Correlation between gene mutation status and molecular subtypes
Skin Cutaneous Melanoma (Metastatic)
15 July 2014  |  analyses__2014_07_15
Maintainer Information
Citation Information
Maintained by TCGA GDAC Team (Broad Institute/MD Anderson Cancer Center/Harvard Medical School)
Cite as Broad Institute TCGA Genome Data Analysis Center (2014): Correlation between gene mutation status and molecular subtypes. Broad Institute of MIT and Harvard. doi:10.7908/C1GF0S9F
Overview
Introduction

This pipeline computes the correlation between significantly recurrent gene mutations and molecular subtypes.

Summary

Testing the association between mutation status of 147 genes and 10 molecular subtypes across 278 patients, 3 significant findings detected with P value < 0.05 and Q value < 0.25.

  • BRAF mutation correlated to 'CN_CNMF' and 'MRNASEQ_CHIERARCHICAL'.

  • SF3B1 mutation correlated to 'MIRSEQ_MATURE_CHIERARCHICAL'.

Results
Overview of the results

Table 1.  Get Full Table Overview of the association between mutation status of 147 genes and 10 molecular subtypes. Shown in the table are P values (Q values). Thresholded by P value < 0.05 and Q value < 0.25, 3 significant findings detected.

Clinical
Features
CN
CNMF
METHLYATION
CNMF
RPPA
CNMF
RPPA
CHIERARCHICAL
MRNASEQ
CNMF
MRNASEQ
CHIERARCHICAL
MIRSEQ
CNMF
MIRSEQ
CHIERARCHICAL
MIRSEQ
MATURE
CNMF
MIRSEQ
MATURE
CHIERARCHICAL
nMutated (%) nWild-Type Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test
BRAF 140 (50%) 138 1e-05
(0.0147)
0.019
(1.00)
0.503
(1.00)
0.62
(1.00)
0.00256
(1.00)
1e-05
(0.0147)
0.00304
(1.00)
0.138
(1.00)
0.249
(1.00)
0.036
(1.00)
SF3B1 14 (5%) 264 0.981
(1.00)
0.251
(1.00)
0.035
(1.00)
0.451
(1.00)
0.0509
(1.00)
0.137
(1.00)
0.0374
(1.00)
0.0256
(1.00)
0.0009
(1.00)
0.00013
(0.191)
NRAS 86 (31%) 192 0.00161
(1.00)
0.0146
(1.00)
0.425
(1.00)
0.237
(1.00)
0.932
(1.00)
0.157
(1.00)
0.875
(1.00)
0.336
(1.00)
0.595
(1.00)
0.179
(1.00)
TP53 47 (17%) 231 0.864
(1.00)
0.0111
(1.00)
0.25
(1.00)
0.36
(1.00)
0.188
(1.00)
0.327
(1.00)
0.447
(1.00)
0.604
(1.00)
0.706
(1.00)
0.308
(1.00)
CDKN2A 41 (15%) 237 0.291
(1.00)
0.07
(1.00)
0.153
(1.00)
0.688
(1.00)
0.889
(1.00)
0.427
(1.00)
0.945
(1.00)
0.0586
(1.00)
0.604
(1.00)
0.804
(1.00)
RPS27 24 (9%) 254 0.689
(1.00)
0.894
(1.00)
0.71
(1.00)
0.925
(1.00)
0.694
(1.00)
0.756
(1.00)
0.793
(1.00)
0.989
(1.00)
0.628
(1.00)
0.477
(1.00)
MRPS31 19 (7%) 259 0.926
(1.00)
0.0266
(1.00)
0.964
(1.00)
0.871
(1.00)
0.155
(1.00)
0.331
(1.00)
0.408
(1.00)
0.77
(1.00)
0.17
(1.00)
0.386
(1.00)
NF1 38 (14%) 240 0.417
(1.00)
0.399
(1.00)
0.546
(1.00)
0.559
(1.00)
0.361
(1.00)
0.0763
(1.00)
0.113
(1.00)
0.876
(1.00)
0.193
(1.00)
0.629
(1.00)
RAC1 20 (7%) 258 0.0148
(1.00)
0.587
(1.00)
0.597
(1.00)
0.431
(1.00)
0.541
(1.00)
0.65
(1.00)
0.219
(1.00)
0.394
(1.00)
0.101
(1.00)
0.191
(1.00)
ARID2 35 (13%) 243 0.944
(1.00)
0.153
(1.00)
0.67
(1.00)
0.784
(1.00)
0.807
(1.00)
0.653
(1.00)
0.254
(1.00)
0.16
(1.00)
0.92
(1.00)
0.539
(1.00)
C15ORF23 19 (7%) 259 0.854
(1.00)
0.0597
(1.00)
0.716
(1.00)
0.771
(1.00)
0.795
(1.00)
0.231
(1.00)
0.95
(1.00)
0.818
(1.00)
0.809
(1.00)
0.958
(1.00)
PTEN 23 (8%) 255 0.462
(1.00)
0.0742
(1.00)
0.0187
(1.00)
0.0835
(1.00)
0.313
(1.00)
0.00344
(1.00)
0.178
(1.00)
0.0455
(1.00)
0.605
(1.00)
0.202
(1.00)
NOTCH2NL 15 (5%) 263 0.591
(1.00)
0.596
(1.00)
0.608
(1.00)
0.139
(1.00)
0.0192
(1.00)
0.251
(1.00)
0.343
(1.00)
0.341
(1.00)
0.0663
(1.00)
0.304
(1.00)
MAP2K1 13 (5%) 265 0.0181
(1.00)
0.00041
(0.601)
0.365
(1.00)
0.0218
(1.00)
0.243
(1.00)
0.0959
(1.00)
0.0195
(1.00)
0.658
(1.00)
0.187
(1.00)
0.347
(1.00)
PPP6C 20 (7%) 258 0.641
(1.00)
0.451
(1.00)
0.487
(1.00)
0.301
(1.00)
0.739
(1.00)
0.252
(1.00)
0.128
(1.00)
0.0668
(1.00)
0.263
(1.00)
0.34
(1.00)
IDH1 16 (6%) 262 0.0839
(1.00)
0.226
(1.00)
0.631
(1.00)
0.167
(1.00)
0.144
(1.00)
0.938
(1.00)
0.338
(1.00)
0.562
(1.00)
0.156
(1.00)
0.0961
(1.00)
PDE1A 39 (14%) 239 0.688
(1.00)
0.58
(1.00)
0.715
(1.00)
0.63
(1.00)
0.023
(1.00)
0.0805
(1.00)
0.37
(1.00)
0.146
(1.00)
0.199
(1.00)
0.212
(1.00)
HMGCR 11 (4%) 267 0.879
(1.00)
0.316
(1.00)
0.339
(1.00)
0.644
(1.00)
0.547
(1.00)
0.306
(1.00)
0.594
(1.00)
0.195
(1.00)
0.227
(1.00)
0.606
(1.00)
PHGDH 12 (4%) 266 0.629
(1.00)
0.394
(1.00)
0.496
(1.00)
0.275
(1.00)
0.936
(1.00)
0.446
(1.00)
0.485
(1.00)
0.319
(1.00)
0.661
(1.00)
0.359
(1.00)
SLC38A4 34 (12%) 244 0.725
(1.00)
0.252
(1.00)
0.454
(1.00)
0.833
(1.00)
0.00962
(1.00)
0.133
(1.00)
0.882
(1.00)
0.642
(1.00)
1
(1.00)
0.794
(1.00)
CDK4 7 (3%) 271 0.737
(1.00)
0.441
(1.00)
0.0432
(1.00)
0.914
(1.00)
1
(1.00)
0.423
(1.00)
0.821
(1.00)
0.487
(1.00)
0.449
(1.00)
0.341
(1.00)
FAM58A 5 (2%) 273 0.81
(1.00)
0.747
(1.00)
0.909
(1.00)
0.834
(1.00)
0.231
(1.00)
0.564
(1.00)
0.0546
(1.00)
0.00477
(1.00)
0.132
(1.00)
0.346
(1.00)
EMG1 9 (3%) 269 0.967
(1.00)
0.915
(1.00)
0.53
(1.00)
0.271
(1.00)
0.4
(1.00)
0.0205
(1.00)
0.836
(1.00)
0.964
(1.00)
0.583
(1.00)
0.47
(1.00)
RQCD1 9 (3%) 269 0.0653
(1.00)
0.221
(1.00)
0.0864
(1.00)
0.929
(1.00)
0.583
(1.00)
0.557
(1.00)
0.734
(1.00)
0.119
(1.00)
0.479
(1.00)
0.959
(1.00)
HSD11B1 14 (5%) 264 0.71
(1.00)
0.193
(1.00)
0.683
(1.00)
0.184
(1.00)
0.24
(1.00)
0.336
(1.00)
0.401
(1.00)
0.944
(1.00)
0.514
(1.00)
0.127
(1.00)
DMC1 12 (4%) 266 0.723
(1.00)
0.396
(1.00)
0.129
(1.00)
0.303
(1.00)
0.00652
(1.00)
0.769
(1.00)
0.0886
(1.00)
0.69
(1.00)
0.0242
(1.00)
0.0306
(1.00)
NRK 44 (16%) 234 0.183
(1.00)
0.464
(1.00)
0.511
(1.00)
0.647
(1.00)
0.407
(1.00)
0.801
(1.00)
0.989
(1.00)
0.642
(1.00)
0.804
(1.00)
0.993
(1.00)
TAF1A 13 (5%) 265 0.559
(1.00)
0.826
(1.00)
0.941
(1.00)
0.939
(1.00)
1
(1.00)
0.672
(1.00)
0.231
(1.00)
0.782
(1.00)
0.0355
(1.00)
0.565
(1.00)
OXA1L 8 (3%) 270 0.414
(1.00)
0.254
(1.00)
1
(1.00)
0.55
(1.00)
0.444
(1.00)
0.456
(1.00)
0.774
(1.00)
0.522
(1.00)
0.491
(1.00)
0.186
(1.00)
COL3A1 57 (21%) 221 0.364
(1.00)
1
(1.00)
0.955
(1.00)
0.148
(1.00)
0.323
(1.00)
0.267
(1.00)
0.939
(1.00)
0.623
(1.00)
0.894
(1.00)
0.474
(1.00)
TCHHL1 39 (14%) 239 0.657
(1.00)
0.461
(1.00)
0.0355
(1.00)
0.185
(1.00)
0.227
(1.00)
0.227
(1.00)
0.945
(1.00)
0.868
(1.00)
0.746
(1.00)
0.968
(1.00)
IL5RA 17 (6%) 261 0.549
(1.00)
0.904
(1.00)
0.774
(1.00)
0.226
(1.00)
0.601
(1.00)
0.14
(1.00)
0.516
(1.00)
0.336
(1.00)
0.62
(1.00)
0.567
(1.00)
NBPF7 13 (5%) 265 1
(1.00)
0.717
(1.00)
0.794
(1.00)
0.494
(1.00)
0.0663
(1.00)
0.22
(1.00)
0.0929
(1.00)
0.163
(1.00)
0.0862
(1.00)
0.0599
(1.00)
KEL 37 (13%) 241 0.426
(1.00)
0.31
(1.00)
0.775
(1.00)
0.654
(1.00)
0.0039
(1.00)
0.0223
(1.00)
0.262
(1.00)
0.577
(1.00)
0.0899
(1.00)
0.158
(1.00)
C7ORF58 35 (13%) 243 0.658
(1.00)
0.521
(1.00)
0.0886
(1.00)
0.00254
(1.00)
0.809
(1.00)
0.234
(1.00)
0.298
(1.00)
0.635
(1.00)
0.714
(1.00)
0.506
(1.00)
NBPF1 39 (14%) 239 0.451
(1.00)
0.222
(1.00)
0.0344
(1.00)
0.701
(1.00)
0.478
(1.00)
0.293
(1.00)
0.168
(1.00)
0.931
(1.00)
0.0661
(1.00)
0.295
(1.00)
TMEM216 8 (3%) 270 0.184
(1.00)
0.393
(1.00)
0.0577
(1.00)
0.624
(1.00)
0.743
(1.00)
0.195
(1.00)
0.469
(1.00)
0.541
(1.00)
0.664
(1.00)
0.709
(1.00)
DOM3Z 7 (3%) 271 0.74
(1.00)
0.204
(1.00)
1
(1.00)
0.0953
(1.00)
0.635
(1.00)
0.0533
(1.00)
0.0847
(1.00)
0.165
(1.00)
0.0202
(1.00)
0.202
(1.00)
BCLAF1 48 (17%) 230 0.482
(1.00)
0.28
(1.00)
0.226
(1.00)
0.829
(1.00)
0.921
(1.00)
0.881
(1.00)
0.793
(1.00)
0.88
(1.00)
0.876
(1.00)
0.16
(1.00)
ZFX 14 (5%) 264 0.708
(1.00)
0.697
(1.00)
0.529
(1.00)
1
(1.00)
0.0493
(1.00)
0.686
(1.00)
0.431
(1.00)
0.658
(1.00)
0.0488
(1.00)
0.465
(1.00)
SAG 11 (4%) 267 0.178
(1.00)
0.579
(1.00)
0.51
(1.00)
0.168
(1.00)
0.634
(1.00)
0.512
(1.00)
0.505
(1.00)
0.2
(1.00)
0.862
(1.00)
0.353
(1.00)
OR51S1 30 (11%) 248 0.369
(1.00)
0.969
(1.00)
0.493
(1.00)
0.318
(1.00)
0.832
(1.00)
0.267
(1.00)
0.187
(1.00)
0.796
(1.00)
0.0828
(1.00)
0.028
(1.00)
USP17L2 22 (8%) 256 0.453
(1.00)
0.159
(1.00)
0.813
(1.00)
0.57
(1.00)
0.272
(1.00)
0.905
(1.00)
0.948
(1.00)
0.486
(1.00)
0.746
(1.00)
0.606
(1.00)
LRPPRC 15 (5%) 263 0.239
(1.00)
0.669
(1.00)
0.42
(1.00)
0.678
(1.00)
0.535
(1.00)
0.572
(1.00)
0.476
(1.00)
0.812
(1.00)
0.653
(1.00)
0.951
(1.00)
BTK 16 (6%) 262 0.362
(1.00)
0.148
(1.00)
0.475
(1.00)
0.368
(1.00)
0.00131
(1.00)
0.275
(1.00)
0.679
(1.00)
0.229
(1.00)
0.28
(1.00)
0.0741
(1.00)
DSG3 47 (17%) 231 0.598
(1.00)
0.959
(1.00)
0.0706
(1.00)
0.795
(1.00)
0.81
(1.00)
0.81
(1.00)
0.376
(1.00)
0.595
(1.00)
0.199
(1.00)
0.18
(1.00)
C1QTNF9 16 (6%) 262 0.452
(1.00)
0.391
(1.00)
0.646
(1.00)
0.791
(1.00)
1
(1.00)
0.442
(1.00)
0.509
(1.00)
0.134
(1.00)
0.316
(1.00)
0.0971
(1.00)
BLM 15 (5%) 263 0.653
(1.00)
0.595
(1.00)
0.367
(1.00)
0.401
(1.00)
0.172
(1.00)
0.656
(1.00)
0.0879
(1.00)
0.447
(1.00)
0.225
(1.00)
0.0332
(1.00)
ACSM2B 44 (16%) 234 0.94
(1.00)
0.0926
(1.00)
0.329
(1.00)
0.303
(1.00)
0.127
(1.00)
0.256
(1.00)
0.468
(1.00)
0.666
(1.00)
0.462
(1.00)
0.612
(1.00)
PARM1 19 (7%) 259 0.578
(1.00)
0.914
(1.00)
0.364
(1.00)
0.357
(1.00)
0.8
(1.00)
1
(1.00)
0.496
(1.00)
0.183
(1.00)
0.509
(1.00)
0.425
(1.00)
TP63 48 (17%) 230 0.123
(1.00)
0.108
(1.00)
0.0428
(1.00)
0.276
(1.00)
0.252
(1.00)
0.137
(1.00)
0.393
(1.00)
0.775
(1.00)
0.426
(1.00)
0.0712
(1.00)
NGF 9 (3%) 269 0.334
(1.00)
0.917
(1.00)
0.0756
(1.00)
1
(1.00)
0.693
(1.00)
0.719
(1.00)
0.758
(1.00)
0.827
(1.00)
0.907
(1.00)
0.374
(1.00)
ANO4 45 (16%) 233 0.709
(1.00)
0.331
(1.00)
0.28
(1.00)
0.779
(1.00)
0.435
(1.00)
0.581
(1.00)
0.851
(1.00)
0.968
(1.00)
0.476
(1.00)
0.426
(1.00)
PCDH18 50 (18%) 228 0.298
(1.00)
0.98
(1.00)
0.0151
(1.00)
0.715
(1.00)
0.351
(1.00)
1
(1.00)
0.378
(1.00)
0.371
(1.00)
1
(1.00)
0.171
(1.00)
NMS 13 (5%) 265 0.9
(1.00)
0.316
(1.00)
0.311
(1.00)
0.912
(1.00)
0.0106
(1.00)
0.239
(1.00)
0.921
(1.00)
0.876
(1.00)
0.938
(1.00)
1
(1.00)
C12ORF43 5 (2%) 273 0.755
(1.00)
0.444
(1.00)
0.195
(1.00)
0.269
(1.00)
0.741
(1.00)
0.679
(1.00)
0.894
(1.00)
0.494
(1.00)
0.743
(1.00)
0.212
(1.00)
XIRP2 94 (34%) 184 0.387
(1.00)
0.406
(1.00)
0.202
(1.00)
0.722
(1.00)
0.557
(1.00)
0.377
(1.00)
0.626
(1.00)
0.656
(1.00)
0.91
(1.00)
0.234
(1.00)
USH2A 91 (33%) 187 0.895
(1.00)
0.377
(1.00)
0.0673
(1.00)
0.823
(1.00)
0.574
(1.00)
0.268
(1.00)
0.524
(1.00)
0.208
(1.00)
0.345
(1.00)
0.0394
(1.00)
DDX3X 19 (7%) 259 0.497
(1.00)
1
(1.00)
0.578
(1.00)
0.187
(1.00)
0.697
(1.00)
0.28
(1.00)
0.662
(1.00)
0.515
(1.00)
0.761
(1.00)
0.534
(1.00)
PTPN22 24 (9%) 254 0.464
(1.00)
0.106
(1.00)
0.439
(1.00)
0.0254
(1.00)
0.554
(1.00)
0.323
(1.00)
0.624
(1.00)
0.801
(1.00)
0.21
(1.00)
0.484
(1.00)
C3ORF71 4 (1%) 274 0.515
(1.00)
0.306
(1.00)
0.482
(1.00)
0.522
(1.00)
0.151
(1.00)
0.173
(1.00)
0.858
(1.00)
0.158
(1.00)
0.693
(1.00)
0.381
(1.00)
CEACAM6 15 (5%) 263 0.712
(1.00)
0.418
(1.00)
0.923
(1.00)
0.739
(1.00)
0.895
(1.00)
0.571
(1.00)
0.47
(1.00)
0.754
(1.00)
0.398
(1.00)
0.297
(1.00)
MUC7 17 (6%) 261 0.782
(1.00)
0.318
(1.00)
0.579
(1.00)
0.744
(1.00)
0.862
(1.00)
0.067
(1.00)
0.0506
(1.00)
0.404
(1.00)
0.0915
(1.00)
0.464
(1.00)
SELP 34 (12%) 244 0.267
(1.00)
0.0847
(1.00)
0.0387
(1.00)
0.0729
(1.00)
0.461
(1.00)
0.87
(1.00)
0.864
(1.00)
0.408
(1.00)
0.817
(1.00)
0.729
(1.00)
LIPH 15 (5%) 263 0.479
(1.00)
0.347
(1.00)
0.256
(1.00)
0.415
(1.00)
0.796
(1.00)
0.421
(1.00)
0.831
(1.00)
0.908
(1.00)
0.617
(1.00)
0.975
(1.00)
MMP1 14 (5%) 264 0.0184
(1.00)
0.251
(1.00)
0.76
(1.00)
0.868
(1.00)
0.835
(1.00)
0.502
(1.00)
0.39
(1.00)
0.0569
(1.00)
0.94
(1.00)
0.395
(1.00)
KLF11 9 (3%) 269 0.275
(1.00)
0.0702
(1.00)
0.841
(1.00)
0.0258
(1.00)
0.583
(1.00)
0.891
(1.00)
0.934
(1.00)
0.929
(1.00)
0.913
(1.00)
0.439
(1.00)
USP9X 16 (6%) 262 0.212
(1.00)
0.185
(1.00)
0.213
(1.00)
0.148
(1.00)
1
(1.00)
0.515
(1.00)
0.383
(1.00)
0.366
(1.00)
0.446
(1.00)
0.282
(1.00)
PTK7 17 (6%) 261 0.456
(1.00)
