TFBS_DB_43
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 |
|---|---|---|---|---|
| 29 | 399 | 0.56 (0.0E+00) |
4.00 (6.3E-05) |
Co-expression Survival |
| Regulators | Causal Flows | Enriched GO BPs | Enriched Hallmarks of Cancer |
|---|---|---|---|
| 4 | 2 | 30 | 0 |
Replication in independent datasets
| Study | FPC Var. Exp. (Perm. p-value) | Survival (p-value) |
|---|---|---|
| Gravendeel, et al. 2009 | 0.56 (0.0E+00) | 3.05 (2.3E-03) |
| Madhavan, et al. 2009 | 0.67 (0.0E+00) | 5.27 (1.4E-07) |
| Murat, et al. 2008 | 0.54 (0.0E+00) | 0.91 (3.6E-01) |
Genes
Patients
- TCGA.02.0001
- TCGA.02.0003
- TCGA.02.0004
- TCGA.02.0006
- 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.02.0033
- 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.02.0052
- 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.02.0107
- 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.02.2470
- TCGA.02.2483
- TCGA.02.2485
- TCGA.02.2486
- TCGA.06.0122
- TCGA.06.0124
- TCGA.06.0125
- TCGA.06.0126
- TCGA.06.0128
- 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.06.0142
- TCGA.06.0143
- 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.06.0169
- 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.06.1084
- TCGA.06.1086
- TCGA.06.1087
- TCGA.06.1800
- TCGA.06.1801
- TCGA.06.1802
- TCGA.06.1804
- TCGA.06.1805
- 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.06.5856
- TCGA.06.5859
- TCGA.06.6388
- TCGA.06.6390
- TCGA.06.6695
- TCGA.06.6697
- TCGA.06.6698
- TCGA.06.6699
- TCGA.06.6701
- 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.08.0512
- 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.12.0828
- TCGA.12.0829
- TCGA.12.1088
- TCGA.12.1089
- 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.12.5295
- 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.14.1829
- TCGA.14.2554
- 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.16.1045
- TCGA.16.1047
- TCGA.16.1055
- TCGA.16.1056
- TCGA.16.1060
- TCGA.16.1062
- TCGA.16.1063
- TCGA.19.0955
- TCGA.19.0957
- 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.19.5947
- TCGA.19.5951
- TCGA.19.5953
- TCGA.19.5954
- TCGA.19.5955
- TCGA.19.5956
- TCGA.19.5959
- TCGA.26.1438
- TCGA.26.1439
- TCGA.26.1440
- TCGA.26.1442
- TCGA.26.1443
- 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.27.2526
- TCGA.27.2527
- TCGA.27.2528
- TCGA.28.1745
- TCGA.28.1746
- TCGA.28.1747
- TCGA.28.1751
- TCGA.28.1753
- TCGA.28.1756
- TCGA.28.2506
- TCGA.28.2509
- TCGA.28.2510
- TCGA.28.2513
- 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.32.1976
- TCGA.32.1982
- TCGA.32.1986
- TCGA.32.1987
- TCGA.32.1991
- TCGA.32.2491
- TCGA.32.2494
- TCGA.32.2495
- 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.81.5911
- TCGA.87.5896
Regulators
| Type | Name | Action | Prior Knowledge |
|---|---|---|---|
| miRNA | hsa-mir-340 | Repressor | Yes |
| miRNA | hsa-mir-495 | Repressor | Yes |
| TF | IRF1 | Activator | Yes |
| TF | ZNF281 | Repressor | Yes |
Causal Flows
| Mutation | Regulator | Bicluster | ||
|---|---|---|---|---|
| CNTNAP2 | IRF1 | TFBS_DB_43 | ||
| CNTNAP2 | ZNF281 | TFBS_DB_43 |
Enriched GO Biological Processes
| GO Term | GO BP ID | Genes |
| Immune system process | GO:0002376 | |
| Antigen processing and presentation of peptide antigen via mhc class i | GO:0002474 | B2M HLA-A HLA-E HLA-G PSMB8 PSMB9 TAP1 |
| Antigen processing and presentation of exogenous peptide antigen | GO:0002478 | |
| Antigen processing and presentation of exogenous peptide antigen via mhc class i, tap-dependent | GO:0002479 | B2M HLA-A HLA-E HLA-G PSMB8 PSMB9 TAP1 |
| Antigen processing and presentation of exogenous peptide antigen via mhc class i, tap-independent | GO:0002480 | B2M HLA-A HLA-E HLA-G |
| Regulation of immune system process | GO:0002682 | |
| Response to stress | GO:0006950 | |
| Defense response | GO:0006952 | TAP1 |
| Immune response | GO:0006955 | HLA-A |
| Response to virus | GO:0009615 | IFI44 |
| Viral reproduction | GO:0016032 | B2M HLA-A PSMB8 PSMB9 SP100 SP110 |
| Cytokine-mediated signaling pathway | GO:0019221 | B2M GBP1 HLA-A HLA-E HLA-G PSMB8 SP100 |
| Antigen processing and presentation | GO:0019882 | HLA-A HLA-G |
| Antigen processing and presentation of exogenous antigen | GO:0019884 | |
| Dna damage response, signal transduction by p53 class mediator | GO:0030330 | |
| Response to cytokine stimulus | GO:0034097 | SP100 |
| Response to type i interferon | GO:0034340 | SP100 |
| Response to interferon-gamma | GO:0034341 | SP100 |
| Antigen processing and presentation of exogenous peptide antigen via mhc class i | GO:0042590 | B2M HLA-A HLA-E HLA-G PSMB8 PSMB9 TAP1 |
| Signal transduction in response to dna damage | GO:0042770 | |
| Interspecies interaction between organisms | GO:0044419 | |
| Innate immune response | GO:0045087 | B2M CASP1 HLA-E IFI16 PSMB8 PSMB9 |
| Antigen processing and presentation of peptide antigen | GO:0048002 | |
| Multi-organism process | GO:0051704 | |
| Interferon-gamma-mediated signaling pathway | GO:0060333 | B2M GBP1 HLA-A HLA-E HLA-G SP100 |
| Type i interferon-mediated signaling pathway | GO:0060337 | HLA-A HLA-E HLA-G PSMB8 SP100 |
| Cellular response to cytokine stimulus | GO:0071345 | |
| Cellular response to interferon-gamma | GO:0071346 | CD58 |
| Cellular response to type i interferon | GO:0071357 | |
| Signal transduction by p53 class mediator | GO:0072331 |
Enriched Hallmarks of Cancer
|
|
Legend: Hanahan and Weinberg, Cell 2011 |