TARGETSCAN_454
Bicluster Network Summary
Legend:
= Somatically mutated gene/pathway = TF; = miRNA; (Regulator edges: = Activation; T = Repression)
= Bicluster
= Hallmark of Cancer
= Somatically mutated gene/pathway = TF; = miRNA; (Regulator edges: = Activation; T = Repression)
= Bicluster
= Hallmark of Cancer
Summary
| 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 | 386 | 0.42 (0.0E+00) |
2.06 (3.9E-02) |
Co-expression Survival |
| Regulators | Causal Flows | Enriched GO BPs | Enriched Hallmarks of Cancer |
|---|---|---|---|
| 1 | 1 | 111 | 2 |
Replication in independent datasets
| Study | FPC Var. Exp. (Perm. p-value) | Survival (p-value) |
|---|---|---|
| Gravendeel, et al. 2009 | 0.44 (0.0E+00) | 2.48 (1.3E-02) |
| Madhavan, et al. 2009 | 0.48 (0.0E+00) | -2.71 (6.7E-03) |
| Murat, et al. 2008 | 0.42 (0.0E+00) | -1.09 (2.8E-01) |
Genes
Patients
- TCGA.02.0001
- TCGA.02.0003
- TCGA.02.0004
- TCGA.02.0006
- TCGA.02.0007
- TCGA.02.0009
- TCGA.02.0010
- TCGA.02.0011
- TCGA.02.0014
- TCGA.02.0015
- TCGA.02.0016
- TCGA.02.0021
- TCGA.02.0023
- TCGA.02.0024
- TCGA.02.0025
- TCGA.02.0026
- TCGA.02.0027
- TCGA.02.0028
- TCGA.02.0033
- TCGA.02.0034
- TCGA.02.0037
- TCGA.02.0038
- TCGA.02.0039
- TCGA.02.0043
- TCGA.02.0046
- TCGA.02.0047
- TCGA.02.0048
- TCGA.02.0051
- TCGA.02.0052
- TCGA.02.0054
- TCGA.02.0055
- TCGA.02.0057
- TCGA.02.0058
- TCGA.02.0059
- TCGA.02.0060
- TCGA.02.0064
- TCGA.02.0068
- TCGA.02.0069
- TCGA.02.0070
- TCGA.02.0071
- TCGA.02.0074
- TCGA.02.0075
- TCGA.02.0079
- TCGA.02.0080
- TCGA.02.0083
- TCGA.02.0085
- TCGA.02.0086
- TCGA.02.0089
- TCGA.02.0099
- TCGA.02.0102
- TCGA.02.0104
- TCGA.02.0107
- TCGA.02.0113
- TCGA.02.0114
- TCGA.02.0115
- TCGA.02.0116
- TCGA.02.0289
- TCGA.02.0321
- TCGA.02.0330
- TCGA.02.0332
- TCGA.02.0337
- TCGA.02.0422
- TCGA.02.0430
- TCGA.02.0432
- TCGA.02.0440
- TCGA.02.0446
- TCGA.02.2466
- TCGA.02.2483
- TCGA.02.2485
- TCGA.02.2486
- TCGA.06.0122
- TCGA.06.0124
- TCGA.06.0125
- TCGA.06.0126
- TCGA.06.0129
- TCGA.06.0130
- TCGA.06.0132
- TCGA.06.0133
- TCGA.06.0137
- TCGA.06.0138
- TCGA.06.0139
- TCGA.06.0140
- TCGA.06.0141
- TCGA.06.0143
- TCGA.06.0145
- TCGA.06.0146
- TCGA.06.0148
- TCGA.06.0150
- TCGA.06.0151
- TCGA.06.0152
- TCGA.06.0154
- TCGA.06.0155
- TCGA.06.0156
- TCGA.06.0157
- TCGA.06.0158
- TCGA.06.0159
- TCGA.06.0160
- TCGA.06.0165
- TCGA.06.0166
- TCGA.06.0167
- TCGA.06.0168
- TCGA.06.0171
- TCGA.06.0173
- TCGA.06.0174
- TCGA.06.0176
- TCGA.06.0178
- TCGA.06.0184
- TCGA.06.0185
- TCGA.06.0187
- TCGA.06.0188
- TCGA.06.0189
- TCGA.06.0190
- TCGA.06.0192
- TCGA.06.0195
- TCGA.06.0197
- TCGA.06.0201
- TCGA.06.0206
- TCGA.06.0208
- TCGA.06.0209
- TCGA.06.0211
- TCGA.06.0213
- TCGA.06.0214
- TCGA.06.0216
- TCGA.06.0219
- TCGA.06.0221