0.376
(1.00)
0.354
(1.00)
0.625
(1.00)
0.704
(1.00)
0.442
(1.00)
0.0488
(1.00)
0.341
(1.00)
0.206
(1.00)
0.614
(1.00)
SLC14A1 18 (6%) 260 0.746
(1.00)
0.501
(1.00)
0.835
(1.00)
0.3
(1.00)
1
(1.00)
0.257
(1.00)
0.993
(1.00)
0.556
(1.00)
0.779
(1.00)
0.417
(1.00)
PROX2 13 (5%) 265 0.149
(1.00)
0.422
(1.00)
0.899
(1.00)
0.871
(1.00)
0.557
(1.00)
0.0459
(1.00)
0.769
(1.00)
0.403
(1.00)
0.489
(1.00)
0.722
(1.00)
DNMBP 19 (7%) 259 0.419
(1.00)
0.45
(1.00)
0.978
(1.00)
0.978
(1.00)
0.347
(1.00)
0.754
(1.00)
0.345
(1.00)
0.532
(1.00)
0.042
(1.00)
0.353
(1.00)
MPP7 30 (11%) 248 0.759
(1.00)
0.253
(1.00)
0.397
(1.00)
0.269
(1.00)
0.298
(1.00)
0.137
(1.00)
0.926
(1.00)
0.708
(1.00)
0.969
(1.00)
0.874
(1.00)
IFNGR2 4 (1%) 274 0.694
(1.00)
0.456
(1.00)
0.6
(1.00)
0.0692
(1.00)
0.464
(1.00)
0.353
(1.00)
0.694
(1.00)
0.179
(1.00)
0.69
(1.00)
1
(1.00)
ASNSD1 7 (3%) 271 0.0727
(1.00)
0.703
(1.00)
0.542
(1.00)
0.0313
(1.00)
0.503
(1.00)
0.652
(1.00)
0.75
(1.00)
0.868
(1.00)
0.798
(1.00)
0.941
(1.00)
RB1 9 (3%) 269 0.116
(1.00)
0.0895
(1.00)
1
(1.00)
0.937
(1.00)
0.583
(1.00)
0.718
(1.00)
0.0492
(1.00)
0.0038
(1.00)
0.475
(1.00)
0.887
(1.00)
CCK 6 (2%) 272 0.235
(1.00)
0.664
(1.00)
0.301
(1.00)
0.0202
(1.00)
0.451
(1.00)
0.52
(1.00)
0.357
(1.00)
0.947
(1.00)
1
(1.00)
0.656
(1.00)
ZNF780B 10 (4%) 268 0.319
(1.00)
0.564
(1.00)
0.34
(1.00)
0.555
(1.00)
0.665
(1.00)
0.589
(1.00)
0.511
(1.00)
0.963
(1.00)
0.249
(1.00)
0.921
(1.00)
ATP5F1 7 (3%) 271 0.797
(1.00)
0.798
(1.00)
0.033
(1.00)
0.478
(1.00)
0.8
(1.00)
0.564
(1.00)
0.811
(1.00)
0.615
(1.00)
0.633
(1.00)
1
(1.00)
LOC728819 8 (3%) 270 0.717
(1.00)
0.902
(1.00)
0.107
(1.00)
0.808
(1.00)
0.741
(1.00)
1
(1.00)
0.843
(1.00)
0.302
(1.00)
0.906
(1.00)
0.91
(1.00)
LACRT 9 (3%) 269 0.463
(1.00)
0.437
(1.00)
0.0679
(1.00)
0.0848
(1.00)
0.916
(1.00)
1
(1.00)
0.323
(1.00)
0.921
(1.00)
0.602
(1.00)
0.745
(1.00)
RPGRIP1 25 (9%) 253 0.108
(1.00)
0.724
(1.00)
0.318
(1.00)
0.448
(1.00)
0.209
(1.00)
0.0651
(1.00)
0.542
(1.00)
0.212
(1.00)
0.106
(1.00)
0.0455
(1.00)
THEMIS 34 (12%) 244 0.474
(1.00)
0.112
(1.00)
0.536
(1.00)
0.634
(1.00)
0.759
(1.00)
0.298
(1.00)
0.298
(1.00)
0.258
(1.00)
0.518
(1.00)
0.212
(1.00)
PTPRT 81 (29%) 197 0.105
(1.00)
0.097
(1.00)
0.268
(1.00)
0.93
(1.00)
0.841
(1.00)
0.347
(1.00)
0.729
(1.00)
0.3
(1.00)
0.792
(1.00)
0.0374
(1.00)
SELPLG 10 (4%) 268 0.888
(1.00)
0.519
(1.00)
0.0824
(1.00)
1
(1.00)
0.401
(1.00)
0.592
(1.00)
0.956
(1.00)
1
(1.00)
0.84
(1.00)
0.851
(1.00)
CSN3 4 (1%) 274 0.0951
(1.00)
0.141
(1.00)
0.392
(1.00)
0.584
(1.00)
0.834
(1.00)
0.63
(1.00)
0.924
(1.00)
0.742
(1.00)
0.553
(1.00)
0.432
(1.00)
SLC7A11 12 (4%) 266 0.632
(1.00)
0.612
(1.00)
0.731
(1.00)
0.474
(1.00)
1
(1.00)
1
(1.00)
0.707
(1.00)
0.765
(1.00)
0.71
(1.00)
0.528
(1.00)
SYNE1 73 (26%) 205 0.172
(1.00)
0.0818
(1.00)
0.492
(1.00)
0.773
(1.00)
0.603
(1.00)
0.45
(1.00)
0.108
(1.00)
0.737
(1.00)
0.579
(1.00)
0.993
(1.00)
NFASC 23 (8%) 255 0.884
(1.00)
0.283
(1.00)
0.741
(1.00)
1
(1.00)
0.477
(1.00)
0.747
(1.00)
0.592
(1.00)
0.436
(1.00)
0.49
(1.00)
0.181
(1.00)
CCDC11 17 (6%) 261 0.23
(1.00)
0.069
(1.00)
0.259
(1.00)
0.185
(1.00)
0.398
(1.00)
0.56
(1.00)
0.134
(1.00)
0.818
(1.00)
0.0417
(1.00)
0.0922
(1.00)
IL31RA 17 (6%) 261 0.0826
(1.00)
0.318
(1.00)
0.56
(1.00)
0.964
(1.00)
0.291
(1.00)
0.531
(1.00)
0.732
(1.00)
0.102
(1.00)
0.138
(1.00)
0.237
(1.00)
MLL 38 (14%) 240 0.553
(1.00)
0.518
(1.00)
0.0727
(1.00)
0.447
(1.00)
0.576
(1.00)
0.176
(1.00)
0.591
(1.00)
0.641
(1.00)
0.651
(1.00)
0.378
(1.00)
DIRC2 4 (1%) 274 1
(1.00)
0.838
(1.00)
0.686
(1.00)
0.483
(1.00)
0.418
(1.00)
0.9
(1.00)
0.117
(1.00)
1
(1.00)
ADAM22 19 (7%) 259 0.564
(1.00)
0.21
(1.00)
0.0128
(1.00)
0.268
(1.00)
0.193
(1.00)
0.229
(1.00)
0.988
(1.00)
0.984
(1.00)
0.865
(1.00)
0.965
(1.00)
PLCXD2 9 (3%) 269 0.875
(1.00)
0.117
(1.00)
0.814
(1.00)
0.203
(1.00)
0.436
(1.00)
0.557
(1.00)
0.324
(1.00)
0.246
(1.00)
0.178
(1.00)
1
(1.00)
EDN1 9 (3%) 269 0.845
(1.00)
1
(1.00)
0.58
(1.00)
0.929
(1.00)
0.639
(1.00)
1
(1.00)
0.635
(1.00)
0.313
(1.00)
0.439
(1.00)
0.236
(1.00)
HTR7 9 (3%) 269 0.478
(1.00)
0.436
(1.00)
0.546
(1.00)
0.625
(1.00)
0.114
(1.00)
0.555
(1.00)
0.365
(1.00)
0.411
(1.00)
0.198
(1.00)
0.708
(1.00)
TLR9 18 (6%) 260 0.485
(1.00)
0.188
(1.00)
1
(1.00)
0.412
(1.00)
0.87
(1.00)
0.353
(1.00)
0.0338
(1.00)
0.705
(1.00)
1
(1.00)
0.331
(1.00)
MYH1 67 (24%) 211 0.389
(1.00)
0.00748
(1.00)
0.423
(1.00)
0.373
(1.00)
0.172
(1.00)
0.593
(1.00)
0.919
(1.00)
0.949
(1.00)
0.506
(1.00)
0.0222
(1.00)
EPHA3 30 (11%) 248 0.18
(1.00)
0.59
(1.00)
0.966
(1.00)
0.827
(1.00)
0.941
(1.00)
1
(1.00)
0.236
(1.00)
0.0416
(1.00)
0.606
(1.00)
0.0335
(1.00)
ARL16 7 (3%) 271 0.167
(1.00)
0.348
(1.00)
0.481
(1.00)
0.29
(1.00)
0.394
(1.00)
0.746
(1.00)
0.185
(1.00)
0.591
(1.00)
0.35
(1.00)
0.64
(1.00)
DDX17 11 (4%) 267 0.179
(1.00)
0.0886
(1.00)
0.794
(1.00)
0.884
(1.00)
1
(1.00)
0.081
(1.00)
0.264
(1.00)
0.816
(1.00)
0.849
(1.00)
0.811
(1.00)
MAN1A1 14 (5%) 264 0.648
(1.00)
0.194
(1.00)
0.58
(1.00)
0.179
(1.00)
0.173
(1.00)
0.431
(1.00)
0.451
(1.00)
0.0991
(1.00)
0.433
(1.00)
0.23
(1.00)
ADAM30 28 (10%) 250 0.179
(1.00)
0.849
(1.00)
0.431
(1.00)
0.0392
(1.00)
0.389
(1.00)
0.59
(1.00)
0.0846
(1.00)
0.534
(1.00)
0.134
(1.00)
0.166
(1.00)
NBEAL1 30 (11%) 248 0.0463
(1.00)
0.0193
(1.00)
0.565
(1.00)
0.0738
(1.00)
0.886
(1.00)
0.463
(1.00)
0.664
(1.00)
0.593
(1.00)
0.585
(1.00)
0.876
(1.00)
WDR65 21 (8%) 257 0.843
(1.00)
0.845
(1.00)
0.281
(1.00)
0.916
(1.00)
0.582
(1.00)
0.628
(1.00)
0.219
(1.00)
0.167
(1.00)
0.0726
(1.00)
0.733
(1.00)
C6ORF165 19 (7%) 259 0.471
(1.00)
0.499
(1.00)
0.278
(1.00)
0.229
(1.00)
0.48
(1.00)
0.756
(1.00)
0.747
(1.00)
0.165
(1.00)
0.562
(1.00)
0.667
(1.00)
RNF133 8 (3%) 270 0.886
(1.00)
0.472
(1.00)
0.341
(1.00)
0.481
(1.00)
0.821
(1.00)
0.878
(1.00)
0.243
(1.00)
0.616
(1.00)
0.601
(1.00)
0.906
(1.00)
GTPBP4 8 (3%) 270 0.119
(1.00)
0.609
(1.00)
0.686
(1.00)
0.194
(1.00)
0.256
(1.00)
0.113
(1.00)
0.758
(1.00)
0.474
(1.00)
0.601
(1.00)
0.128
(1.00)
ACSBG1 12 (4%) 266 0.136
(1.00)
0.397
(1.00)
0.719
(1.00)
0.254
(1.00)
0.344
(1.00)
0.444
(1.00)
0.904
(1.00)
0.551
(1.00)
1
(1.00)
0.0935
(1.00)
TPTE 60 (22%) 218 0.406
(1.00)
0.0638
(1.00)
0.071
(1.00)
0.917
(1.00)
0.0416
(1.00)
0.978
(1.00)
0.621
(1.00)
0.538
(1.00)
0.618
(1.00)
0.00168
(1.00)
CLCC1 13 (5%) 265 0.611
(1.00)
0.772
(1.00)
0.868
(1.00)
0.593
(1.00)
0.825
(1.00)
0.342
(1.00)
0.612
(1.00)
0.519
(1.00)
0.491
(1.00)
0.531
(1.00)
PPAP2B 10 (4%) 268 0.795
(1.00)
0.715
(1.00)
0.3
(1.00)
0.76
(1.00)
0.4
(1.00)
0.198
(1.00)
0.862
(1.00)
0.955
(1.00)
0.324
(1.00)
0.75
(1.00)
CD300E 10 (4%) 268 0.166
(1.00)
0.609
(1.00)
0.529
(1.00)
0.794
(1.00)
0.122
(1.00)
0.154
(1.00)
0.78
(1.00)
0.51
(1.00)
1
(1.00)
0.64
(1.00)
ALDH5A1 10 (4%) 268 0.298
(1.00)
0.102
(1.00)
0.414
(1.00)
0.95
(1.00)
0.0181
(1.00)
0.2
(1.00)
0.761
(1.00)
0.795
(1.00)
0.783
(1.00)
0.202
(1.00)
SPRYD3 8 (3%) 270 0.0494
(1.00)
1
(1.00)
0.683
(1.00)
0.673
(1.00)
0.322
(1.00)
0.879
(1.00)
0.116
(1.00)
0.74
(1.00)
0.74
(1.00)
0.572
(1.00)
MAP3K5 20 (7%) 258 0.525
(1.00)
0.282
(1.00)
0.226
(1.00)
0.637
(1.00)
0.00833
(1.00)
0.651
(1.00)
0.723
(1.00)
0.452
(1.00)
0.956
(1.00)
0.111
(1.00)
CASP8 9 (3%) 269 0.0138
(1.00)
0.433
(1.00)
0.449
(1.00)
0.73
(1.00)
0.0905
(1.00)
0.718
(1.00)
0.732
(1.00)
0.75
(1.00)
0.479
(1.00)
0.922
(1.00)
SNCAIP 49 (18%) 229 0.189
(1.00)
0.815
(1.00)
0.508
(1.00)
0.794
(1.00)
0.867
(1.00)
0.904
(1.00)
0.739
(1.00)
0.0693
(1.00)
0.63
(1.00)
0.0711
(1.00)
HLA-DRA 12 (4%) 266 0.201
(1.00)
0.659
(1.00)
0.0657
(1.00)
0.0939
(1.00)
0.497
(1.00)
0.343
(1.00)
0.555
(1.00)
0.0578
(1.00)
0.15
(1.00)
0.0592
(1.00)
ACTC1 15 (5%) 263 0.0842
(1.00)
0.35
(1.00)
0.467
(1.00)
0.57
(1.00)
0.474
(1.00)
0.135
(1.00)
0.327
(1.00)
0.657
(1.00)
0.356
(1.00)
0.15
(1.00)
ELOVL3 5 (2%) 273 0.665
(1.00)
1
(1.00)
0.523
(1.00)
0.442
(1.00)
0.277
(1.00)
0.567
(1.00)
0.665
(1.00)
0.867
(1.00)
1
(1.00)
0.312
(1.00)
THSD7B 89 (32%) 189 0.283
(1.00)
0.341
(1.00)
0.496
(1.00)
0.595
(1.00)
0.365
(1.00)
0.127
(1.00)
0.03
(1.00)
0.688
(1.00)
0.24
(1.00)
0.465
(1.00)
SLC27A5 9 (3%) 269 0.902
(1.00)
0.481
(1.00)
0.439
(1.00)
0.692
(1.00)
0.915
(1.00)
1
(1.00)
0.132
(1.00)
0.767
(1.00)
0.199
(1.00)
0.391
(1.00)
PDE4DIP 44 (16%) 234 0.393
(1.00)
0.0786
(1.00)
0.137
(1.00)
0.362
(1.00)
0.457
(1.00)
0.576
(1.00)
0.532
(1.00)
0.596
(1.00)
0.481
(1.00)
0.524
(1.00)
KANK3 8 (3%) 270 0.762
(1.00)
0.135
(1.00)
0.483
(1.00)
0.761
(1.00)
0.0402
(1.00)
0.526
(1.00)
0.879
(1.00)
0.766
(1.00)
0.822
(1.00)
0.746
(1.00)
RUNX1T1 34 (12%) 244 0.261
(1.00)
0.0278
(1.00)
0.705
(1.00)
0.385
(1.00)
0.872
(1.00)
0.217
(1.00)
0.486
(1.00)
0.662
(1.00)
0.738
(1.00)
0.292
(1.00)
WDR12 11 (4%) 267 0.68
(1.00)
0.537
(1.00)
0.562
(1.00)
0.37
(1.00)
0.638
(1.00)
0.681
(1.00)
1
(1.00)
0.834
(1.00)
0.802
(1.00)
0.241
(1.00)
POTEG 31 (11%) 247 0.13
(1.00)
0.0106
(1.00)
0.337
(1.00)
0.551
(1.00)
0.699
(1.00)
0.17
(1.00)
0.202
(1.00)
0.436
(1.00)
0.0815
(1.00)
0.28
(1.00)
ITPR2 16 (6%) 262 0.507
(1.00)
0.469
(1.00)
1
(1.00)
0.793
(1.00)
0.468
(1.00)
0.938
(1.00)
0.654
(1.00)
0.651
(1.00)
0.798
(1.00)
0.58
(1.00)
CRNKL1 13 (5%) 265 0.612
(1.00)
0.106
(1.00)
0.543
(1.00)
0.418
(1.00)
0.938
(1.00)
0.613
(1.00)
0.196
(1.00)
0.533
(1.00)
0.0302
(1.00)
0.474
(1.00)
DSP 60 (22%) 218 0.984
(1.00)
0.287
(1.00)
0.158
(1.00)
0.923
(1.00)
0.304
(1.00)
0.456
(1.00)
0.516
(1.00)
0.927
(1.00)
0.64
(1.00)
0.0607
(1.00)
CAGE1 11 (4%) 267 1
(1.00)
0.864
(1.00)
0.817
(1.00)
0.0593
(1.00)
0.861
(1.00)
0.832
(1.00)
0.503
(1.00)
0.722
(1.00)
0.927
(1.00)
0.908
(1.00)
DDX43 11 (4%) 267 0.302
(1.00)
0.802
(1.00)
0.731
(1.00)
1
(1.00)
0.21
(1.00)
0.754
(1.00)
1
(1.00)
1
(1.00)
0.594
(1.00)
0.782
(1.00)
CYP3A7 25 (9%) 253 0.826
(1.00)
0.219
(1.00)
0.528
(1.00)
0.897
(1.00)
0.127
(1.00)
0.466
(1.00)
0.382
(1.00)
0.482
(1.00)
0.439
(1.00)
0.402
(1.00)
VGLL1 6 (2%) 272 0.483
(1.00)
0.666
(1.00)
1
(1.00)
0.757
(1.00)
0.592
(1.00)
0.727
(1.00)
0.211
(1.00)
0.557
(1.00)
0.164
(1.00)
0.502
(1.00)
GML 10 (4%) 268 0.0251
(1.00)
0.433
(1.00)
0.941
(1.00)
0.219
(1.00)
0.851
(1.00)
0.815
(1.00)
0.458
(1.00)
0.697
(1.00)
0.0808
(1.00)
0.223
(1.00)
GZMA 11 (4%) 267 0.653
(1.00)
0.316
(1.00)
0.727
(1.00)
0.766
(1.00)
0.926
(1.00)
0.832
(1.00)
0.417
(1.00)
0.855
(1.00)
0.684
(1.00)
0.28
(1.00)
NPTX1 8 (3%) 270 0.959
(1.00)
0.429
(1.00)
0.366
(1.00)
0.689
(1.00)
0.0777
(1.00)
0.456
(1.00)
0.498
(1.00)
0.068
(1.00)
0.547
(1.00)
0.446
(1.00)
DACT1 13 (5%) 265 0.177
(1.00)
0.878
(1.00)
0.223
(1.00)
0.656
(1.00)
0.179
(1.00)
0.26
(1.00)
0.97
(1.00)
0.97
(1.00)
0.801
(1.00)
0.937
(1.00)
STK19 13 (5%) 265 0.734
(1.00)
0.0575
(1.00)
0.145
(1.00)
0.888
(1.00)
0.68
(1.00)
0.168
(1.00)
0.322
(1.00)
0.56
(1.00)
0.053
(1.00)
0.415
(1.00)
STK31 36 (13%) 242 0.301
(1.00)
0.0615
(1.00)
0.356
(1.00)
0.662
(1.00)
0.0016
(1.00)
0.00881
(1.00)
0.759
(1.00)
0.988
(1.00)
0.872
(1.00)
0.112
(1.00)
ROS1 57 (21%) 221 0.0201
(1.00)
0.0285
(1.00)
0.797
(1.00)
0.762
(1.00)
0.964
(1.00)
0.764
(1.00)
0.0561
(1.00)
0.0755
(1.00)
0.106
(1.00)
0.158
(1.00)
KCNB2 59 (21%) 219 0.0763
(1.00)
0.0424
(1.00)
0.177
(1.00)
0.513
(1.00)
0.338
(1.00)
0.421
(1.00)
0.583
(1.00)
0.593
(1.00)
0.472
(1.00)
0.356
(1.00)
ART3 12 (4%) 266 0.274
(1.00)
0.394
(1.00)
0.852
(1.00)
0.258
(1.00)
0.574
(1.00)
0.918
(1.00)
0.809
(1.00)
0.833
(1.00)
0.862
(1.00)
0.831
(1.00)
CLDN4 11 (4%) 267 0.685
(1.00)
0.536
(1.00)
0.617
(1.00)
0.664
(1.00)
0.801
(1.00)
0.834
(1.00)
0.604
(1.00)
0.353
(1.00)
0.563
(1.00)
0.268
(1.00)
RAG2 18 (6%) 260 0.54
(1.00)
0.527
(1.00)
0.21
(1.00)
0.378
(1.00)
0.119
(1.00)
0.334
(1.00)
0.543
(1.00)
0.896
(1.00)
0.343
(1.00)
0.515
(1.00)
'NRAS MUTATION STATUS' versus 'CN_CNMF'

