|---|---|
TBC1D29 | hsa-mir-181d | TARGETSCAN_562 |
GO Term | GO BP ID | Genes |
Regulation of cytokine production | GO:0001817 | |
Immune system process | GO:0002376 | |
Inflammatory response to antigenic stimulus | GO:0002437 | IL2RA |
Regulation of immune system process | GO:0002682 | |
Response to stress | GO:0006950 | |
Defense response | GO:0006952 | |
Inflammatory response | GO:0006954 | C5AR1 CCL13 IL10 IL2RA TLR8 |
Immune response | GO:0006955 | C5AR1 FCGR2B IL2RA LILRB2 OSM |
Response to external stimulus | GO:0009605 | |
Response to biotic stimulus | GO:0009607 | |
Response to wounding | GO:0009611 | CTSB |
Neutrophil chemotaxis | GO:0030593 | AMICA1 C5AR1 CCL13 FCER1G |
Leukocyte chemotaxis | GO:0030595 | IL10 |
Regulation of interleukin-6 production | GO:0032675 | |
Negative regulation of mononuclear cell proliferation | GO:0032945 | |
Negative regulation of t cell proliferation | GO:0042130 | IL10 IL2RA LILRB2 |
Interferon-alpha biosynthetic process | GO:0045349 | |
Regulation of interferon-alpha biosynthetic process | GO:0045354 | |
Negative regulation of lymphocyte proliferation | GO:0050672 | |
Regulation of inflammatory response | GO:0050727 | |
Regulation of immune response | GO:0050776 | AMICA1 FCGR2B LILRB2 |
Negative regulation of t cell activation | GO:0050868 | |
Leukocyte migration | GO:0050900 | AMICA1 FCER1G |
Response to other organism | GO:0051707 | |
Cell chemotaxis | GO:0060326 | |
Regulation of biological quality | GO:0065008 | |
Negative regulation of leukocyte proliferation | GO:0070664 |
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Legend: Hanahan and Weinberg, Cell 2011 |