TARGETSCAN_87
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 |
|---|---|---|---|---|
| 7 | 348 | 0.84 (0.0E+00) |
2.35 (1.9E-02) |
Co-expression Survival |
| Regulators | Causal Flows | Enriched GO BPs | Enriched Hallmarks of Cancer |
|---|---|---|---|
| 0 | 0 | 38 | 2 |
Replication in independent datasets
| Study | FPC Var. Exp. (Perm. p-value) | Survival (p-value) |
|---|---|---|
| Gravendeel, et al. 2009 | 0.74 (0.0E+00) | 2.06 (4.0E-02) |
| Madhavan, et al. 2009 | 0.81 (0.0E+00) | 5.14 (2.7E-07) |
| Murat, et al. 2008 | 0.83 (0.0E+00) | 0.09 (9.3E-01) |
Patients
- TCGA.02.0001
- TCGA.02.0003
- TCGA.02.0004
- 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.02.0034
- TCGA.02.0037
- TCGA.02.0038
- TCGA.02.0039
- TCGA.02.0046
- TCGA.02.0047
- 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.02.0115
- 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.06.0129
- TCGA.06.0130
- TCGA.06.0132
- TCGA.06.0133
- TCGA.06.0137
- TCGA.06.0140
- TCGA.06.0141
- TCGA.06.0142
- TCGA.06.0143
- TCGA.06.0145
- TCGA.06.0146
- TCGA.06.0152
- TCGA.06.0154
- TCGA.06.0155
- TCGA.06.0157
- TCGA.06.0158
- TCGA.06.0159
- TCGA.06.0160
- 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.06.0187
- 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.06.0211
- TCGA.06.0214
- TCGA.06.0216
- TCGA.06.0221
- TCGA.06.0237
- TCGA.06.0238
- 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.06.0882
- 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.06.6697
- TCGA.06.6698
- TCGA.06.6699
- TCGA.06.6701
- TCGA.08.0244
- TCGA.08.0245
- TCGA.08.0246
- TCGA.08.0346
- TCGA.08.0347
- TCGA.08.0348
- TCGA.08.0350
- TCGA.08.0351
- TCGA.08.0353
- TCGA.08.0354
- TCGA.08.0356
- TCGA.08.0357
- TCGA.08.0359
- TCGA.08.0360
- TCGA.08.0385
- TCGA.08.0389
- TCGA.08.0390
- TCGA.08.0392
- TCGA.08.0510
- TCGA.08.0512
- TCGA.08.0517
- 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.12.0691
- TCGA.12.0692
- TCGA.12.0703
- 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.12.1089
- 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.12.1602
- TCGA.12.3646
- TCGA.12.3649
- TCGA.14.0736
- TCGA.14.0781
- TCGA.14.0787
- TCGA.14.0789
- TCGA.14.0790
- TCGA.14.0812
- TCGA.14.0813
- TCGA.14.0817
- TCGA.14.0867
- TCGA.14.0871
- TCGA.14.1034
- TCGA.14.1037
- TCGA.14.1043
- TCGA.14.1396
- TCGA.14.1401
- TCGA.14.1450
- TCGA.14.1451
- TCGA.14.1452
- TCGA.14.1454
- TCGA.14.1458
- TCGA.14.2554
- TCGA.14.4157
- TCGA.15.0742
- TCGA.15.1446
- TCGA.16.0846
- TCGA.16.0848
- TCGA.16.0849
- TCGA.16.0850
- TCGA.16.0861
- TCGA.16.1045
- 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.19.1390
- 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.19.5953
- 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.27.2523
- TCGA.27.2526
- TCGA.27.2527
- TCGA.27.2528
- TCGA.28.1746
- TCGA.28.1747
- TCGA.28.1751
- TCGA.28.1753
- TCGA.28.1756
- 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.28.6450
- 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.41.2573
- TCGA.41.2575
- TCGA.41.3393
- TCGA.41.3915
- TCGA.41.4097
- TCGA.41.5651
- TCGA.74.6575
- TCGA.74.6578
- TCGA.76.4925
- TCGA.76.4927
- TCGA.76.4932
- TCGA.76.4935
- TCGA.76.6282
- TCGA.76.6657
- TCGA.76.6660
- TCGA.81.5911
- TCGA.87.5896
Regulators
| Type | Name | Action | Prior Knowledge |
|---|---|---|---|
Causal Flows
| Mutation | Regulator | Bicluster |
|---|
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-B HLA-E HLA-F HLA-G 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-B HLA-E HLA-F HLA-G TAP1 |
| Antigen processing and presentation of exogenous peptide antigen via mhc class i, tap-independent | GO:0002480 | B2M HLA-A HLA-B HLA-E HLA-F HLA-G |
| Tolerance induction | GO:0002507 | |
| T cell tolerance induction | GO:0002517 | |
| Regulation of tolerance induction | GO:0002643 | |
| Regulation of t cell tolerance induction | GO:0002664 | |
| Regulation of immune system process | GO:0002682 | |
| Regulation of immune effector process | GO:0002697 | |
| Response to stress | GO:0006950 | |
| Defense response | GO:0006952 | HLA-B TAP1 |
| Immune response | GO:0006955 | HLA-A HLA-B |
| Response to organic substance | GO:0010033 | |
| Cytokine-mediated signaling pathway | GO:0019221 | B2M HLA-A HLA-B HLA-E HLA-F HLA-G |
| Antigen processing and presentation | GO:0019882 | HLA-A HLA-B HLA-G |
| Antigen processing and presentation of exogenous antigen | GO:0019884 | |
| Interleukin-12 production | GO:0032615 | |
| Regulation of interleukin-12 production | GO:0032655 | HLA-B |
| Response to cytokine stimulus | GO:0034097 | |
| Response to type i interferon | GO:0034340 | |
| Response to interferon-gamma | GO:0034341 | |
| Antigen processing and presentation of exogenous peptide antigen via mhc class i | GO:0042590 | B2M HLA-A HLA-B HLA-E HLA-F HLA-G TAP1 |
| Innate immune response | GO:0045087 | B2M HLA-B HLA-E |
| Antigen processing and presentation of peptide antigen | GO:0048002 | |
| Regulation of response to stimulus | GO:0048583 | |
| Regulation of defense response to virus by virus | GO:0050690 | B2M HLA-A |
| Regulation of immune response | GO:0050776 | B2M HLA-A HLA-B HLA-E HLA-F HLA-G |
| Interferon-gamma-mediated signaling pathway | GO:0060333 | B2M HLA-A HLA-B HLA-E HLA-F HLA-G |
| Type i interferon-mediated signaling pathway | GO:0060337 | HLA-A HLA-B HLA-E HLA-F HLA-G |
| Cellular response to chemical stimulus | GO:0070887 | |
| Cellular response to organic substance | GO:0071310 | |
| Cellular response to cytokine stimulus | GO:0071345 | |
| Cellular response to interferon-gamma | GO:0071346 | |
| Cellular response to type i interferon | GO:0071357 | |
| Dendritic cell differentiation | GO:0097028 | |
| Regulation of dendritic cell differentiation | GO:2001198 | HLA-B |
Enriched Hallmarks of Cancer
|
Legend: Hanahan and Weinberg, Cell 2011 |
Tumor promoting inflammation
Evading immune detection