P value = 0.00161 (Fisher's exact test), Q value = 1

Table S1.  Gene #1: 'NRAS MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
NRAS MUTATED 38 14 7 27
NRAS WILD-TYPE 44 37 40 71

Figure S1.  Get High-res Image Gene #1: 'NRAS MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

'NRAS MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0146 (Fisher's exact test), Q value = 1

Table S2.  Gene #1: 'NRAS MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
NRAS MUTATED 41 23 22
NRAS WILD-TYPE 60 82 50

Figure S2.  Get High-res Image Gene #1: 'NRAS MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'NRAS MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.425 (Fisher's exact test), Q value = 1

Table S3.  Gene #1: 'NRAS MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
NRAS MUTATED 17 19 7 8
NRAS WILD-TYPE 29 39 19 30
'NRAS MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.237 (Fisher's exact test), Q value = 1

Table S4.  Gene #1: 'NRAS MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
NRAS MUTATED 11 20 10 10
NRAS WILD-TYPE 16 38 24 39
'NRAS MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.932 (Fisher's exact test), Q value = 1

Table S5.  Gene #1: 'NRAS MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
NRAS MUTATED 29 24 33
NRAS WILD-TYPE 64 58 70
'NRAS MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.157 (Fisher's exact test), Q value = 1

Table S6.  Gene #1: 'NRAS MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
NRAS MUTATED 25 50 11
NRAS WILD-TYPE 38 117 37
'NRAS MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.875 (Fisher's exact test), Q value = 1

Table S7.  Gene #1: 'NRAS MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
NRAS MUTATED 20 28 21 10 3
NRAS WILD-TYPE 37 60 52 29 9
'NRAS MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.336 (Fisher's exact test), Q value = 1

Table S8.  Gene #1: 'NRAS MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
NRAS MUTATED 18 21 9 34
NRAS WILD-TYPE 55 50 25 57
'NRAS MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.595 (Fisher's exact test), Q value = 1

Table S9.  Gene #1: 'NRAS MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
NRAS MUTATED 31 28 23
NRAS WILD-TYPE 59 68 60
'NRAS MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.179 (Fisher's exact test), Q value = 1

Table S10.  Gene #1: 'NRAS MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
NRAS MUTATED 41 19 13 9
NRAS WILD-TYPE 73 60 40 14
'TP53 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.864 (Fisher's exact test), Q value = 1

Table S11.  Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
TP53 MUTATED 12 8 8 19
TP53 WILD-TYPE 70 43 39 79
'TP53 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0111 (Fisher's exact test), Q value = 1

Table S12.  Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
TP53 MUTATED 24 18 5
TP53 WILD-TYPE 77 87 67

Figure S3.  Get High-res Image Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'TP53 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.25 (Fisher's exact test), Q value = 1

Table S13.  Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
TP53 MUTATED 5 8 3 10
TP53 WILD-TYPE 41 50 23 28
'TP53 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.36 (Fisher's exact test), Q value = 1

Table S14.  Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
TP53 MUTATED 4 13 4 5
TP53 WILD-TYPE 23 45 30 44
'TP53 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.188 (Fisher's exact test), Q value = 1

Table S15.  Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
TP53 MUTATED 12 19 16
TP53 WILD-TYPE 81 63 87
'TP53 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.327 (Fisher's exact test), Q value = 1

Table S16.  Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
TP53 MUTATED 8 33 6
TP53 WILD-TYPE 55 134 42
'TP53 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.447 (Fisher's exact test), Q value = 1

Table S17.  Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
TP53 MUTATED 12 15 10 5 0
TP53 WILD-TYPE 45 73 63 34 12
'TP53 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.604 (Fisher's exact test), Q value = 1

Table S18.  Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
TP53 MUTATED 11 9 4 18
TP53 WILD-TYPE 62 62 30 73
'TP53 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.706 (Fisher's exact test), Q value = 1

Table S19.  Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
TP53 MUTATED 16 15 11
TP53 WILD-TYPE 74 81 72
'TP53 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.308 (Fisher's exact test), Q value = 1

Table S20.  Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
TP53 MUTATED 23 9 6 4
TP53 WILD-TYPE 91 70 47 19
'CDKN2A MUTATION STATUS' versus 'CN_CNMF'

P value = 0.291 (Fisher's exact test), Q value = 1

Table S21.  Gene #3: 'CDKN2A MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
CDKN2A MUTATED 12 9 10 10
CDKN2A WILD-TYPE 70 42 37 88
'CDKN2A MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.07 (Fisher's exact test), Q value = 1

Table S22.  Gene #3: 'CDKN2A MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
CDKN2A MUTATED 21 14 6
CDKN2A WILD-TYPE 80 91 66
'CDKN2A MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.153 (Fisher's exact test), Q value = 1

Table S23.  Gene #3: 'CDKN2A MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
CDKN2A MUTATED 7 6 8 6
CDKN2A WILD-TYPE 39 52 18 32
'CDKN2A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.688 (Fisher's exact test), Q value = 1

Table S24.  Gene #3: 'CDKN2A MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
CDKN2A MUTATED 5 8 4 10
CDKN2A WILD-TYPE 22 50 30 39
'CDKN2A MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.889 (Fisher's exact test), Q value = 1

Table S25.  Gene #3: 'CDKN2A MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
CDKN2A MUTATED 15 11 15
CDKN2A WILD-TYPE 78 71 88
'CDKN2A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.427 (Fisher's exact test), Q value = 1

Table S26.  Gene #3: 'CDKN2A MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
CDKN2A MUTATED 9 22 10
CDKN2A WILD-TYPE 54 145 38
'CDKN2A MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.945 (Fisher's exact test), Q value = 1

Table S27.  Gene #3: 'CDKN2A MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
CDKN2A MUTATED 10 14 10 5 1
CDKN2A WILD-TYPE 47 74 63 34 11
'CDKN2A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0586 (Fisher's exact test), Q value = 1

Table S28.  Gene #3: 'CDKN2A MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
CDKN2A MUTATED 6 9 4 21
CDKN2A WILD-TYPE 67 62 30 70
'CDKN2A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.604 (Fisher's exact test), Q value = 1

Table S29.  Gene #3: 'CDKN2A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
CDKN2A MUTATED 16 12 12
CDKN2A WILD-TYPE 74 84 71
'CDKN2A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.804 (Fisher's exact test), Q value = 1

Table S30.  Gene #3: 'CDKN2A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
CDKN2A MUTATED 19 11 6 4
CDKN2A WILD-TYPE 95 68 47 19
'RPS27 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.689 (Fisher's exact test), Q value = 1

Table S31.  Gene #4: 'RPS27 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
RPS27 MUTATED 8 4 2 10
RPS27 WILD-TYPE 74 47 45 88
'RPS27 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.894 (Fisher's exact test), Q value = 1

Table S32.  Gene #4: 'RPS27 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
RPS27 MUTATED 9 8 7
RPS27 WILD-TYPE 92 97 65
'RPS27 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.71 (Fisher's exact test), Q value = 1

Table S33.  Gene #4: 'RPS27 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
RPS27 MUTATED 5 6 1 5
RPS27 WILD-TYPE 41 52 25 33
'RPS27 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.925 (Fisher's exact test), Q value = 1

Table S34.  Gene #4: 'RPS27 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
RPS27 MUTATED 3 6 4 4
RPS27 WILD-TYPE 24 52 30 45
'RPS27 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.694 (Fisher's exact test), Q value = 1

Table S35.  Gene #4: 'RPS27 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
RPS27 MUTATED 7 9 8
RPS27 WILD-TYPE 86 73 95
'RPS27 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.756 (Fisher's exact test), Q value = 1

Table S36.  Gene #4: 'RPS27 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
RPS27 MUTATED 6 13 5
RPS27 WILD-TYPE 57 154 43
'RPS27 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.793 (Fisher's exact test), Q value = 1

Table S37.  Gene #4: 'RPS27 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
RPS27 MUTATED 6 9 4 3 1
RPS27 WILD-TYPE 51 79 69 36 11
'RPS27 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.989 (Fisher's exact test), Q value = 1

Table S38.  Gene #4: 'RPS27 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
RPS27 MUTATED 7 6 3 7
RPS27 WILD-TYPE 66 65 31 84
'RPS27 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.628 (Fisher's exact test), Q value = 1

Table S39.  Gene #4: 'RPS27 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
RPS27 MUTATED 9 9 5
RPS27 WILD-TYPE 81 87 78
'RPS27 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.477 (Fisher's exact test), Q value = 1

Table S40.  Gene #4: 'RPS27 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
RPS27 MUTATED 12 8 2 1
RPS27 WILD-TYPE 102 71 51 22
'MRPS31 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.926 (Fisher's exact test), Q value = 1

Table S41.  Gene #5: 'MRPS31 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
MRPS31 MUTATED 7 3 3 6
MRPS31 WILD-TYPE 75 48 44 92
'MRPS31 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0266 (Fisher's exact test), Q value = 1

Table S42.  Gene #5: 'MRPS31 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
MRPS31 MUTATED 10 2 7
MRPS31 WILD-TYPE 91 103 65

Figure S4.  Get High-res Image Gene #5: 'MRPS31 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'MRPS31 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.964 (Fisher's exact test), Q value = 1

Table S43.  Gene #5: 'MRPS31 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
MRPS31 MUTATED 2 4 1 2
MRPS31 WILD-TYPE 44 54 25 36
'MRPS31 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.871 (Fisher's exact test), Q value = 1

Table S44.  Gene #5: 'MRPS31 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
MRPS31 MUTATED 2 3 1 3
MRPS31 WILD-TYPE 25 55 33 46
'MRPS31 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.155 (Fisher's exact test), Q value = 1

Table S45.  Gene #5: 'MRPS31 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
MRPS31 MUTATED 5 3 11
MRPS31 WILD-TYPE 88 79 92
'MRPS31 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.331 (Fisher's exact test), Q value = 1

Table S46.  Gene #5: 'MRPS31 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
MRPS31 MUTATED 7 10 2
MRPS31 WILD-TYPE 56 157 46
'MRPS31 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.408 (Fisher's exact test), Q value = 1

Table S47.  Gene #5: 'MRPS31 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
MRPS31 MUTATED 2 9 6 1 0
MRPS31 WILD-TYPE 55 79 67 38 12
'MRPS31 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.77 (Fisher's exact test), Q value = 1

Table S48.  Gene #5: 'MRPS31 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
MRPS31 MUTATED 5 4 1 8
MRPS31 WILD-TYPE 68 67 33 83
'MRPS31 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.17 (Fisher's exact test), Q value = 1

Table S49.  Gene #5: 'MRPS31 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
MRPS31 MUTATED 3 10 5
MRPS31 WILD-TYPE 87 86 78
'MRPS31 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.386 (Fisher's exact test), Q value = 1

Table S50.  Gene #5: 'MRPS31 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
MRPS31 MUTATED 11 4 3 0
MRPS31 WILD-TYPE 103 75 50 23
'NF1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.417 (Fisher's exact test), Q value = 1

Table S51.  Gene #6: 'NF1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
NF1 MUTATED 15 4 6 13
NF1 WILD-TYPE 67 47 41 85
'NF1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.399 (Fisher's exact test), Q value = 1

Table S52.  Gene #6: 'NF1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
NF1 MUTATED 17 11 10
NF1 WILD-TYPE 84 94 62
'NF1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.546 (Fisher's exact test), Q value = 1

Table S53.  Gene #6: 'NF1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
NF1 MUTATED 6 9 3 9
NF1 WILD-TYPE 40 49 23 29
'NF1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.559 (Fisher's exact test), Q value = 1

Table S54.  Gene #6: 'NF1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
NF1 MUTATED 4 7 5 11
NF1 WILD-TYPE 23 51 29 38
'NF1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.361 (Fisher's exact test), Q value = 1

Table S55.  Gene #6: 'NF1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
NF1 MUTATED 9 12 17
NF1 WILD-TYPE 84 70 86
'NF1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0763 (Fisher's exact test), Q value = 1

Table S56.  Gene #6: 'NF1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
NF1 MUTATED 14 20 4
NF1 WILD-TYPE 49 147 44
'NF1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.113 (Fisher's exact test), Q value = 1

Table S57.  Gene #6: 'NF1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
NF1 MUTATED 13 13 6 6 0
NF1 WILD-TYPE 44 75 67 33 12
'NF1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.876 (Fisher's exact test), Q value = 1

Table S58.  Gene #6: 'NF1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
NF1 MUTATED 12 10 5 11
NF1 WILD-TYPE 61 61 29 80
'NF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.193 (Fisher's exact test), Q value = 1

Table S59.  Gene #6: 'NF1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
NF1 MUTATED 15 16 7
NF1 WILD-TYPE 75 80 76
'NF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.629 (Fisher's exact test), Q value = 1

Table S60.  Gene #6: 'NF1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
NF1 MUTATED 20 9 6 3
NF1 WILD-TYPE 94 70 47 20
'RAC1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0148 (Fisher's exact test), Q value = 1

Table S61.  Gene #7: 'RAC1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
RAC1 MUTATED 10 1 0 9
RAC1 WILD-TYPE 72 50 47 89

Figure S5.  Get High-res Image Gene #7: 'RAC1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

'RAC1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.587 (Fisher's exact test), Q value = 1

Table S62.  Gene #7: 'RAC1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
RAC1 MUTATED 6 10 4
RAC1 WILD-TYPE 95 95 68
'RAC1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.597 (Fisher's exact test), Q value = 1

Table S63.  Gene #7: 'RAC1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
RAC1 MUTATED 5 3 1 4
RAC1 WILD-TYPE 41 55 25 34
'RAC1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.431 (Fisher's exact test), Q value = 1

Table S64.  Gene #7: 'RAC1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
RAC1 MUTATED 1 7 3 2
RAC1 WILD-TYPE 26 51 31 47
'RAC1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.541 (Fisher's exact test), Q value = 1

Table S65.  Gene #7: 'RAC1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
RAC1 MUTATED 5 8 7
RAC1 WILD-TYPE 88 74 96
'RAC1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.65 (Fisher's exact test), Q value = 1

Table S66.  Gene #7: 'RAC1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
RAC1 MUTATED 4 14 2
RAC1 WILD-TYPE 59 153 46
'RAC1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.219 (Fisher's exact test), Q value = 1

Table S67.  Gene #7: 'RAC1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
RAC1 MUTATED 7 5 3 5 0
RAC1 WILD-TYPE 50 83 70 34 12
'RAC1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.394 (Fisher's exact test), Q value = 1

Table S68.  Gene #7: 'RAC1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
RAC1 MUTATED 3 7 4 6
RAC1 WILD-TYPE 70 64 30 85
'RAC1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.101 (Fisher's exact test), Q value = 1