- TCGA.06.0237
- TCGA.06.0238
- TCGA.06.0240
- TCGA.06.0241
- TCGA.06.0394
- TCGA.06.0409
- TCGA.06.0644
- TCGA.06.0649
- TCGA.06.0673
- TCGA.06.0675
- TCGA.06.0676
- TCGA.06.0678
- TCGA.06.0681
- TCGA.06.0686
- TCGA.06.0743
- TCGA.06.0744
- TCGA.06.0745
- TCGA.06.0747
- TCGA.06.0749
- TCGA.06.0750
- TCGA.06.0875
- TCGA.06.0876
- TCGA.06.0877
- TCGA.06.0878
- TCGA.06.0879
- TCGA.06.0881
- TCGA.06.0882
- TCGA.06.1800
- TCGA.06.1801
- TCGA.06.1802
- TCGA.06.1804
- TCGA.06.2557
- TCGA.06.2558
- TCGA.06.2559
- TCGA.06.2561
- TCGA.06.2562
- TCGA.06.2563
- TCGA.06.2564
- TCGA.06.2565
- TCGA.06.2566
- TCGA.06.2567
- TCGA.06.2570
- TCGA.06.5412
- TCGA.06.5414
- TCGA.06.5415
- TCGA.06.5417
- TCGA.06.5418
- TCGA.06.5859
- TCGA.06.6388
- TCGA.06.6390
- TCGA.06.6695
- TCGA.06.6698
- TCGA.06.6699
- TCGA.08.0244
- TCGA.08.0245
- TCGA.08.0246
- TCGA.08.0344
- TCGA.08.0346
- TCGA.08.0347
- TCGA.08.0348
- TCGA.08.0350
- TCGA.08.0351
- TCGA.08.0353
- TCGA.08.0354
- TCGA.08.0355
- TCGA.08.0356
- TCGA.08.0357
- TCGA.08.0359
- TCGA.08.0360
- TCGA.08.0380
- TCGA.08.0385
- TCGA.08.0389
- TCGA.08.0390
- TCGA.08.0510
- TCGA.08.0512
- TCGA.08.0517
- TCGA.08.0524
- TCGA.08.0623
- TCGA.08.0625
- TCGA.08.0626
- TCGA.08.0627
- TCGA.12.0616
- TCGA.12.0618
- TCGA.12.0619
- TCGA.12.0620
- TCGA.12.0653
- TCGA.12.0654
- TCGA.12.0656
- TCGA.12.0657
- TCGA.12.0662
- TCGA.12.0670
- TCGA.12.0688
- TCGA.12.0691
- TCGA.12.0692
- TCGA.12.0703
- TCGA.12.0707
- TCGA.12.0769
- TCGA.12.0772
- TCGA.12.0773
- TCGA.12.0775
- TCGA.12.0776
- TCGA.12.0778
- TCGA.12.0780
- TCGA.12.0818
- TCGA.12.0819
- TCGA.12.0820
- TCGA.12.0821
- TCGA.12.0822
- TCGA.12.0826
- TCGA.12.0827
- TCGA.12.0828
- TCGA.12.0829
- TCGA.12.1088
- TCGA.12.1090
- TCGA.12.1091
- TCGA.12.1092
- TCGA.12.1093
- TCGA.12.1094
- TCGA.12.1095
- TCGA.12.1097
- TCGA.12.1099
- TCGA.12.1599
- TCGA.12.1600
- TCGA.12.1602
- TCGA.12.3646
- TCGA.12.3649
- TCGA.14.0736
- TCGA.14.0781
- TCGA.14.0783
- TCGA.14.0787
- TCGA.14.0789
- TCGA.14.0790
- TCGA.14.0812
- TCGA.14.0813
- TCGA.14.0817
- TCGA.14.0865
- TCGA.14.0867
- TCGA.14.1034
- TCGA.14.1037
- TCGA.14.1043
- TCGA.14.1396
- TCGA.14.1401
- TCGA.14.1402
- TCGA.14.1450
- TCGA.14.1451
- TCGA.14.1452
- TCGA.14.1453
- TCGA.14.1454
- TCGA.14.1456
- TCGA.14.1458
- TCGA.14.1459
- TCGA.14.2554
- TCGA.14.3476
- TCGA.14.4157
- TCGA.15.0742
- TCGA.15.1446
- TCGA.15.1447
- TCGA.15.1449
- TCGA.16.0846
- TCGA.16.0848
- TCGA.16.0849
- TCGA.16.0850
- TCGA.16.0861
- TCGA.16.1047
- TCGA.16.1055
- TCGA.16.1056
- TCGA.16.1060
- TCGA.16.1062
- TCGA.16.1063
- TCGA.19.0955
- TCGA.19.0960
- TCGA.19.0963
- TCGA.19.0964
- TCGA.19.1387
- TCGA.19.1390
- TCGA.19.1392
- TCGA.19.1787
- TCGA.19.1790
- TCGA.19.1791
- TCGA.19.2619
- TCGA.19.2625
- TCGA.19.2629