Table S69.  Gene #7: 'RAC1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
RAC1 MUTATED 11 6 3
RAC1 WILD-TYPE 79 90 80
'RAC1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.191 (Fisher's exact test), Q value = 1

Table S70.  Gene #7: 'RAC1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
RAC1 MUTATED 8 9 1 2
RAC1 WILD-TYPE 106 70 52 21
'ARID2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.944 (Fisher's exact test), Q value = 1

Table S71.  Gene #8: 'ARID2 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
ARID2 MUTATED 11 5 6 13
ARID2 WILD-TYPE 71 46 41 85
'ARID2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.153 (Fisher's exact test), Q value = 1

Table S72.  Gene #8: 'ARID2 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
ARID2 MUTATED 18 11 6
ARID2 WILD-TYPE 83 94 66
'ARID2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.67 (Fisher's exact test), Q value = 1

Table S73.  Gene #8: 'ARID2 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
ARID2 MUTATED 8 10 2 5
ARID2 WILD-TYPE 38 48 24 33
'ARID2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.784 (Fisher's exact test), Q value = 1

Table S74.  Gene #8: 'ARID2 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
ARID2 MUTATED 4 11 4 6
ARID2 WILD-TYPE 23 47 30 43
'ARID2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.807 (Fisher's exact test), Q value = 1

Table S75.  Gene #8: 'ARID2 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
ARID2 MUTATED 11 12 12
ARID2 WILD-TYPE 82 70 91
'ARID2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.653 (Fisher's exact test), Q value = 1

Table S76.  Gene #8: 'ARID2 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
ARID2 MUTATED 9 22 4
ARID2 WILD-TYPE 54 145 44
'ARID2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.254 (Fisher's exact test), Q value = 1

Table S77.  Gene #8: 'ARID2 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
ARID2 MUTATED 4 11 10 8 0
ARID2 WILD-TYPE 53 77 63 31 12
'ARID2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.16 (Fisher's exact test), Q value = 1

Table S78.  Gene #8: 'ARID2 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
ARID2 MUTATED 7 6 8 12
ARID2 WILD-TYPE 66 65 26 79
'ARID2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.92 (Fisher's exact test), Q value = 1

Table S79.  Gene #8: 'ARID2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
ARID2 MUTATED 10 12 11
ARID2 WILD-TYPE 80 84 72
'ARID2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.539 (Fisher's exact test), Q value = 1

Table S80.  Gene #8: 'ARID2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
ARID2 MUTATED 13 9 6 5
ARID2 WILD-TYPE 101 70 47 18
'C15ORF23 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.854 (Fisher's exact test), Q value = 1

Table S81.  Gene #9: 'C15ORF23 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
C15ORF23 MUTATED 4 4 3 8
C15ORF23 WILD-TYPE 78 47 44 90
'C15ORF23 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0597 (Fisher's exact test), Q value = 1

Table S82.  Gene #9: 'C15ORF23 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
C15ORF23 MUTATED 10 8 1
C15ORF23 WILD-TYPE 91 97 71
'C15ORF23 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.716 (Fisher's exact test), Q value = 1

Table S83.  Gene #9: 'C15ORF23 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
C15ORF23 MUTATED 4 3 2 1
C15ORF23 WILD-TYPE 42 55 24 37
'C15ORF23 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.771 (Fisher's exact test), Q value = 1

Table S84.  Gene #9: 'C15ORF23 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
C15ORF23 MUTATED 2 3 1 4
C15ORF23 WILD-TYPE 25 55 33 45
'C15ORF23 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.795 (Fisher's exact test), Q value = 1

Table S85.  Gene #9: 'C15ORF23 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
C15ORF23 MUTATED 6 7 6
C15ORF23 WILD-TYPE 87 75 97
'C15ORF23 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.231 (Fisher's exact test), Q value = 1

Table S86.  Gene #9: 'C15ORF23 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
C15ORF23 MUTATED 3 15 1
C15ORF23 WILD-TYPE 60 152 47
'C15ORF23 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.95 (Fisher's exact test), Q value = 1

Table S87.  Gene #9: 'C15ORF23 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
C15ORF23 MUTATED 3 5 5 2 1
C15ORF23 WILD-TYPE 54 83 68 37 11
'C15ORF23 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.818 (Fisher's exact test), Q value = 1

Table S88.  Gene #9: 'C15ORF23 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
C15ORF23 MUTATED 6 4 1 5
C15ORF23 WILD-TYPE 67 67 33 86
'C15ORF23 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.809 (Fisher's exact test), Q value = 1

Table S89.  Gene #9: 'C15ORF23 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
C15ORF23 MUTATED 5 7 4
C15ORF23 WILD-TYPE 85 89 79
'C15ORF23 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.958 (Fisher's exact test), Q value = 1

Table S90.  Gene #9: 'C15ORF23 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
C15ORF23 MUTATED 7 4 4 1
C15ORF23 WILD-TYPE 107 75 49 22
'PTEN MUTATION STATUS' versus 'CN_CNMF'

P value = 0.462 (Fisher's exact test), Q value = 1

Table S91.  Gene #10: 'PTEN MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
PTEN MUTATED 8 6 4 5
PTEN WILD-TYPE 74 45 43 93
'PTEN MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0742 (Fisher's exact test), Q value = 1

Table S92.  Gene #10: 'PTEN MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
PTEN MUTATED 10 4 9
PTEN WILD-TYPE 91 101 63
'PTEN MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0187 (Fisher's exact test), Q value = 1

Table S93.  Gene #10: 'PTEN MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
PTEN MUTATED 5 8 0 0
PTEN WILD-TYPE 41 50 26 38

Figure S6.  Get High-res Image Gene #10: 'PTEN MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

'PTEN MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0835 (Fisher's exact test), Q value = 1

Table S94.  Gene #10: 'PTEN MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
PTEN MUTATED 1 8 0 4
PTEN WILD-TYPE 26 50 34 45
'PTEN MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.313 (Fisher's exact test), Q value = 1

Table S95.  Gene #10: 'PTEN MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
PTEN MUTATED 11 6 6
PTEN WILD-TYPE 82 76 97
'PTEN MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00344 (Fisher's exact test), Q value = 1

Table S96.  Gene #10: 'PTEN MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
PTEN MUTATED 7 7 9
PTEN WILD-TYPE 56 160 39

Figure S7.  Get High-res Image Gene #10: 'PTEN MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'PTEN MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.178 (Fisher's exact test), Q value = 1

Table S97.  Gene #10: 'PTEN MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
PTEN MUTATED 2 6 7 6 2
PTEN WILD-TYPE 55 82 66 33 10
'PTEN MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0455 (Fisher's exact test), Q value = 1

Table S98.  Gene #10: 'PTEN MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
PTEN MUTATED 2 5 6 10
PTEN WILD-TYPE 71 66 28 81

Figure S8.  Get High-res Image Gene #10: 'PTEN MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'PTEN MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.605 (Fisher's exact test), Q value = 1

Table S99.  Gene #10: 'PTEN MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
PTEN MUTATED 9 6 8
PTEN WILD-TYPE 81 90 75
'PTEN MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.202 (Fisher's exact test), Q value = 1

Table S100.  Gene #10: 'PTEN MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
PTEN MUTATED 6 8 5 4
PTEN WILD-TYPE 108 71 48 19
'NOTCH2NL MUTATION STATUS' versus 'CN_CNMF'

P value = 0.591 (Fisher's exact test), Q value = 1

Table S101.  Gene #11: 'NOTCH2NL MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
NOTCH2NL MUTATED 6 1 3 5
NOTCH2NL WILD-TYPE 76 50 44 93
'NOTCH2NL MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.596 (Fisher's exact test), Q value = 1

Table S102.  Gene #11: 'NOTCH2NL MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
NOTCH2NL MUTATED 7 4 4
NOTCH2NL WILD-TYPE 94 101 68
'NOTCH2NL MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.608 (Fisher's exact test), Q value = 1

Table S103.  Gene #11: 'NOTCH2NL MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
NOTCH2NL MUTATED 3 3 0 3
NOTCH2NL WILD-TYPE 43 55 26 35
'NOTCH2NL MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.139 (Fisher's exact test), Q value = 1

Table S104.  Gene #11: 'NOTCH2NL MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
NOTCH2NL MUTATED 4 3 1 1
NOTCH2NL WILD-TYPE 23 55 33 48
'NOTCH2NL MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0192 (Fisher's exact test), Q value = 1

Table S105.  Gene #11: 'NOTCH2NL MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
NOTCH2NL MUTATED 10 1 4
NOTCH2NL WILD-TYPE 83 81 99

Figure S9.  Get High-res Image Gene #11: 'NOTCH2NL MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'NOTCH2NL MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.251 (Fisher's exact test), Q value = 1

Table S106.  Gene #11: 'NOTCH2NL MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
NOTCH2NL MUTATED 3 7 5
NOTCH2NL WILD-TYPE 60 160 43
'NOTCH2NL MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.343 (Fisher's exact test), Q value = 1

Table S107.  Gene #11: 'NOTCH2NL MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
NOTCH2NL MUTATED 3 3 4 3 2
NOTCH2NL WILD-TYPE 54 85 69 36 10
'NOTCH2NL MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.341 (Fisher's exact test), Q value = 1

Table S108.  Gene #11: 'NOTCH2NL MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
NOTCH2NL MUTATED 2 6 3 4
NOTCH2NL WILD-TYPE 71 65 31 87
'NOTCH2NL MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0663 (Fisher's exact test), Q value = 1

Table S109.  Gene #11: 'NOTCH2NL MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
NOTCH2NL MUTATED 9 2 4
NOTCH2NL WILD-TYPE 81 94 79
'NOTCH2NL MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.304 (Fisher's exact test), Q value = 1

Table S110.  Gene #11: 'NOTCH2NL MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
NOTCH2NL MUTATED 4 7 2 2
NOTCH2NL WILD-TYPE 110 72 51 21
'MAP2K1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0181 (Fisher's exact test), Q value = 1

Table S111.  Gene #12: 'MAP2K1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
MAP2K1 MUTATED 1 0 4 8
MAP2K1 WILD-TYPE 81 51 43 90

Figure S10.  Get High-res Image Gene #12: 'MAP2K1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

'MAP2K1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.00041 (Fisher's exact test), Q value = 0.6

Table S112.  Gene #12: 'MAP2K1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
MAP2K1 MUTATED 0 11 2
MAP2K1 WILD-TYPE 101 94 70

Figure S11.  Get High-res Image Gene #12: 'MAP2K1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'MAP2K1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.365 (Fisher's exact test), Q value = 1

Table S113.  Gene #12: 'MAP2K1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
MAP2K1 MUTATED 5 2 1 1
MAP2K1 WILD-TYPE 41 56 25 37
'MAP2K1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0218 (Fisher's exact test), Q value = 1

Table S114.  Gene #12: 'MAP2K1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
MAP2K1 MUTATED 5 1 1 2
MAP2K1 WILD-TYPE 22 57 33 47

Figure S12.  Get High-res Image Gene #12: 'MAP2K1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

'MAP2K1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.243 (Fisher's exact test), Q value = 1

Table S115.  Gene #12: 'MAP2K1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
MAP2K1 MUTATED 6 5 2
MAP2K1 WILD-TYPE 87 77 101
'MAP2K1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0959 (Fisher's exact test), Q value = 1

Table S116.  Gene #12: 'MAP2K1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
MAP2K1 MUTATED 1 7 5
MAP2K1 WILD-TYPE 62 160 43
'MAP2K1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0195 (Fisher's exact test), Q value = 1

Table S117.  Gene #12: 'MAP2K1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
MAP2K1 MUTATED 0 2 8 2 1
MAP2K1 WILD-TYPE 57 86 65 37 11

Figure S13.  Get High-res Image Gene #12: 'MAP2K1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'MAP2K1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.658 (Fisher's exact test), Q value = 1

Table S118.  Gene #12: 'MAP2K1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
MAP2K1 MUTATED 3 5 2 3
MAP2K1 WILD-TYPE 70 66 32 88
'MAP2K1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.187 (Fisher's exact test), Q value = 1

Table S119.  Gene #12: 'MAP2K1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
MAP2K1 MUTATED 2 4 7
MAP2K1 WILD-TYPE 88 92 76
'MAP2K1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.347 (Fisher's exact test), Q value = 1

Table S120.  Gene #12: 'MAP2K1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
MAP2K1 MUTATED 3 5 3 2
MAP2K1 WILD-TYPE 111 74 50 21
'PPP6C MUTATION STATUS' versus 'CN_CNMF'

P value = 0.641 (Fisher's exact test), Q value = 1

Table S121.  Gene #13: 'PPP6C MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
PPP6C MUTATED 6 2 5 7
PPP6C WILD-TYPE 76 49 42 91
'PPP6C MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.451 (Fisher's exact test), Q value = 1

Table S122.  Gene #13: 'PPP6C MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
PPP6C MUTATED 10 6 4
PPP6C WILD-TYPE 91 99 68
'PPP6C MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.487 (Fisher's exact test), Q value = 1

Table S123.  Gene #13: 'PPP6C MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
PPP6C MUTATED 5 2 2 2
PPP6C WILD-TYPE 41 56 24 36
'PPP6C MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.301 (Fisher's exact test), Q value = 1

Table S124.  Gene #13: 'PPP6C MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
PPP6C MUTATED 4 2 2 3
PPP6C WILD-TYPE 23 56 32 46
'PPP6C MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.739 (Fisher's exact test), Q value = 1

Table S125.  Gene #13: 'PPP6C MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
PPP6C MUTATED 8 6 6
PPP6C WILD-TYPE 85 76 97
'PPP6C MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.252 (Fisher's exact test), Q value = 1

Table S126.  Gene #13: 'PPP6C MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
PPP6C MUTATED 3 11 6
PPP6C WILD-TYPE 60 156 42
'PPP6C MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.128 (Fisher's exact test), Q value = 1

Table S127.  Gene #13: 'PPP6C MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
PPP6C MUTATED 2 6 4 6 2
PPP6C WILD-TYPE 55 82 69 33 10
'PPP6C MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0668 (Fisher's exact test), Q value = 1

Table S128.  Gene #13: 'PPP6C MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
PPP6C MUTATED 2 5 6 7
PPP6C WILD-TYPE 71 66 28 84
'PPP6C MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.263 (Fisher's exact test), Q value = 1

Table S129.  Gene #13: 'PPP6C MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
PPP6C MUTATED 9 4 7
PPP6C WILD-TYPE 81 92 76
'PPP6C MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.34 (Fisher's exact test), Q value = 1

Table S130.  Gene #13: 'PPP6C MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
PPP6C MUTATED 7 8 2 3
PPP6C WILD-TYPE 107 71 51 20
'IDH1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0839 (Fisher's exact test), Q value = 1

Table S131.  Gene #14: 'IDH1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
IDH1 MUTATED 4 6 0 6
IDH1 WILD-TYPE 78 45 47 92
'IDH1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.226 (Fisher's exact test), Q value = 1

Table S132.  Gene #14: 'IDH1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
IDH1 MUTATED 9 5 2
IDH1 WILD-TYPE 92 100 70
'IDH1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.631 (Fisher's exact test), Q value = 1

Table S133.  Gene #14: 'IDH1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
IDH1 MUTATED 1 4 1 3
IDH1 WILD-TYPE 45 54 25 35
'IDH1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.167 (Fisher's exact test), Q value = 1

Table S134.  Gene #14: 'IDH1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
IDH1 MUTATED 0 6 2 1
IDH1 WILD-TYPE 27 52 32 48
'IDH1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.144 (Fisher's exact test), Q value = 1

Table S135.  Gene #14: 'IDH1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
IDH1 MUTATED 2 7 7
IDH1 WILD-TYPE 91 75 96
'IDH1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.938 (Fisher's exact test), Q value = 1

Table S136.  Gene #14: 'IDH1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
IDH1 MUTATED 4 10 2
IDH1 WILD-TYPE 59 157 46
'IDH1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.338 (Fisher's exact test), Q value = 1

Table S137.  Gene #14: 'IDH1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
IDH1 MUTATED 1 8 3 3 0
IDH1 WILD-TYPE 56 80 70 36 12
'IDH1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.562 (Fisher's exact test), Q value = 1

Table S138.  Gene #14: 'IDH1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
IDH1 MUTATED 5 2 3 5
IDH1 WILD-TYPE 68 69 31 86
'IDH1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.156 (Fisher's exact test), Q value = 1

Table S139.  Gene #14: 'IDH1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
IDH1 MUTATED 3 9 3
IDH1 WILD-TYPE 87 87 80
'IDH1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0961 (Fisher's exact test), Q value = 1

Table S140.  Gene #14: 'IDH1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
IDH1 MUTATED 9 2 1 3
IDH1 WILD-TYPE 105 77 52 20
'PDE1A MUTATION STATUS' versus 'CN_CNMF'

P value = 0.688 (Fisher's exact test), Q value = 1

Table S141.  Gene #15: 'PDE1A MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
PDE1A MUTATED 13 9 5 12
PDE1A WILD-TYPE 69 42 42 86
'PDE1A MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.58 (Fisher's exact test), Q value = 1

Table S142.  Gene #15: 'PDE1A MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
PDE1A MUTATED 17 14 8
PDE1A WILD-TYPE 84 91 64
'PDE1A MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.715 (Fisher's exact test), Q value = 1

Table S143.  Gene #15: 'PDE1A MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
PDE1A MUTATED 7 8 6 7
PDE1A WILD-TYPE 39 50 20 31
'PDE1A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.63 (Fisher's exact test), Q value = 1

Table S144.  Gene #15: 'PDE1A MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
PDE1A MUTATED 6 7 6 9
PDE1A WILD-TYPE 21 51 28 40
'PDE1A MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.023 (Fisher's exact test), Q value = 1

Table S145.  Gene #15: 'PDE1A MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
PDE1A MUTATED 6 16 17
PDE1A WILD-TYPE 87 66 86

Figure S14.  Get High-res Image Gene #15: 'PDE1A MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'PDE1A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0805 (Fisher's exact test), Q value = 1

Table S146.  Gene #15: 'PDE1A MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
PDE1A MUTATED 10 27 2
PDE1A WILD-TYPE 53 140 46
'PDE1A MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.37 (Fisher's exact test), Q value = 1

Table S147.  Gene #15: 'PDE1A MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
PDE1A MUTATED 5 16 11 6 0
PDE1A WILD-TYPE 52 72 62 33 12
'PDE1A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.146 (Fisher's exact test), Q value = 1

Table S148.  Gene #15: 'PDE1A MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
PDE1A MUTATED 9 6 4 19
PDE1A WILD-TYPE 64 65 30 72
'PDE1A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.199 (Fisher's exact test), Q value = 1

Table S149.  Gene #15: 'PDE1A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
PDE1A MUTATED 8 17 13
PDE1A WILD-TYPE 82 79 70
'PDE1A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.212 (Fisher's exact test), Q value = 1

Table S150.  Gene #15: 'PDE1A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
PDE1A MUTATED 20 6 9 3
PDE1A WILD-TYPE 94 73 44 20
'HMGCR MUTATION STATUS' versus 'CN_CNMF'

P value = 0.879 (Fisher's exact test), Q value = 1

Table S151.  Gene #16: 'HMGCR MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
HMGCR MUTATED 3 1 2 5
HMGCR WILD-TYPE 79 50 45 93
'HMGCR MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.316 (Fisher's exact test), Q value = 1

Table S152.  Gene #16: 'HMGCR MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
HMGCR MUTATED 6 4 1
HMGCR WILD-TYPE 95 101 71
'HMGCR MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.339 (Fisher's exact test), Q value = 1

Table S153.  Gene #16: 'HMGCR MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
HMGCR MUTATED 1 2 1 4
HMGCR WILD-TYPE 45 56 25 34
'HMGCR MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.644 (Fisher's exact test), Q value = 1

Table S154.  Gene #16: 'HMGCR MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
HMGCR MUTATED 0 4 2 2
HMGCR WILD-TYPE 27 54 32 47
'HMGCR MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.547 (Fisher's exact test), Q value = 1

Table S155.  Gene #16: 'HMGCR MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
HMGCR MUTATED 3 5 3
HMGCR WILD-TYPE 90 77 100
'HMGCR MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.306 (Fisher's exact test), Q value = 1

Table S156.  Gene #16: 'HMGCR MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
HMGCR MUTATED 2 9 0
HMGCR WILD-TYPE 61 158 48
'HMGCR MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.594 (Fisher's exact test), Q value = 1

Table S157.  Gene #16: 'HMGCR MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
HMGCR MUTATED 3 5 1 2 0
HMGCR WILD-TYPE 54 83 72 37 12
'HMGCR MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.195 (Fisher's exact test), Q value = 1

Table S158.  Gene #16: 'HMGCR MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
HMGCR MUTATED 1 5 0 5
HMGCR WILD-TYPE 72 66 34 86
'HMGCR MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.227 (Fisher's exact test), Q value = 1

Table S159.  Gene #16: 'HMGCR MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
HMGCR MUTATED 4 6 1
HMGCR WILD-TYPE 86 90 82
'HMGCR MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.606 (Fisher's exact test), Q value = 1

Table S160.  Gene #16: 'HMGCR MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
HMGCR MUTATED 5 5 1 0
HMGCR WILD-TYPE 109 74 52 23
'PHGDH MUTATION STATUS' versus 'CN_CNMF'

P value = 0.629 (Fisher's exact test), Q value = 1

Table S161.  Gene #17: 'PHGDH MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
PHGDH MUTATED 4 1 1 6
PHGDH WILD-TYPE 78 50 46 92
'PHGDH MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.394 (Fisher's exact test), Q value = 1

Table S162.  Gene #17: 'PHGDH MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
PHGDH MUTATED 5 6 1
PHGDH WILD-TYPE 96 99 71
'PHGDH MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.496 (Fisher's exact test), Q value = 1

Table S163.  Gene #17: 'PHGDH MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
PHGDH MUTATED 3 1 2 2
PHGDH WILD-TYPE 43 57 24 36
'PHGDH MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.275 (Fisher's exact test), Q value = 1

Table S164.  Gene #17: 'PHGDH MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
PHGDH MUTATED 2 2 0 4
PHGDH WILD-TYPE 25 56 34 45
'PHGDH MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.936 (Fisher's exact test), Q value = 1

Table S165.  Gene #17: 'PHGDH MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
PHGDH MUTATED 4 4 4
PHGDH WILD-TYPE 89 78 99
'PHGDH MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.446 (Fisher's exact test), Q value = 1

Table S166.  Gene #17: 'PHGDH MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
PHGDH MUTATED 1 8 3
PHGDH WILD-TYPE 62 159 45
'PHGDH MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.485 (Fisher's exact test), Q value = 1

Table S167.  Gene #17: 'PHGDH MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
PHGDH MUTATED 2 2 5 3 0
PHGDH WILD-TYPE 55 86 68 36 12
'PHGDH MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.319 (Fisher's exact test), Q value = 1

Table S168.  Gene #17: 'PHGDH MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
PHGDH MUTATED 1 5 2 4
PHGDH WILD-TYPE 72 66 32 87
'PHGDH MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.661 (Fisher's exact test), Q value = 1

Table S169.  Gene #17: 'PHGDH MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
PHGDH MUTATED 4 3 5
PHGDH WILD-TYPE 86 93 78
'PHGDH MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.359 (Fisher's exact test), Q value = 1

Table S170.  Gene #17: 'PHGDH MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
PHGDH MUTATED 4 5 1 2
PHGDH WILD-TYPE 110 74 52 21
'SLC38A4 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.725 (Fisher's exact test), Q value = 1

Table S171.  Gene #18: 'SLC38A4 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
SLC38A4 MUTATED 9 8 4 13
SLC38A4 WILD-TYPE 73 43 43 85
'SLC38A4 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.252 (Fisher's exact test), Q value = 1

Table S172.  Gene #18: 'SLC38A4 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
SLC38A4 MUTATED 13 16 5
SLC38A4 WILD-TYPE 88 89 67
'SLC38A4 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.454 (Fisher's exact test), Q value = 1

Table S173.  Gene #18: 'SLC38A4 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
SLC38A4 MUTATED 7 7 4 2
SLC38A4 WILD-TYPE 39 51 22 36
'SLC38A4 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.833 (Fisher's exact test), Q value = 1

Table S174.  Gene #18: 'SLC38A4 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
SLC38A4 MUTATED 4 6 3 7
SLC38A4 WILD-TYPE 23 52 31 42
'SLC38A4 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.00962 (Fisher's exact test), Q value = 1

Table S175.  Gene #18: 'SLC38A4 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
SLC38A4 MUTATED 7 18 9
SLC38A4 WILD-TYPE 86 64 94

Figure S15.  Get High-res Image Gene #18: 'SLC38A4 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'SLC38A4 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.133 (Fisher's exact test), Q value = 1

Table S176.  Gene #18: 'SLC38A4 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
SLC38A4 MUTATED 5 26 3
SLC38A4 WILD-TYPE 58 141 45
'SLC38A4 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.882 (Fisher's exact test), Q value = 1

Table S177.  Gene #18: 'SLC38A4 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
SLC38A4 MUTATED 9 9 8 5 1
SLC38A4 WILD-TYPE 48 79 65 34 11
'SLC38A4 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.642 (Fisher's exact test), Q value = 1

Table S178.  Gene #18: 'SLC38A4 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
SLC38A4 MUTATED 11 9 4 8
SLC38A4 WILD-TYPE 62 62 30 83
'SLC38A4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 1 (Fisher's exact test), Q value = 1

Table S179.  Gene #18: 'SLC38A4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
SLC38A4 MUTATED 11 11 10
SLC38A4 WILD-TYPE 79 85 73
'SLC38A4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.794 (Fisher's exact test), Q value = 1

Table S180.  Gene #18: 'SLC38A4 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
SLC38A4 MUTATED 14 9 5 4
SLC38A4 WILD-TYPE 100 70 48 19
'CDK4 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.737 (Fisher's exact test), Q value = 1

Table S181.  Gene #19: 'CDK4 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
CDK4 MUTATED 3 1 0 3
CDK4 WILD-TYPE 79 50 47 95
'CDK4 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.441 (Fisher's exact test), Q value = 1

Table S182.  Gene #19: 'CDK4 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
CDK4 MUTATED 1 3 3
CDK4 WILD-TYPE 100 102 69
'CDK4 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0432 (Fisher's exact test), Q value = 1

Table S183.  Gene #19: 'CDK4 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
CDK4 MUTATED 2 0 2 0
CDK4 WILD-TYPE 44 58 24 38

Figure S16.  Get High-res Image Gene #19: 'CDK4 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

'CDK4 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.914 (Fisher's exact test), Q value = 1

Table S184.  Gene #19: 'CDK4 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
CDK4 MUTATED 1 1 1 1
CDK4 WILD-TYPE 26 57 33 48
'CDK4 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 1 (Fisher's exact test), Q value = 1

Table S185.  Gene #19: 'CDK4 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
CDK4 MUTATED 2 2 3
CDK4 WILD-TYPE 91 80 100
'CDK4 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.423 (Fisher's exact test), Q value = 1

Table S186.  Gene #19: 'CDK4 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
CDK4 MUTATED 3 3 1
CDK4 WILD-TYPE 60 164 47
'CDK4 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.821 (Fisher's exact test), Q value = 1

Table S187.  Gene #19: 'CDK4 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
CDK4 MUTATED 2 1 2 1 0
CDK4 WILD-TYPE 55 87 71 38 12
'CDK4 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.487 (Fisher's exact test), Q value = 1

Table S188.  Gene #19: 'CDK4 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
CDK4 MUTATED 1 3 1 1
CDK4 WILD-TYPE 72 68 33 90
'CDK4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.449 (Fisher's exact test), Q value = 1

Table S189.  Gene #19: 'CDK4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
CDK4 MUTATED 2 1 3
CDK4 WILD-TYPE 88 95 80
'CDK4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.341 (Fisher's exact test), Q value = 1

Table S190.  Gene #19: 'CDK4 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
CDK4 MUTATED 1 2 2 1
CDK4 WILD-TYPE 113 77 51 22
'FAM58A MUTATION STATUS' versus 'CN_CNMF'

P value = 0.81 (Fisher's exact test), Q value = 1

Table S191.  Gene #20: 'FAM58A MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
FAM58A MUTATED 2 0 1 2
FAM58A WILD-TYPE 80 51 46 96
'FAM58A MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.747 (Fisher's exact test), Q value = 1

Table S192.  Gene #20: 'FAM58A MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
FAM58A MUTATED 1 3 1
FAM58A WILD-TYPE 100 102 71
'FAM58A MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.909 (Fisher's exact test), Q value = 1

Table S193.  Gene #20: 'FAM58A MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
FAM58A MUTATED 1 1 1 1
FAM58A WILD-TYPE 45 57 25 37
'FAM58A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.834 (Fisher's exact test), Q value = 1

Table S194.  Gene #20: 'FAM58A MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
FAM58A MUTATED 0 1 1 2
FAM58A WILD-TYPE 27 57 33 47
'FAM58A MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.231 (Fisher's exact test), Q value = 1

Table S195.  Gene #20: 'FAM58A MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
FAM58A MUTATED 0 3 2
FAM58A WILD-TYPE 93 79 101
'FAM58A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.564 (Fisher's exact test), Q value = 1

Table S196.  Gene #20: 'FAM58A MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
FAM58A MUTATED 2 3 0
FAM58A WILD-TYPE 61 164 48
'FAM58A MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0546 (Fisher's exact test), Q value = 1

Table S197.  Gene #20: 'FAM58A MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
FAM58A MUTATED 4 1 0 0 0
FAM58A WILD-TYPE 53 87 73 39 12
'FAM58A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00477 (Fisher's exact test), Q value = 1

Table S198.  Gene #20: 'FAM58A MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
FAM58A MUTATED 5 0 0 0
FAM58A WILD-TYPE 68 71 34 91

Figure S17.  Get High-res Image Gene #20: 'FAM58A MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

'FAM58A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.132 (Fisher's exact test), Q value = 1

Table S199.  Gene #20: 'FAM58A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
FAM58A MUTATED 1 4 0
FAM58A WILD-TYPE 89 92 83
'FAM58A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.346 (Fisher's exact test), Q value = 1

Table S200.  Gene #20: 'FAM58A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
FAM58A MUTATED 4 0 1 0
FAM58A WILD-TYPE 110 79 52 23
'EMG1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.967 (Fisher's exact test), Q value = 1

Table S201.  Gene #21: 'EMG1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
EMG1 MUTATED 3 1 1 4
EMG1 WILD-TYPE 79 50 46 94
'EMG1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.915 (Fisher's exact test), Q value = 1

Table S202.  Gene #21: 'EMG1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
EMG1 MUTATED 4 3 2
EMG1 WILD-TYPE 97 102 70
'EMG1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.53 (Fisher's exact test), Q value = 1

Table S203.  Gene #21: 'EMG1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
EMG1 MUTATED 2 1 1 0
EMG1 WILD-TYPE 44 57 25 38
'EMG1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.271 (Fisher's exact test), Q value = 1

Table S204.  Gene #21: 'EMG1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
EMG1 MUTATED 1 1 2 0
EMG1 WILD-TYPE 26 57 32 49
'EMG1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.4 (Fisher's exact test), Q value = 1

Table S205.  Gene #21: 'EMG1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
EMG1 MUTATED 5 2 2
EMG1 WILD-TYPE 88 80 101
'EMG1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0205 (Fisher's exact test), Q value = 1

Table S206.  Gene #21: 'EMG1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
EMG1 MUTATED 3 2 4
EMG1 WILD-TYPE 60 165 44

Figure S18.  Get High-res Image Gene #21: 'EMG1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'EMG1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.836 (Fisher's exact test), Q value = 1

Table S207.  Gene #21: 'EMG1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
EMG1 MUTATED 2 2 4 1 0
EMG1 WILD-TYPE 55 86 69 38 12
'EMG1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.964 (Fisher's exact test), Q value = 1

Table S208.  Gene #21: 'EMG1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
EMG1 MUTATED 2 3 1 3
EMG1 WILD-TYPE 71 68 33 88
'EMG1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.583 (Fisher's exact test), Q value = 1

Table S209.  Gene #21: 'EMG1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
EMG1 MUTATED 3 2 4
EMG1 WILD-TYPE 87 94 79
'EMG1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.47 (Fisher's exact test), Q value = 1

Table S210.  Gene #21: 'EMG1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
EMG1 MUTATED 2 3 3 1
EMG1 WILD-TYPE 112 76 50 22
'RQCD1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0653 (Fisher's exact test), Q value = 1

Table S211.  Gene #22: 'RQCD1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
RQCD1 MUTATED 6 2 0 1
RQCD1 WILD-TYPE 76 49 47 97
'RQCD1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.221 (Fisher's exact test), Q value = 1

Table S212.  Gene #22: 'RQCD1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
RQCD1 MUTATED 5 1 3
RQCD1 WILD-TYPE 96 104 69
'RQCD1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0864 (Fisher's exact test), Q value = 1

Table S213.  Gene #22: 'RQCD1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
RQCD1 MUTATED 0 3 2 0
RQCD1 WILD-TYPE 46 55 24 38
'RQCD1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.929 (Fisher's exact test), Q value = 1

Table S214.  Gene #22: 'RQCD1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
RQCD1 MUTATED 0 2 1 2
RQCD1 WILD-TYPE 27 56 33 47
'RQCD1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.583 (Fisher's exact test), Q value = 1

Table S215.  Gene #22: 'RQCD1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
RQCD1 MUTATED 2 2 5
RQCD1 WILD-TYPE 91 80 98
'RQCD1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.557 (Fisher's exact test), Q value = 1

Table S216.  Gene #22: 'RQCD1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
RQCD1 MUTATED 3 4 2
RQCD1 WILD-TYPE 60 163 46
'RQCD1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.734 (Fisher's exact test), Q value = 1

Table S217.  Gene #22: 'RQCD1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
RQCD1 MUTATED 3 4 1 1 0
RQCD1 WILD-TYPE 54 84 72 38 12
'RQCD1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.119 (Fisher's exact test), Q value = 1

Table S218.  Gene #22: 'RQCD1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
RQCD1 MUTATED 0 2 1 6
RQCD1 WILD-TYPE 73 69 33 85
'RQCD1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.479 (Fisher's exact test), Q value = 1

Table S219.  Gene #22: 'RQCD1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
RQCD1 MUTATED 4 4 1
RQCD1 WILD-TYPE 86 92 82
'RQCD1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.959 (Fisher's exact test), Q value = 1

Table S220.  Gene #22: 'RQCD1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
RQCD1 MUTATED 4 2 2 1
RQCD1 WILD-TYPE 110 77 51 22
'HSD11B1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.71 (Fisher's exact test), Q value = 1

Table S221.  Gene #23: 'HSD11B1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
HSD11B1 MUTATED 4 2 1 7
HSD11B1 WILD-TYPE 78 49 46 91
'HSD11B1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.193 (Fisher's exact test), Q value = 1

Table S222.  Gene #23: 'HSD11B1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
HSD11B1 MUTATED 5 8 1
HSD11B1 WILD-TYPE 96 97 71
'HSD11B1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.683 (Fisher's exact test), Q value = 1

Table S223.  Gene #23: 'HSD11B1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
HSD11B1 MUTATED 3 2 0 1
HSD11B1 WILD-TYPE 43 56 26 37
'HSD11B1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.184 (Fisher's exact test), Q value = 1

Table S224.  Gene #23: 'HSD11B1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
HSD11B1 MUTATED 3 1 1 1
HSD11B1 WILD-TYPE 24 57 33 48
'HSD11B1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.24 (Fisher's exact test), Q value = 1

Table S225.  Gene #23: 'HSD11B1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
HSD11B1 MUTATED 2 6 6
HSD11B1 WILD-TYPE 91 76 97
'HSD11B1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.336 (Fisher's exact test), Q value = 1

Table S226.  Gene #23: 'HSD11B1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
HSD11B1 MUTATED 1 11 2
HSD11B1 WILD-TYPE 62 156 46
'HSD11B1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.401 (Fisher's exact test), Q value = 1

Table S227.  Gene #23: 'HSD11B1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
HSD11B1 MUTATED 3 4 2 4 1
HSD11B1 WILD-TYPE 54 84 71 35 11
'HSD11B1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.944 (Fisher's exact test), Q value = 1

Table S228.  Gene #23: 'HSD11B1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
HSD11B1 MUTATED 3 4 2 5
HSD11B1 WILD-TYPE 70 67 32 86
'HSD11B1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.514 (Fisher's exact test), Q value = 1

Table S229.  Gene #23: 'HSD11B1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
HSD11B1 MUTATED 6 3 5
HSD11B1 WILD-TYPE 84 93 78
'HSD11B1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.127 (Fisher's exact test), Q value = 1

Table S230.  Gene #23: 'HSD11B1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
HSD11B1 MUTATED 6 6 0 2
HSD11B1 WILD-TYPE 108 73 53 21
'DMC1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.723 (Fisher's exact test), Q value = 1

Table S231.  Gene #24: 'DMC1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
DMC1 MUTATED 3 1 2 6
DMC1 WILD-TYPE 79 50 45 92
'DMC1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.396 (Fisher's exact test), Q value = 1

Table S232.  Gene #24: 'DMC1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
DMC1 MUTATED 5 6 1
DMC1 WILD-TYPE 96 99 71
'DMC1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.129 (Fisher's exact test), Q value = 1

Table S233.  Gene #24: 'DMC1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
DMC1 MUTATED 5 2 1 0
DMC1 WILD-TYPE 41 56 25 38
'DMC1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.303 (Fisher's exact test), Q value = 1

Table S234.  Gene #24: 'DMC1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
DMC1 MUTATED 3 2 2 1
DMC1 WILD-TYPE 24 56 32 48
'DMC1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.00652 (Fisher's exact test), Q value = 1

Table S235.  Gene #24: 'DMC1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
DMC1 MUTATED 7 5 0
DMC1 WILD-TYPE 86 77 103

Figure S19.  Get High-res Image Gene #24: 'DMC1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'DMC1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.769 (Fisher's exact test), Q value = 1