- TCGA.19.2631
- TCGA.19.5951
- TCGA.19.5954
- TCGA.19.5955
- TCGA.19.5956
- TCGA.19.5959
- TCGA.26.1439
- TCGA.26.1440
- TCGA.26.1442
- TCGA.26.5133
- TCGA.26.5134
- TCGA.26.5135
- TCGA.26.5136
- TCGA.26.5139
- TCGA.26.6173
- TCGA.27.1833
- TCGA.27.1836
- TCGA.27.1837
- TCGA.27.1838
- TCGA.27.2518
- TCGA.27.2519
- TCGA.27.2521
- TCGA.27.2523
- TCGA.27.2528
- TCGA.28.1745
- TCGA.28.1746
- TCGA.28.1747
- TCGA.28.1751
- TCGA.28.1753
- TCGA.28.1755
- TCGA.28.1756
- TCGA.28.2506
- TCGA.28.2509
- TCGA.28.2510
- TCGA.28.2514
- TCGA.28.5208
- TCGA.28.5209
- TCGA.28.5213
- TCGA.28.5214
- TCGA.28.5220
- TCGA.28.6450
- TCGA.32.1970
- TCGA.32.1973
- TCGA.32.1986
- TCGA.32.1987
- TCGA.32.1991
- TCGA.32.2491
- TCGA.32.2494
- TCGA.32.2495
- TCGA.32.2615
- TCGA.32.4208
- TCGA.32.4209
- TCGA.32.4210
- TCGA.32.4211
- TCGA.32.4719
- TCGA.41.2572
- TCGA.41.2573
- TCGA.41.2575
- TCGA.41.3393
- TCGA.41.3915
- TCGA.41.4097
- TCGA.41.5651
- TCGA.74.6573
- TCGA.74.6575
- TCGA.74.6578
- TCGA.76.4925
- TCGA.76.4927
- TCGA.76.4932
- TCGA.76.4934
- TCGA.76.4935
- TCGA.76.6191
- TCGA.76.6282
- TCGA.76.6286
- TCGA.76.6657
- TCGA.76.6660
- TCGA.76.6661
- TCGA.76.6664
- TCGA.81.5910
- TCGA.87.5896
Regulators
| Type | Name | Action | Prior Knowledge |
|---|---|---|---|
| TF | ELF1 | Activator | Yes |
Causal Flows
| Mutation | Regulator | Bicluster | ||
|---|---|---|---|---|
| NEUROTROPHIC_FACTOR_MEDIATED_TRK_RECEPTOR_SIGNALING | ELF1 | TARGETSCAN_454 |
Enriched GO Biological Processes
| GO Term | GO BP ID | Genes |
| Temperature homeostasis | GO:0001659 | |
| Fever generation | GO:0001660 | IL1B |
| Immune system process | GO:0002376 | VSTM1 |
| Chronic inflammatory response to antigenic stimulus | GO:0002439 | IL1B TNF |
| Positive regulation of immune system process | GO:0002684 | |
| Positive regulation of leukocyte migration | GO:0002687 | CCL8 |
| Regulation of leukocyte chemotaxis | GO:0002688 | |
| Positive regulation of leukocyte chemotaxis | GO:0002690 | |
| Cellular calcium ion homeostasis | GO:0006874 | CCL3 CCL8 |
| Defense response | GO:0006952 | NLRP3 |
| Inflammatory response | GO:0006954 | CCL3 CCL4 CCL8 IL1B NLRP3 TNF |
| Leukocyte cell-cell adhesion | GO:0007159 | |
| Intracellular protein kinase cascade | GO:0007243 | |
| Cell-cell signaling | GO:0007267 | ADRB2 CCL3 CCL4 CCL8 FGF20 IL1B SIRPG |
| Response to biotic stimulus | GO:0009607 | |
| Response to wounding | GO:0009611 | CX3CR1 |
| Positive regulation of signal transduction | GO:0009967 | |
| Positive regulation of cell communication | GO:0010647 | |
| Negative regulation of glucose transport | GO:0010829 | IL1B |
| Cell migration | GO:0016477 | |
| Second-messenger-mediated signaling | GO:0019932 | |
| Regulation of cell-cell adhesion | GO:0022407 | |