Table S236.  Gene #24: 'DMC1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
DMC1 MUTATED 2 7 3
DMC1 WILD-TYPE 61 160 45
'DMC1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0886 (Fisher's exact test), Q value = 1

Table S237.  Gene #24: 'DMC1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
DMC1 MUTATED 1 2 8 1 0
DMC1 WILD-TYPE 56 86 65 38 12
'DMC1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.69 (Fisher's exact test), Q value = 1

Table S238.  Gene #24: 'DMC1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
DMC1 MUTATED 3 5 1 3
DMC1 WILD-TYPE 70 66 33 88
'DMC1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0242 (Fisher's exact test), Q value = 1

Table S239.  Gene #24: 'DMC1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
DMC1 MUTATED 3 1 8
DMC1 WILD-TYPE 87 95 75

Figure S20.  Get High-res Image Gene #24: 'DMC1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'DMC1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0306 (Fisher's exact test), Q value = 1

Table S240.  Gene #24: 'DMC1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
DMC1 MUTATED 1 5 5 1
DMC1 WILD-TYPE 113 74 48 22

Figure S21.  Get High-res Image Gene #24: 'DMC1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'NRK MUTATION STATUS' versus 'CN_CNMF'

P value = 0.183 (Fisher's exact test), Q value = 1

Table S241.  Gene #25: 'NRK MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
NRK MUTATED 9 7 6 22
NRK WILD-TYPE 73 44 41 76
'NRK MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.464 (Fisher's exact test), Q value = 1

Table S242.  Gene #25: 'NRK MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
NRK MUTATED 18 18 8
NRK WILD-TYPE 83 87 64
'NRK MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.511 (Fisher's exact test), Q value = 1

Table S243.  Gene #25: 'NRK MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
NRK MUTATED 7 4 3 3
NRK WILD-TYPE 39 54 23 35
'NRK MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.647 (Fisher's exact test), Q value = 1

Table S244.  Gene #25: 'NRK MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
NRK MUTATED 3 5 2 7
NRK WILD-TYPE 24 53 32 42
'NRK MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.407 (Fisher's exact test), Q value = 1

Table S245.  Gene #25: 'NRK MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
NRK MUTATED 11 14 19
NRK WILD-TYPE 82 68 84
'NRK MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.801 (Fisher's exact test), Q value = 1

Table S246.  Gene #25: 'NRK MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
NRK MUTATED 11 27 6
NRK WILD-TYPE 52 140 42
'NRK MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.989 (Fisher's exact test), Q value = 1

Table S247.  Gene #25: 'NRK MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
NRK MUTATED 8 12 11 6 2
NRK WILD-TYPE 49 76 62 33 10
'NRK MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.642 (Fisher's exact test), Q value = 1

Table S248.  Gene #25: 'NRK MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
NRK MUTATED 14 9 4 12
NRK WILD-TYPE 59 62 30 79
'NRK MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.804 (Fisher's exact test), Q value = 1

Table S249.  Gene #25: 'NRK MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
NRK MUTATED 12 16 11
NRK WILD-TYPE 78 80 72
'NRK MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.993 (Fisher's exact test), Q value = 1

Table S250.  Gene #25: 'NRK MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
NRK MUTATED 17 12 7 3
NRK WILD-TYPE 97 67 46 20
'TAF1A MUTATION STATUS' versus 'CN_CNMF'

P value = 0.559 (Fisher's exact test), Q value = 1

Table S251.  Gene #26: 'TAF1A MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
TAF1A MUTATED 6 1 2 4
TAF1A WILD-TYPE 76 50 45 94
'TAF1A MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.826 (Fisher's exact test), Q value = 1

Table S252.  Gene #26: 'TAF1A MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
TAF1A MUTATED 5 4 4
TAF1A WILD-TYPE 96 101 68
'TAF1A MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.941 (Fisher's exact test), Q value = 1

Table S253.  Gene #26: 'TAF1A MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
TAF1A MUTATED 3 3 1 3
TAF1A WILD-TYPE 43 55 25 35
'TAF1A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.939 (Fisher's exact test), Q value = 1

Table S254.  Gene #26: 'TAF1A MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
TAF1A MUTATED 1 3 2 4
TAF1A WILD-TYPE 26 55 32 45
'TAF1A MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 1 (Fisher's exact test), Q value = 1

Table S255.  Gene #26: 'TAF1A MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
TAF1A MUTATED 4 4 5
TAF1A WILD-TYPE 89 78 98
'TAF1A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.672 (Fisher's exact test), Q value = 1

Table S256.  Gene #26: 'TAF1A MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
TAF1A MUTATED 4 7 2
TAF1A WILD-TYPE 59 160 46
'TAF1A MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.231 (Fisher's exact test), Q value = 1

Table S257.  Gene #26: 'TAF1A MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
TAF1A MUTATED 2 8 1 2 0
TAF1A WILD-TYPE 55 80 72 37 12
'TAF1A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.782 (Fisher's exact test), Q value = 1

Table S258.  Gene #26: 'TAF1A MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
TAF1A MUTATED 4 2 1 6
TAF1A WILD-TYPE 69 69 33 85
'TAF1A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0355 (Fisher's exact test), Q value = 1

Table S259.  Gene #26: 'TAF1A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
TAF1A MUTATED 3 9 1
TAF1A WILD-TYPE 87 87 82

Figure S22.  Get High-res Image Gene #26: 'TAF1A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'TAF1A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.565 (Fisher's exact test), Q value = 1

Table S260.  Gene #26: 'TAF1A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
TAF1A MUTATED 6 2 4 1
TAF1A WILD-TYPE 108 77 49 22
'OXA1L MUTATION STATUS' versus 'CN_CNMF'

P value = 0.414 (Fisher's exact test), Q value = 1

Table S261.  Gene #27: 'OXA1L MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
OXA1L MUTATED 4 2 0 2
OXA1L WILD-TYPE 78 49 47 96
'OXA1L MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.254 (Fisher's exact test), Q value = 1

Table S262.  Gene #27: 'OXA1L MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
OXA1L MUTATED 5 1 2
OXA1L WILD-TYPE 96 104 70
'OXA1L MUTATION STATUS' versus 'RPPA_CNMF'

P value = 1 (Fisher's exact test), Q value = 1

Table S263.  Gene #27: 'OXA1L MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
OXA1L MUTATED 1 2 1 1
OXA1L WILD-TYPE 45 56 25 37
'OXA1L MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.55 (Fisher's exact test), Q value = 1

Table S264.  Gene #27: 'OXA1L MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
OXA1L MUTATED 0 1 1 3
OXA1L WILD-TYPE 27 57 33 46
'OXA1L MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.444 (Fisher's exact test), Q value = 1

Table S265.  Gene #27: 'OXA1L MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
OXA1L MUTATED 1 3 4
OXA1L WILD-TYPE 92 79 99
'OXA1L MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.456 (Fisher's exact test), Q value = 1

Table S266.  Gene #27: 'OXA1L MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
OXA1L MUTATED 3 5 0
OXA1L WILD-TYPE 60 162 48
'OXA1L MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.774 (Fisher's exact test), Q value = 1

Table S267.  Gene #27: 'OXA1L MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
OXA1L MUTATED 2 3 1 2 0
OXA1L WILD-TYPE 55 85 72 37 12
'OXA1L MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.522 (Fisher's exact test), Q value = 1

Table S268.  Gene #27: 'OXA1L MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
OXA1L MUTATED 4 1 1 2
OXA1L WILD-TYPE 69 70 33 89
'OXA1L MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.491 (Fisher's exact test), Q value = 1

Table S269.  Gene #27: 'OXA1L MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
OXA1L MUTATED 4 3 1
OXA1L WILD-TYPE 86 93 82
'OXA1L MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.186 (Fisher's exact test), Q value = 1

Table S270.  Gene #27: 'OXA1L MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
OXA1L MUTATED 6 1 0 1
OXA1L WILD-TYPE 108 78 53 22
'COL3A1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.364 (Fisher's exact test), Q value = 1

Table S271.  Gene #28: 'COL3A1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
COL3A1 MUTATED 14 9 14 20
COL3A1 WILD-TYPE 68 42 33 78
'COL3A1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 1 (Fisher's exact test), Q value = 1

Table S272.  Gene #28: 'COL3A1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
COL3A1 MUTATED 21 21 15
COL3A1 WILD-TYPE 80 84 57
'COL3A1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.955 (Fisher's exact test), Q value = 1

Table S273.  Gene #28: 'COL3A1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
COL3A1 MUTATED 9 12 6 9
COL3A1 WILD-TYPE 37 46 20 29
'COL3A1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.148 (Fisher's exact test), Q value = 1

Table S274.  Gene #28: 'COL3A1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
COL3A1 MUTATED 7 12 3 14
COL3A1 WILD-TYPE 20 46 31 35
'COL3A1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.323 (Fisher's exact test), Q value = 1

Table S275.  Gene #28: 'COL3A1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
COL3A1 MUTATED 24 15 18
COL3A1 WILD-TYPE 69 67 85
'COL3A1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.267 (Fisher's exact test), Q value = 1

Table S276.  Gene #28: 'COL3A1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
COL3A1 MUTATED 16 29 12
COL3A1 WILD-TYPE 47 138 36
'COL3A1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.939 (Fisher's exact test), Q value = 1

Table S277.  Gene #28: 'COL3A1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
COL3A1 MUTATED 12 16 16 7 3
COL3A1 WILD-TYPE 45 72 57 32 9
'COL3A1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.623 (Fisher's exact test), Q value = 1

Table S278.  Gene #28: 'COL3A1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
COL3A1 MUTATED 14 17 8 15
COL3A1 WILD-TYPE 59 54 26 76
'COL3A1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.894 (Fisher's exact test), Q value = 1

Table S279.  Gene #28: 'COL3A1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
COL3A1 MUTATED 18 18 18
COL3A1 WILD-TYPE 72 78 65
'COL3A1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.474 (Fisher's exact test), Q value = 1

Table S280.  Gene #28: 'COL3A1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
COL3A1 MUTATED 24 19 7 4
COL3A1 WILD-TYPE 90 60 46 19
'TCHHL1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.657 (Fisher's exact test), Q value = 1

Table S281.  Gene #29: 'TCHHL1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
TCHHL1 MUTATED 15 6 6 12
TCHHL1 WILD-TYPE 67 45 41 86
'TCHHL1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.461 (Fisher's exact test), Q value = 1

Table S282.  Gene #29: 'TCHHL1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
TCHHL1 MUTATED 15 17 7
TCHHL1 WILD-TYPE 86 88 65
'TCHHL1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0355 (Fisher's exact test), Q value = 1

Table S283.  Gene #29: 'TCHHL1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
TCHHL1 MUTATED 11 3 4 7
TCHHL1 WILD-TYPE 35 55 22 31

Figure S23.  Get High-res Image Gene #29: 'TCHHL1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

'TCHHL1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.185 (Fisher's exact test), Q value = 1

Table S284.  Gene #29: 'TCHHL1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
TCHHL1 MUTATED 7 10 4 4
TCHHL1 WILD-TYPE 20 48 30 45
'TCHHL1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.227 (Fisher's exact test), Q value = 1

Table S285.  Gene #29: 'TCHHL1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
TCHHL1 MUTATED 12 16 11
TCHHL1 WILD-TYPE 81 66 92
'TCHHL1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.227 (Fisher's exact test), Q value = 1

Table S286.  Gene #29: 'TCHHL1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
TCHHL1 MUTATED 5 28 6
TCHHL1 WILD-TYPE 58 139 42
'TCHHL1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.945 (Fisher's exact test), Q value = 1

Table S287.  Gene #29: 'TCHHL1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
TCHHL1 MUTATED 8 12 10 7 2
TCHHL1 WILD-TYPE 49 76 63 32 10
'TCHHL1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.868 (Fisher's exact test), Q value = 1

Table S288.  Gene #29: 'TCHHL1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
TCHHL1 MUTATED 9 11 6 13
TCHHL1 WILD-TYPE 64 60 28 78
'TCHHL1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.746 (Fisher's exact test), Q value = 1

Table S289.  Gene #29: 'TCHHL1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
TCHHL1 MUTATED 14 15 10
TCHHL1 WILD-TYPE 76 81 73
'TCHHL1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.968 (Fisher's exact test), Q value = 1

Table S290.  Gene #29: 'TCHHL1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
TCHHL1 MUTATED 17 11 7 4
TCHHL1 WILD-TYPE 97 68 46 19
'IL5RA MUTATION STATUS' versus 'CN_CNMF'

P value = 0.549 (Fisher's exact test), Q value = 1

Table S291.  Gene #30: 'IL5RA MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
IL5RA MUTATED 5 1 3 8
IL5RA WILD-TYPE 77 50 44 90
'IL5RA MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.904 (Fisher's exact test), Q value = 1

Table S292.  Gene #30: 'IL5RA MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
IL5RA MUTATED 7 6 4
IL5RA WILD-TYPE 94 99 68
'IL5RA MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.774 (Fisher's exact test), Q value = 1

Table S293.  Gene #30: 'IL5RA MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
IL5RA MUTATED 3 3 1 4
IL5RA WILD-TYPE 43 55 25 34
'IL5RA MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.226 (Fisher's exact test), Q value = 1

Table S294.  Gene #30: 'IL5RA MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
IL5RA MUTATED 1 5 0 5
IL5RA WILD-TYPE 26 53 34 44
'IL5RA MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.601 (Fisher's exact test), Q value = 1

Table S295.  Gene #30: 'IL5RA MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
IL5RA MUTATED 5 7 5
IL5RA WILD-TYPE 88 75 98
'IL5RA MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.14 (Fisher's exact test), Q value = 1

Table S296.  Gene #30: 'IL5RA MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
IL5RA MUTATED 7 9 1
IL5RA WILD-TYPE 56 158 47
'IL5RA MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.516 (Fisher's exact test), Q value = 1

Table S297.  Gene #30: 'IL5RA MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
IL5RA MUTATED 6 4 5 1 0
IL5RA WILD-TYPE 51 84 68 38 12
'IL5RA MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.336 (Fisher's exact test), Q value = 1

Table S298.  Gene #30: 'IL5RA MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
IL5RA MUTATED 7 5 1 3
IL5RA WILD-TYPE 66 66 33 88
'IL5RA MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.62 (Fisher's exact test), Q value = 1

Table S299.  Gene #30: 'IL5RA MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
IL5RA MUTATED 7 4 5
IL5RA WILD-TYPE 83 92 78
'IL5RA MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.567 (Fisher's exact test), Q value = 1

Table S300.  Gene #30: 'IL5RA MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
IL5RA MUTATED 9 5 2 0
IL5RA WILD-TYPE 105 74 51 23
'NBPF7 MUTATION STATUS' versus 'CN_CNMF'

P value = 1 (Fisher's exact test), Q value = 1

Table S301.  Gene #31: 'NBPF7 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
NBPF7 MUTATED 4 2 2 5
NBPF7 WILD-TYPE 78 49 45 93
'NBPF7 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.717 (Fisher's exact test), Q value = 1

Table S302.  Gene #31: 'NBPF7 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
NBPF7 MUTATED 5 6 2
NBPF7 WILD-TYPE 96 99 70
'NBPF7 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.794 (Fisher's exact test), Q value = 1

Table S303.  Gene #31: 'NBPF7 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
NBPF7 MUTATED 2 2 2 1
NBPF7 WILD-TYPE 44 56 24 37
'NBPF7 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.494 (Fisher's exact test), Q value = 1

Table S304.  Gene #31: 'NBPF7 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
NBPF7 MUTATED 2 1 1 3
NBPF7 WILD-TYPE 25 57 33 46
'NBPF7 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0663 (Fisher's exact test), Q value = 1

Table S305.  Gene #31: 'NBPF7 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
NBPF7 MUTATED 2 2 9
NBPF7 WILD-TYPE 91 80 94
'NBPF7 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.22 (Fisher's exact test), Q value = 1

Table S306.  Gene #31: 'NBPF7 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
NBPF7 MUTATED 4 9 0
NBPF7 WILD-TYPE 59 158 48
'NBPF7 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0929 (Fisher's exact test), Q value = 1

Table S307.  Gene #31: 'NBPF7 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
NBPF7 MUTATED 5 7 1 0 0
NBPF7 WILD-TYPE 52 81 72 39 12
'NBPF7 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.163 (Fisher's exact test), Q value = 1

Table S308.  Gene #31: 'NBPF7 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
NBPF7 MUTATED 7 3 0 3
NBPF7 WILD-TYPE 66 68 34 88
'NBPF7 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0862 (Fisher's exact test), Q value = 1

Table S309.  Gene #31: 'NBPF7 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
NBPF7 MUTATED 4 8 1
NBPF7 WILD-TYPE 86 88 82
'NBPF7 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0599 (Fisher's exact test), Q value = 1

Table S310.  Gene #31: 'NBPF7 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
NBPF7 MUTATED 10 3 0 0
NBPF7 WILD-TYPE 104 76 53 23
'KEL MUTATION STATUS' versus 'CN_CNMF'

P value = 0.426 (Fisher's exact test), Q value = 1

Table S311.  Gene #32: 'KEL MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
KEL MUTATED 7 8 6 16
KEL WILD-TYPE 75 43 41 82
'KEL MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.31 (Fisher's exact test), Q value = 1

Table S312.  Gene #32: 'KEL MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
KEL MUTATED 14 17 6
KEL WILD-TYPE 87 88 66
'KEL MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.775 (Fisher's exact test), Q value = 1

Table S313.  Gene #32: 'KEL MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
KEL MUTATED 5 8 3 7
KEL WILD-TYPE 41 50 23 31
'KEL MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.654 (Fisher's exact test), Q value = 1

Table S314.  Gene #32: 'KEL MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
KEL MUTATED 3 6 5 9
KEL WILD-TYPE 24 52 29 40
'KEL MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0039 (Fisher's exact test), Q value = 1

Table S315.  Gene #32: 'KEL MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
KEL MUTATED 4 15 18
KEL WILD-TYPE 89 67 85

Figure S24.  Get High-res Image Gene #32: 'KEL MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'KEL MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0223 (Fisher's exact test), Q value = 1

Table S316.  Gene #32: 'KEL MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
KEL MUTATED 10 26 1
KEL WILD-TYPE 53 141 47

Figure S25.  Get High-res Image Gene #32: 'KEL MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'KEL MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.262 (Fisher's exact test), Q value = 1

Table S317.  Gene #32: 'KEL MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
KEL MUTATED 5 15 7 7 0
KEL WILD-TYPE 52 73 66 32 12
'KEL MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.577 (Fisher's exact test), Q value = 1

Table S318.  Gene #32: 'KEL MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
KEL MUTATED 11 7 6 10
KEL WILD-TYPE 62 64 28 81
'KEL MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0899 (Fisher's exact test), Q value = 1

Table S319.  Gene #32: 'KEL MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
KEL MUTATED 9 18 7
KEL WILD-TYPE 81 78 76
'KEL MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.158 (Fisher's exact test), Q value = 1

Table S320.  Gene #32: 'KEL MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
KEL MUTATED 20 8 3 3
KEL WILD-TYPE 94 71 50 20
'C7ORF58 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.658 (Fisher's exact test), Q value = 1

Table S321.  Gene #33: 'C7ORF58 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
C7ORF58 MUTATED 9 9 6 11
C7ORF58 WILD-TYPE 73 42 41 87
'C7ORF58 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.521 (Fisher's exact test), Q value = 1

Table S322.  Gene #33: 'C7ORF58 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
C7ORF58 MUTATED 16 11 8
C7ORF58 WILD-TYPE 85 94 64
'C7ORF58 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0886 (Fisher's exact test), Q value = 1

Table S323.  Gene #33: 'C7ORF58 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
C7ORF58 MUTATED 8 8 0 7
C7ORF58 WILD-TYPE 38 50 26 31
'C7ORF58 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.00254 (Fisher's exact test), Q value = 1

Table S324.  Gene #33: 'C7ORF58 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
C7ORF58 MUTATED 6 13 0 4
C7ORF58 WILD-TYPE 21 45 34 45

Figure S26.  Get High-res Image Gene #33: 'C7ORF58 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

'C7ORF58 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.809 (Fisher's exact test), Q value = 1

Table S325.  Gene #33: 'C7ORF58 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
C7ORF58 MUTATED 11 12 12
C7ORF58 WILD-TYPE 82 70 91
'C7ORF58 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.234 (Fisher's exact test), Q value = 1

Table S326.  Gene #33: 'C7ORF58 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
C7ORF58 MUTATED 4 24 7
C7ORF58 WILD-TYPE 59 143 41
'C7ORF58 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.298 (Fisher's exact test), Q value = 1

Table S327.  Gene #33: 'C7ORF58 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
C7ORF58 MUTATED 4 10 9 7 3
C7ORF58 WILD-TYPE 53 78 64 32 9
'C7ORF58 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.635 (Fisher's exact test), Q value = 1

Table S328.  Gene #33: 'C7ORF58 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
C7ORF58 MUTATED 10 8 6 9
C7ORF58 WILD-TYPE 63 63 28 82
'C7ORF58 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.714 (Fisher's exact test), Q value = 1

Table S329.  Gene #33: 'C7ORF58 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
C7ORF58 MUTATED 13 10 10
C7ORF58 WILD-TYPE 77 86 73
'C7ORF58 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.506 (Fisher's exact test), Q value = 1

Table S330.  Gene #33: 'C7ORF58 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
C7ORF58 MUTATED 14 8 6 5
C7ORF58 WILD-TYPE 100 71 47 18
'NBPF1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.451 (Fisher's exact test), Q value = 1

Table S331.  Gene #34: 'NBPF1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
NBPF1 MUTATED 16 6 5 12
NBPF1 WILD-TYPE 66 45 42 86
'NBPF1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.222 (Fisher's exact test), Q value = 1

Table S332.  Gene #34: 'NBPF1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
NBPF1 MUTATED 19 11 9
NBPF1 WILD-TYPE 82 94 63
'NBPF1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0344 (Fisher's exact test), Q value = 1

Table S333.  Gene #34: 'NBPF1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
NBPF1 MUTATED 9 6 2 12
NBPF1 WILD-TYPE 37 52 24 26

Figure S27.  Get High-res Image Gene #34: 'NBPF1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

'NBPF1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.701 (Fisher's exact test), Q value = 1

Table S334.  Gene #34: 'NBPF1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
NBPF1 MUTATED 5 12 6 6
NBPF1 WILD-TYPE 22 46 28 43
'NBPF1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.478 (Fisher's exact test), Q value = 1

Table S335.  Gene #34: 'NBPF1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
NBPF1 MUTATED 11 10 18
NBPF1 WILD-TYPE 82 72 85
'NBPF1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.293 (Fisher's exact test), Q value = 1

Table S336.  Gene #34: 'NBPF1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
NBPF1 MUTATED 12 23 4
NBPF1 WILD-TYPE 51 144 44
'NBPF1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.168 (Fisher's exact test), Q value = 1

Table S337.  Gene #34: 'NBPF1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
NBPF1 MUTATED 10 17 6 5 0
NBPF1 WILD-TYPE 47 71 67 34 12
'NBPF1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.931 (Fisher's exact test), Q value = 1

Table S338.  Gene #34: 'NBPF1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
NBPF1 MUTATED 9 11 4 14
NBPF1 WILD-TYPE 64 60 30 77
'NBPF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0661 (Fisher's exact test), Q value = 1

Table S339.  Gene #34: 'NBPF1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
NBPF1 MUTATED 14 18 6
NBPF1 WILD-TYPE 76 78 77
'NBPF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.295 (Fisher's exact test), Q value = 1

Table S340.  Gene #34: 'NBPF1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
NBPF1 MUTATED 21 10 4 3
NBPF1 WILD-TYPE 93 69 49 20
'TMEM216 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.184 (Fisher's exact test), Q value = 1

Table S341.  Gene #35: 'TMEM216 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
TMEM216 MUTATED 1 0 3 4
TMEM216 WILD-TYPE 81 51 44 94
'TMEM216 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.393 (Fisher's exact test), Q value = 1

Table S342.  Gene #35: 'TMEM216 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
TMEM216 MUTATED 1 4 3
TMEM216 WILD-TYPE 100 101 69
'TMEM216 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0577 (Fisher's exact test), Q value = 1

Table S343.  Gene #35: 'TMEM216 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
TMEM216 MUTATED 4 0 2 1
TMEM216 WILD-TYPE 42 58 24 37
'TMEM216 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.624 (Fisher's exact test), Q value = 1

Table S344.  Gene #35: 'TMEM216 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
TMEM216 MUTATED 1 1 2 3
TMEM216 WILD-TYPE 26 57 32 46
'TMEM216 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.743 (Fisher's exact test), Q value = 1

Table S345.  Gene #35: 'TMEM216 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
TMEM216 MUTATED 3 3 2
TMEM216 WILD-TYPE 90 79 101
'TMEM216 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.195 (Fisher's exact test), Q value = 1

Table S346.  Gene #35: 'TMEM216 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
TMEM216 MUTATED 2 3 3
TMEM216 WILD-TYPE 61 164 45
'TMEM216 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.469 (Fisher's exact test), Q value = 1

Table S347.  Gene #35: 'TMEM216 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
TMEM216 MUTATED 2 2 3 0 1
TMEM216 WILD-TYPE 55 86 70 39 11
'TMEM216 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.541 (Fisher's exact test), Q value = 1

Table S348.  Gene #35: 'TMEM216 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
TMEM216 MUTATED 3 3 1 1
TMEM216 WILD-TYPE 70 68 33 90
'TMEM216 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.664 (Fisher's exact test), Q value = 1

Table S349.  Gene #35: 'TMEM216 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
TMEM216 MUTATED 4 2 2
TMEM216 WILD-TYPE 86 94 81
'TMEM216 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.709 (Fisher's exact test), Q value = 1

Table S350.  Gene #35: 'TMEM216 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
TMEM216 MUTATED 3 4 1 0
TMEM216 WILD-TYPE 111 75 52 23
'DOM3Z MUTATION STATUS' versus 'CN_CNMF'

P value = 0.74 (Fisher's exact test), Q value = 1

Table S351.  Gene #36: 'DOM3Z MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
DOM3Z MUTATED 3 1 0 3
DOM3Z WILD-TYPE 79 50 47 95
'DOM3Z MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.204 (Fisher's exact test), Q value = 1

Table S352.  Gene #36: 'DOM3Z MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
DOM3Z MUTATED 5 1 1
DOM3Z WILD-TYPE 96 104 71
'DOM3Z MUTATION STATUS' versus 'RPPA_CNMF'

P value = 1 (Fisher's exact test), Q value = 1

Table S353.  Gene #36: 'DOM3Z MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
DOM3Z MUTATED 1 2 0 1
DOM3Z WILD-TYPE 45 56 26 37
'DOM3Z MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0953 (Fisher's exact test), Q value = 1

Table S354.  Gene #36: 'DOM3Z MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
DOM3Z MUTATED 1 0 0 3
DOM3Z WILD-TYPE 26 58 34 46
'DOM3Z MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.635 (Fisher's exact test), Q value = 1

Table S355.  Gene #36: 'DOM3Z MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
DOM3Z MUTATED 2 1 4
DOM3Z WILD-TYPE 91 81 99
'DOM3Z MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0533 (Fisher's exact test), Q value = 1

Table S356.  Gene #36: 'DOM3Z MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
DOM3Z MUTATED 4 2 1
DOM3Z WILD-TYPE 59 165 47
'DOM3Z MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0847 (Fisher's exact test), Q value = 1

Table S357.  Gene #36: 'DOM3Z MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
DOM3Z MUTATED 1 6 0 0 0
DOM3Z WILD-TYPE 56 82 73 39 12
'DOM3Z MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.165 (Fisher's exact test), Q value = 1

Table S358.  Gene #36: 'DOM3Z MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
DOM3Z MUTATED 2 0 0 5
DOM3Z WILD-TYPE 71 71 34 86
'DOM3Z MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0202 (Fisher's exact test), Q value = 1

Table S359.  Gene #36: 'DOM3Z MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
DOM3Z MUTATED 1 6 0
DOM3Z WILD-TYPE 89 90 83

Figure S28.  Get High-res Image Gene #36: 'DOM3Z MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'DOM3Z MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.202 (Fisher's exact test), Q value = 1

Table S360.  Gene #36: 'DOM3Z MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
DOM3Z MUTATED 5 0 2 0
DOM3Z WILD-TYPE 109 79 51 23
'BCLAF1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.482 (Fisher's exact test), Q value = 1

Table S361.  Gene #37: 'BCLAF1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
BCLAF1 MUTATED 11 12 7 18
BCLAF1 WILD-TYPE 71 39 40 80
'BCLAF1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.28 (Fisher's exact test), Q value = 1

Table S362.  Gene #37: 'BCLAF1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
BCLAF1 MUTATED 22 17 9
BCLAF1 WILD-TYPE 79 88 63
'BCLAF1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.226 (Fisher's exact test), Q value = 1

Table S363.  Gene #37: 'BCLAF1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
BCLAF1 MUTATED 9 11 2 11
BCLAF1 WILD-TYPE 37 47 24 27
'BCLAF1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.829 (Fisher's exact test), Q value = 1

Table S364.  Gene #37: 'BCLAF1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
BCLAF1 MUTATED 7 11 6 9
BCLAF1 WILD-TYPE 20 47 28 40
'BCLAF1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.921 (Fisher's exact test), Q value = 1

Table S365.  Gene #37: 'BCLAF1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
BCLAF1 MUTATED 17 13 18
BCLAF1 WILD-TYPE 76 69 85
'BCLAF1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.881 (Fisher's exact test), Q value = 1

Table S366.  Gene #37: 'BCLAF1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
BCLAF1 MUTATED 11 30 7
BCLAF1 WILD-TYPE 52 137 41
'BCLAF1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.793 (Fisher's exact test), Q value = 1

Table S367.  Gene #37: 'BCLAF1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
BCLAF1 MUTATED 7 17 13 7 1
BCLAF1 WILD-TYPE 50 71 60 32 11
'BCLAF1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.88 (Fisher's exact test), Q value = 1

Table S368.  Gene #37: 'BCLAF1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
BCLAF1 MUTATED 13 13 4 15
BCLAF1 WILD-TYPE 60 58 30 76
'BCLAF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.876 (Fisher's exact test), Q value = 1

Table S369.  Gene #37: 'BCLAF1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
BCLAF1 MUTATED 14 16 15
BCLAF1 WILD-TYPE 76 80 68
'BCLAF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.16 (Fisher's exact test), Q value = 1

Table S370.  Gene #37: 'BCLAF1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
BCLAF1 MUTATED 24 14 4 3
BCLAF1 WILD-TYPE 90 65 49 20
'ZFX MUTATION STATUS' versus 'CN_CNMF'

P value = 0.708 (Fisher's exact test), Q value = 1

Table S371.  Gene #38: 'ZFX MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
ZFX MUTATED 4 2 1 7
ZFX WILD-TYPE 78 49 46 91
'ZFX MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.697 (Fisher's exact test), Q value = 1

Table S372.  Gene #38: 'ZFX MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
ZFX MUTATED 4 5 5
ZFX WILD-TYPE 97 100 67
'ZFX MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.529 (Fisher's exact test), Q value = 1

Table S373.  Gene #38: 'ZFX MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
ZFX MUTATED 1 4 0 2
ZFX WILD-TYPE 45 54 26 36
'ZFX MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 1 (Fisher's exact test), Q value = 1

Table S374.  Gene #38: 'ZFX MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
ZFX MUTATED 1 3 1 2
ZFX WILD-TYPE 26 55 33 47
'ZFX MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0493 (Fisher's exact test), Q value = 1

Table S375.  Gene #38: 'ZFX MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
ZFX MUTATED 1 7 6
ZFX WILD-TYPE 92 75 97

Figure S29.  Get High-res Image Gene #38: 'ZFX MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'ZFX MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.686 (Fisher's exact test), Q value = 1

Table S376.  Gene #38: 'ZFX MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
ZFX MUTATED 3 10 1
ZFX WILD-TYPE 60 157 47
'ZFX MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.431 (Fisher's exact test), Q value = 1

Table S377.  Gene #38: 'ZFX MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
ZFX MUTATED 3 8 2 1 0
ZFX WILD-TYPE 54 80 71 38 12
'ZFX MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.658 (Fisher's exact test), Q value = 1

Table S378.  Gene #38: 'ZFX MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
ZFX MUTATED 5 2 1 6
ZFX WILD-TYPE 68 69 33 85
'ZFX MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0488 (Fisher's exact test), Q value = 1

Table S379.  Gene #38: 'ZFX MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
ZFX MUTATED 4 9 1
ZFX WILD-TYPE 86 87 82

Figure S30.  Get High-res Image Gene #38: 'ZFX MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

'ZFX MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.465 (Fisher's exact test), Q value = 1

Table S380.  Gene #38: 'ZFX MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
ZFX MUTATED 9 3 2 0
ZFX WILD-TYPE 105 76 51 23
'BRAF MUTATION STATUS' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.015

Table S381.  Gene #39: 'BRAF MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
BRAF MUTATED 25 28 35 52
BRAF WILD-TYPE 57 23 12 46

Figure S31.  Get High-res Image Gene #39: 'BRAF MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

'BRAF MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.019 (Fisher's exact test), Q value = 1

Table S382.  Gene #39: 'BRAF MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
BRAF MUTATED 51 62 27
BRAF WILD-TYPE 50 43 45

Figure S32.  Get High-res Image Gene #39: 'BRAF MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

'BRAF MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.503 (Fisher's exact test), Q value = 1

Table S383.  Gene #39: 'BRAF MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
BRAF MUTATED 24 24 14 21
BRAF WILD-TYPE 22 34 12 17
'BRAF MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.62 (Fisher's exact test), Q value = 1

Table S384.  Gene #39: 'BRAF MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
BRAF MUTATED 13 25 19 26
BRAF WILD-TYPE 14 33 15 23
'BRAF MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.00256 (Fisher's exact test), Q value = 1

Table S385.  Gene #39: 'BRAF MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
BRAF MUTATED 59 41 40
BRAF WILD-TYPE 34 41 63

Figure S33.  Get High-res Image Gene #39: 'BRAF MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'BRAF MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.015

Table S386.  Gene #39: 'BRAF MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
BRAF MUTATED 14 90 36
BRAF WILD-TYPE 49 77 12

Figure S34.  Get High-res Image Gene #39: 'BRAF MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

'BRAF MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.00304 (Fisher's exact test), Q value = 1

Table S387.  Gene #39: 'BRAF MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
BRAF MUTATED 19 39 43 25 9
BRAF WILD-TYPE 38 49 30 14 3

Figure S35.  Get High-res Image Gene #39: 'BRAF MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

'BRAF MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.138 (Fisher's exact test), Q value = 1

Table S388.  Gene #39: 'BRAF MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
BRAF MUTATED 31 39 22 43
BRAF WILD-TYPE 42 32 12 48
'BRAF MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.249 (Fisher's exact test), Q value = 1

Table S389.  Gene #39: 'BRAF MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
BRAF MUTATED 42 45 48
BRAF WILD-TYPE 48 51 35
'BRAF MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.036 (Fisher's exact test), Q value = 1

Table S390.  Gene #39: 'BRAF MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
BRAF MUTATED 46 48 28 13
BRAF WILD-TYPE 68 31 25 10

Figure S36.  Get High-res Image Gene #39: 'BRAF MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'SAG MUTATION STATUS' versus 'CN_CNMF'

P value = 0.178 (Fisher's exact test), Q value = 1

Table S391.  Gene #40: 'SAG MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
SAG MUTATED 3 0 4 4
SAG WILD-TYPE 79 51 43 94
'SAG MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.579 (Fisher's exact test), Q value = 1

Table S392.  Gene #40: 'SAG MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
SAG MUTATED 3 6 2
SAG WILD-TYPE 98 99 70
'SAG MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.51 (Fisher's exact test), Q value = 1

Table S393.  Gene #40: 'SAG MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
SAG MUTATED 2 1 2 2
SAG WILD-TYPE 44 57 24 36
'SAG MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.168 (Fisher's exact test), Q value = 1

Table S394.  Gene #40: 'SAG MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
SAG MUTATED 3 1 2 1
SAG WILD-TYPE 24 57 32 48
'SAG MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.634 (Fisher's exact test), Q value = 1

Table S395.  Gene #40: 'SAG MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
SAG MUTATED 5 2 4
SAG WILD-TYPE 88 80 99
'SAG MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.512 (Fisher's exact test), Q value = 1

Table S396.  Gene #40: 'SAG MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
SAG MUTATED 3 5 3
SAG WILD-TYPE 60 162 45
'SAG MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.505 (Fisher's exact test), Q value = 1

Table S397.  Gene #40: 'SAG MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
SAG MUTATED 4 3 4 0 0
SAG WILD-TYPE 53 85 69 39 12
'SAG MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.2 (Fisher's exact test), Q value = 1

Table S398.  Gene #40: 'SAG MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
SAG MUTATED 2 6 0 3
SAG WILD-TYPE 71 65 34 88
'SAG MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.862 (Fisher's exact test), Q value = 1

Table S399.  Gene #40: 'SAG MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
SAG MUTATED 4 3 4
SAG WILD-TYPE 86 93 79
'SAG MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.353 (Fisher's exact test), Q value = 1

Table S400.  Gene #40: 'SAG MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
SAG MUTATED 4 6 1 0
SAG WILD-TYPE 110 73 52 23
'OR51S1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.369 (Fisher's exact test), Q value = 1

Table S401.  Gene #41: 'OR51S1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
OR51S1 MUTATED 5 7 5 13
OR51S1 WILD-TYPE 77 44 42 85
'OR51S1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.969 (Fisher's exact test), Q value = 1

Table S402.  Gene #41: 'OR51S1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
OR51S1 MUTATED 11 12 7
OR51S1 WILD-TYPE 90 93 65
'OR51S1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.493 (Fisher's exact test), Q value = 1

Table S403.  Gene #41: 'OR51S1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
OR51S1 MUTATED 3 9 2 5
OR51S1 WILD-TYPE 43 49 24 33
'OR51S1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.318 (Fisher's exact test), Q value = 1