| Positive regulation of cell-cell adhesion | GO:0022409 | SIRPG |
| Positive regulation of signaling | GO:0023056 | |
| Leukocyte chemotaxis | GO:0030595 | |
| Sequestering of triglyceride | GO:0030730 | IL1B TNF |
| Regulation of defense response | GO:0031347 | |
| Regulation of fever generation | GO:0031620 | |
| Positive regulation of fever generation | GO:0031622 | IL1B TNF |
| Heat generation | GO:0031649 | ADRB2 |
| Regulation of heat generation | GO:0031650 | |
| Positive regulation of heat generation | GO:0031652 | |
| Lipopolysaccharide-mediated signaling pathway | GO:0031663 | CCL3 IL1B TNF |
| Regulation of response to external stimulus | GO:0032101 | |
| Positive regulation of response to external stimulus | GO:0032103 | |
| Interleukin-1 beta production | GO:0032611 | IL1B NLRP3 |
| Interleukin-1 production | GO:0032612 | |
| Interleukin-6 production | GO:0032635 | |
| Regulation of interleukin-1 beta production | GO:0032651 | |
| Regulation of interleukin-1 production | GO:0032652 | |
| Regulation of interleukin-6 production | GO:0032675 | |
| Positive regulation of monooxygenase activity | GO:0032770 | |
| Regulation of localization | GO:0032879 | |
| Negative regulation of viral transcription | GO:0032897 | |
| Heterotypic cell-cell adhesion | GO:0034113 | GLDN |
| Regulation of heterotypic cell-cell adhesion | GO:0034114 | |
| Positive regulation of heterotypic cell-cell adhesion | GO:0034116 | IL1B TNF |
| Intracellular signal transduction | GO:0035556 | MKNK1 PLCB2 SIRPG |
| Natural killer cell chemotaxis | GO:0035747 | |
| Locomotion | GO:0040011 | |
| Chemokine biosynthetic process | GO:0042033 | |
| Regulation of nf-kappab import into nucleus | GO:0042345 | |
| Nf-kappab import into nucleus | GO:0042348 | |
| Regulation of transcription factor import into nucleus | GO:0042990 | |
| Transcription factor import into nucleus | GO:0042991 | |
| Regulation of ion transport | GO:0043269 | |
| Positive regulation of ion transport | GO:0043270 | P2RY12 |
| Regulation of mapkkk cascade | GO:0043408 | |
| Positive regulation of mapkkk cascade | GO:0043410 | ADRB2 |
| Protein kinase b signaling cascade | GO:0043491 | CCL3 IL1B P2RY12 TNF |
| Modulation by host of viral transcription | GO:0043921 | |
| Negative regulation by host of viral transcription | GO:0043922 | CCL3 CCL4 |
| Regulation of chemokine biosynthetic process | GO:0045073 | |
| Positive regulation of chemokine biosynthetic process | GO:0045080 | IL1B TNF |
| Positive regulation of behavior | GO:0048520 | |
| Cell motility | GO:0048870 | |
| Regulation of interleukin-1 beta secretion | GO:0050706 | |
| Regulation of cytokine secretion | GO:0050707 | |
| Positive regulation of cytokine secretion | GO:0050715 | TNF |
| Positive regulation of interleukin-1 beta secretion | GO:0050718 | CCL3 NLRP3 |
| Regulation of inflammatory response | GO:0050727 | |
| Positive regulation of inflammatory response | GO:0050729 | CCL3 CCL4 CCL8 PLA2G7 |
| Chemokine metabolic process | GO:0050755 | |
| Regulation of viral reproduction | GO:0050792 | |
| Regulation of behavior | GO:0050795 | |
| Leukocyte migration | GO:0050900 | SELPLG SIRPG |
| Leukocyte tethering or rolling | GO:0050901 | SELPLG TNF |
| Positive regulation of chemotaxis | GO:0050921 | |
| Positive regulation of membrane protein ectodomain proteolysis | GO:0051044 | IL1B TNF |
| Positive regulation of secretion | GO:0051047 | |
| Regulation of transport | GO:0051049 | |
| Positive regulation of transport | GO:0051050 | |
| Negative regulation of transport | GO:0051051 | |
| Positive regulation of protein transport | GO:0051222 | TNF |
| Positive regulation of multicellular organismal process | GO:0051240 | |
| Localization of cell | GO:0051674 | |
| Multi-organism process | GO:0051704 | |
| Response to other organism | GO:0051707 | |
| Cellular response to stimulus | GO:0051716 | |
| Modulation of transcription in other organism involved in symbiotic interaction | GO:0052312 | |
| Modulation by host of symbiont transcription | GO:0052472 | |
| Calcium ion homeostasis | GO:0055074 | |
| Cell chemotaxis | GO:0060326 | |
| Regulation of calcidiol 1-monooxygenase activity | GO:0060558 | |
| Positive regulation of calcidiol 1-monooxygenase activity | GO:0060559 | IL1B TNF |
| Erk1 and erk2 cascade | GO:0070371 | |
| Regulation of erk1 and erk2 cascade | GO:0070372 | |
| Positive regulation of erk1 and erk2 cascade | GO:0070374 | CCL3 CCL4 CCL8 FGF20 GPR120 IL1B TNF |
| Cell-cell adhesion involved in gastrulation | GO:0070586 | |
| Regulation of cell-cell adhesion involved in gastrulation | GO:0070587 | |
| Cellular response to chemical stimulus | GO:0070887 | |
| Cellular response to biotic stimulus | GO:0071216 | |
| Cellular response to molecule of bacterial origin | GO:0071219 | |
| Cellular response to lipopolysaccharide | GO:0071222 | CX3CR1 NLRP3 |
| Cellular response to organic cyclic compound | GO:0071407 | CCL3 IL1B P2RY13 TNF |
| Cellular divalent inorganic cation homeostasis | GO:0072503 | |
| Divalent inorganic cation homeostasis | GO:0072507 | |
| Negative regulation of reproductive process | GO:2000242 | |
| Positive regulation of lymphocyte migration | GO:2000403 | |
| Regulation of natural killer cell chemotaxis | GO:2000501 | |
| Positive regulation of natural killer cell chemotaxis | GO:2000503 | CCL3 CCL4 |
Enriched Hallmarks of Cancer
|
Legend: Hanahan and Weinberg, Cell 2011 |
Self sufficiency in growth signals
Tissue invasion and metastasis