Table S404.  Gene #41: 'OR51S1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
OR51S1 MUTATED 1 5 5 8
OR51S1 WILD-TYPE 26 53 29 41
'OR51S1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.832 (Fisher's exact test), Q value = 1

Table S405.  Gene #41: 'OR51S1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
OR51S1 MUTATED 10 10 10
OR51S1 WILD-TYPE 83 72 93
'OR51S1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.267 (Fisher's exact test), Q value = 1

Table S406.  Gene #41: 'OR51S1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
OR51S1 MUTATED 7 21 2
OR51S1 WILD-TYPE 56 146 46
'OR51S1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.187 (Fisher's exact test), Q value = 1

Table S407.  Gene #41: 'OR51S1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
OR51S1 MUTATED 9 11 6 1 2
OR51S1 WILD-TYPE 48 77 67 38 10
'OR51S1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.796 (Fisher's exact test), Q value = 1

Table S408.  Gene #41: 'OR51S1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
OR51S1 MUTATED 9 7 2 11
OR51S1 WILD-TYPE 64 64 32 80
'OR51S1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0828 (Fisher's exact test), Q value = 1

Table S409.  Gene #41: 'OR51S1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
OR51S1 MUTATED 7 16 6
OR51S1 WILD-TYPE 83 80 77
'OR51S1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.028 (Fisher's exact test), Q value = 1

Table S410.  Gene #41: 'OR51S1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
OR51S1 MUTATED 18 9 1 1
OR51S1 WILD-TYPE 96 70 52 22

Figure S37.  Get High-res Image Gene #41: 'OR51S1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'USP17L2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.453 (Fisher's exact test), Q value = 1

Table S411.  Gene #42: 'USP17L2 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
USP17L2 MUTATED 4 3 4 11
USP17L2 WILD-TYPE 78 48 43 87
'USP17L2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.159 (Fisher's exact test), Q value = 1

Table S412.  Gene #42: 'USP17L2 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
USP17L2 MUTATED 10 10 2
USP17L2 WILD-TYPE 91 95 70
'USP17L2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.813 (Fisher's exact test), Q value = 1

Table S413.  Gene #42: 'USP17L2 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
USP17L2 MUTATED 5 5 1 3
USP17L2 WILD-TYPE 41 53 25 35
'USP17L2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.57 (Fisher's exact test), Q value = 1

Table S414.  Gene #42: 'USP17L2 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
USP17L2 MUTATED 3 6 3 2
USP17L2 WILD-TYPE 24 52 31 47
'USP17L2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.272 (Fisher's exact test), Q value = 1

Table S415.  Gene #42: 'USP17L2 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
USP17L2 MUTATED 6 10 6
USP17L2 WILD-TYPE 87 72 97
'USP17L2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.905 (Fisher's exact test), Q value = 1

Table S416.  Gene #42: 'USP17L2 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
USP17L2 MUTATED 4 14 4
USP17L2 WILD-TYPE 59 153 44
'USP17L2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.948 (Fisher's exact test), Q value = 1

Table S417.  Gene #42: 'USP17L2 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
USP17L2 MUTATED 4 7 7 2 1
USP17L2 WILD-TYPE 53 81 66 37 11
'USP17L2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.486 (Fisher's exact test), Q value = 1

Table S418.  Gene #42: 'USP17L2 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
USP17L2 MUTATED 3 7 2 9
USP17L2 WILD-TYPE 70 64 32 82
'USP17L2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.746 (Fisher's exact test), Q value = 1

Table S419.  Gene #42: 'USP17L2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
USP17L2 MUTATED 6 7 8
USP17L2 WILD-TYPE 84 89 75
'USP17L2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.606 (Fisher's exact test), Q value = 1

Table S420.  Gene #42: 'USP17L2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
USP17L2 MUTATED 9 8 2 2
USP17L2 WILD-TYPE 105 71 51 21
'LRPPRC MUTATION STATUS' versus 'CN_CNMF'

P value = 0.239 (Fisher's exact test), Q value = 1

Table S421.  Gene #43: 'LRPPRC MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
LRPPRC MUTATED 5 0 3 7
LRPPRC WILD-TYPE 77 51 44 91
'LRPPRC MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.669 (Fisher's exact test), Q value = 1

Table S422.  Gene #43: 'LRPPRC MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
LRPPRC MUTATED 4 6 5
LRPPRC WILD-TYPE 97 99 67
'LRPPRC MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.42 (Fisher's exact test), Q value = 1

Table S423.  Gene #43: 'LRPPRC MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
LRPPRC MUTATED 4 5 0 4
LRPPRC WILD-TYPE 42 53 26 34
'LRPPRC MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.678 (Fisher's exact test), Q value = 1

Table S424.  Gene #43: 'LRPPRC MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
LRPPRC MUTATED 2 6 1 4
LRPPRC WILD-TYPE 25 52 33 45
'LRPPRC MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.535 (Fisher's exact test), Q value = 1

Table S425.  Gene #43: 'LRPPRC MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
LRPPRC MUTATED 7 4 4
LRPPRC WILD-TYPE 86 78 99
'LRPPRC MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.572 (Fisher's exact test), Q value = 1

Table S426.  Gene #43: 'LRPPRC MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
LRPPRC MUTATED 3 8 4
LRPPRC WILD-TYPE 60 159 44
'LRPPRC MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.476 (Fisher's exact test), Q value = 1

Table S427.  Gene #43: 'LRPPRC MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
LRPPRC MUTATED 1 4 6 3 0
LRPPRC WILD-TYPE 56 84 67 36 12
'LRPPRC MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.812 (Fisher's exact test), Q value = 1

Table S428.  Gene #43: 'LRPPRC MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
LRPPRC MUTATED 3 5 1 5
LRPPRC WILD-TYPE 70 66 33 86
'LRPPRC MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.653 (Fisher's exact test), Q value = 1

Table S429.  Gene #43: 'LRPPRC MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
LRPPRC MUTATED 4 4 6
LRPPRC WILD-TYPE 86 92 77
'LRPPRC MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.951 (Fisher's exact test), Q value = 1

Table S430.  Gene #43: 'LRPPRC MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
LRPPRC MUTATED 6 5 2 1
LRPPRC WILD-TYPE 108 74 51 22
'BTK MUTATION STATUS' versus 'CN_CNMF'

P value = 0.362 (Fisher's exact test), Q value = 1

Table S431.  Gene #44: 'BTK MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
BTK MUTATED 2 4 4 6
BTK WILD-TYPE 80 47 43 92
'BTK MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.148 (Fisher's exact test), Q value = 1

Table S432.  Gene #44: 'BTK MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
BTK MUTATED 8 7 1
BTK WILD-TYPE 93 98 71
'BTK MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.475 (Fisher's exact test), Q value = 1

Table S433.  Gene #44: 'BTK MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
BTK MUTATED 2 4 1 5
BTK WILD-TYPE 44 54 25 33
'BTK MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.368 (Fisher's exact test), Q value = 1

Table S434.  Gene #44: 'BTK MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
BTK MUTATED 0 6 3 3
BTK WILD-TYPE 27 52 31 46
'BTK MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.00131 (Fisher's exact test), Q value = 1

Table S435.  Gene #44: 'BTK MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
BTK MUTATED 4 11 1
BTK WILD-TYPE 89 71 102

Figure S38.  Get High-res Image Gene #44: 'BTK MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'BTK MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.275 (Fisher's exact test), Q value = 1

Table S436.  Gene #44: 'BTK MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
BTK MUTATED 2 13 1
BTK WILD-TYPE 61 154 47
'BTK MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.679 (Fisher's exact test), Q value = 1

Table S437.  Gene #44: 'BTK MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
BTK MUTATED 5 4 3 3 0
BTK WILD-TYPE 52 84 70 36 12
'BTK MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.229 (Fisher's exact test), Q value = 1

Table S438.  Gene #44: 'BTK MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
BTK MUTATED 1 6 2 6
BTK WILD-TYPE 72 65 32 85
'BTK MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.28 (Fisher's exact test), Q value = 1

Table S439.  Gene #44: 'BTK MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
BTK MUTATED 8 4 3
BTK WILD-TYPE 82 92 80
'BTK MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0741 (Fisher's exact test), Q value = 1

Table S440.  Gene #44: 'BTK MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
BTK MUTATED 6 8 0 1
BTK WILD-TYPE 108 71 53 22
'DSG3 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.598 (Fisher's exact test), Q value = 1

Table S441.  Gene #45: 'DSG3 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
DSG3 MUTATED 16 7 10 14
DSG3 WILD-TYPE 66 44 37 84
'DSG3 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.959 (Fisher's exact test), Q value = 1

Table S442.  Gene #45: 'DSG3 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
DSG3 MUTATED 17 17 13
DSG3 WILD-TYPE 84 88 59
'DSG3 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0706 (Fisher's exact test), Q value = 1

Table S443.  Gene #45: 'DSG3 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
DSG3 MUTATED 7 6 4 12
DSG3 WILD-TYPE 39 52 22 26
'DSG3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.795 (Fisher's exact test), Q value = 1

Table S444.  Gene #45: 'DSG3 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
DSG3 MUTATED 5 10 4 10
DSG3 WILD-TYPE 22 48 30 39
'DSG3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.81 (Fisher's exact test), Q value = 1

Table S445.  Gene #45: 'DSG3 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
DSG3 MUTATED 17 12 18
DSG3 WILD-TYPE 76 70 85
'DSG3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.81 (Fisher's exact test), Q value = 1

Table S446.  Gene #45: 'DSG3 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
DSG3 MUTATED 12 28 7
DSG3 WILD-TYPE 51 139 41
'DSG3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.376 (Fisher's exact test), Q value = 1

Table S447.  Gene #45: 'DSG3 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
DSG3 MUTATED 11 19 11 3 2
DSG3 WILD-TYPE 46 69 62 36 10
'DSG3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.595 (Fisher's exact test), Q value = 1

Table S448.  Gene #45: 'DSG3 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
DSG3 MUTATED 14 13 3 16
DSG3 WILD-TYPE 59 58 31 75
'DSG3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.199 (Fisher's exact test), Q value = 1

Table S449.  Gene #45: 'DSG3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
DSG3 MUTATED 12 22 12
DSG3 WILD-TYPE 78 74 71
'DSG3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.18 (Fisher's exact test), Q value = 1

Table S450.  Gene #45: 'DSG3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
DSG3 MUTATED 25 13 7 1
DSG3 WILD-TYPE 89 66 46 22
'C1QTNF9 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.452 (Fisher's exact test), Q value = 1

Table S451.  Gene #46: 'C1QTNF9 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
C1QTNF9 MUTATED 5 5 1 5
C1QTNF9 WILD-TYPE 77 46 46 93
'C1QTNF9 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.391 (Fisher's exact test), Q value = 1

Table S452.  Gene #46: 'C1QTNF9 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
C1QTNF9 MUTATED 6 8 2
C1QTNF9 WILD-TYPE 95 97 70
'C1QTNF9 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.646 (Fisher's exact test), Q value = 1

Table S453.  Gene #46: 'C1QTNF9 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
C1QTNF9 MUTATED 2 5 2 1
C1QTNF9 WILD-TYPE 44 53 24 37
'C1QTNF9 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.791 (Fisher's exact test), Q value = 1

Table S454.  Gene #46: 'C1QTNF9 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
C1QTNF9 MUTATED 1 4 3 2
C1QTNF9 WILD-TYPE 26 54 31 47
'C1QTNF9 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 1 (Fisher's exact test), Q value = 1

Table S455.  Gene #46: 'C1QTNF9 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
C1QTNF9 MUTATED 5 5 6
C1QTNF9 WILD-TYPE 88 77 97
'C1QTNF9 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.442 (Fisher's exact test), Q value = 1

Table S456.  Gene #46: 'C1QTNF9 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
C1QTNF9 MUTATED 3 12 1
C1QTNF9 WILD-TYPE 60 155 47
'C1QTNF9 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.509 (Fisher's exact test), Q value = 1

Table S457.  Gene #46: 'C1QTNF9 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
C1QTNF9 MUTATED 4 3 6 1 1
C1QTNF9 WILD-TYPE 53 85 67 38 11
'C1QTNF9 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.134 (Fisher's exact test), Q value = 1

Table S458.  Gene #46: 'C1QTNF9 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
C1QTNF9 MUTATED 2 7 0 6
C1QTNF9 WILD-TYPE 71 64 34 85
'C1QTNF9 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.316 (Fisher's exact test), Q value = 1

Table S459.  Gene #46: 'C1QTNF9 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
C1QTNF9 MUTATED 5 3 7
C1QTNF9 WILD-TYPE 85 93 76
'C1QTNF9 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0971 (Fisher's exact test), Q value = 1

Table S460.  Gene #46: 'C1QTNF9 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
C1QTNF9 MUTATED 4 9 2 0
C1QTNF9 WILD-TYPE 110 70 51 23
'BLM MUTATION STATUS' versus 'CN_CNMF'

P value = 0.653 (Fisher's exact test), Q value = 1

Table S461.  Gene #47: 'BLM MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
BLM MUTATED 6 2 1 6
BLM WILD-TYPE 76 49 46 92
'BLM MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.595 (Fisher's exact test), Q value = 1

Table S462.  Gene #47: 'BLM MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
BLM MUTATED 7 4 4
BLM WILD-TYPE 94 101 68
'BLM MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.367 (Fisher's exact test), Q value = 1

Table S463.  Gene #47: 'BLM MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
BLM MUTATED 1 6 1 3
BLM WILD-TYPE 45 52 25 35
'BLM MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.401 (Fisher's exact test), Q value = 1

Table S464.  Gene #47: 'BLM MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
BLM MUTATED 1 3 1 6
BLM WILD-TYPE 26 55 33 43
'BLM MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.172 (Fisher's exact test), Q value = 1

Table S465.  Gene #47: 'BLM MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
BLM MUTATED 4 2 9
BLM WILD-TYPE 89 80 94
'BLM MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.656 (Fisher's exact test), Q value = 1

Table S466.  Gene #47: 'BLM MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
BLM MUTATED 4 10 1
BLM WILD-TYPE 59 157 47
'BLM MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0879 (Fisher's exact test), Q value = 1

Table S467.  Gene #47: 'BLM MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
BLM MUTATED 1 8 1 3 1
BLM WILD-TYPE 56 80 72 36 11
'BLM MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.447 (Fisher's exact test), Q value = 1

Table S468.  Gene #47: 'BLM MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
BLM MUTATED 5 3 0 6
BLM WILD-TYPE 68 68 34 85
'BLM MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.225 (Fisher's exact test), Q value = 1

Table S469.  Gene #47: 'BLM MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
BLM MUTATED 4 8 2
BLM WILD-TYPE 86 88 81
'BLM MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0332 (Fisher's exact test), Q value = 1

Table S470.  Gene #47: 'BLM MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
BLM MUTATED 11 3 0 0
BLM WILD-TYPE 103 76 53 23

Figure S39.  Get High-res Image Gene #47: 'BLM MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'ACSM2B MUTATION STATUS' versus 'CN_CNMF'

P value = 0.94 (Fisher's exact test), Q value = 1

Table S471.  Gene #48: 'ACSM2B MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
ACSM2B MUTATED 13 8 6 17
ACSM2B WILD-TYPE 69 43 41 81
'ACSM2B MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0926 (Fisher's exact test), Q value = 1

Table S472.  Gene #48: 'ACSM2B MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
ACSM2B MUTATED 17 21 6
ACSM2B WILD-TYPE 84 84 66
'ACSM2B MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.329 (Fisher's exact test), Q value = 1

Table S473.  Gene #48: 'ACSM2B MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
ACSM2B MUTATED 9 7 7 5
ACSM2B WILD-TYPE 37 51 19 33
'ACSM2B MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.303 (Fisher's exact test), Q value = 1

Table S474.  Gene #48: 'ACSM2B MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
ACSM2B MUTATED 7 6 6 9
ACSM2B WILD-TYPE 20 52 28 40
'ACSM2B MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.127 (Fisher's exact test), Q value = 1

Table S475.  Gene #48: 'ACSM2B MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
ACSM2B MUTATED 10 12 22
ACSM2B WILD-TYPE 83 70 81
'ACSM2B MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.256 (Fisher's exact test), Q value = 1

Table S476.  Gene #48: 'ACSM2B MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
ACSM2B MUTATED 12 28 4
ACSM2B WILD-TYPE 51 139 44
'ACSM2B MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.468 (Fisher's exact test), Q value = 1

Table S477.  Gene #48: 'ACSM2B MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
ACSM2B MUTATED 11 18 9 4 1
ACSM2B WILD-TYPE 46 70 64 35 11
'ACSM2B MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.666 (Fisher's exact test), Q value = 1

Table S478.  Gene #48: 'ACSM2B MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
ACSM2B MUTATED 15 10 4 14
ACSM2B WILD-TYPE 58 61 30 77
'ACSM2B MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.462 (Fisher's exact test), Q value = 1

Table S479.  Gene #48: 'ACSM2B MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
ACSM2B MUTATED 13 19 11
ACSM2B WILD-TYPE 77 77 72
'ACSM2B MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.612 (Fisher's exact test), Q value = 1

Table S480.  Gene #48: 'ACSM2B MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
ACSM2B MUTATED 22 12 7 2
ACSM2B WILD-TYPE 92 67 46 21
'PARM1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.578 (Fisher's exact test), Q value = 1

Table S481.  Gene #49: 'PARM1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
PARM1 MUTATED 6 4 1 8
PARM1 WILD-TYPE 76 47 46 90
'PARM1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.914 (Fisher's exact test), Q value = 1

Table S482.  Gene #49: 'PARM1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
PARM1 MUTATED 7 8 4
PARM1 WILD-TYPE 94 97 68
'PARM1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.364 (Fisher's exact test), Q value = 1

Table S483.  Gene #49: 'PARM1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
PARM1 MUTATED 5 3 4 2
PARM1 WILD-TYPE 41 55 22 36
'PARM1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.357 (Fisher's exact test), Q value = 1

Table S484.  Gene #49: 'PARM1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
PARM1 MUTATED 4 6 1 3
PARM1 WILD-TYPE 23 52 33 46
'PARM1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.8 (Fisher's exact test), Q value = 1

Table S485.  Gene #49: 'PARM1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
PARM1 MUTATED 6 7 6
PARM1 WILD-TYPE 87 75 97
'PARM1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1 (Fisher's exact test), Q value = 1

Table S486.  Gene #49: 'PARM1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
PARM1 MUTATED 4 12 3
PARM1 WILD-TYPE 59 155 45
'PARM1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.496 (Fisher's exact test), Q value = 1

Table S487.  Gene #49: 'PARM1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
PARM1 MUTATED 2 5 8 3 0
PARM1 WILD-TYPE 55 83 65 36 12
'PARM1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.183 (Fisher's exact test), Q value = 1

Table S488.  Gene #49: 'PARM1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
PARM1 MUTATED 2 8 3 5
PARM1 WILD-TYPE 71 63 31 86
'PARM1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.509 (Fisher's exact test), Q value = 1

Table S489.  Gene #49: 'PARM1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
PARM1 MUTATED 5 5 8
PARM1 WILD-TYPE 85 91 75
'PARM1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.425 (Fisher's exact test), Q value = 1

Table S490.  Gene #49: 'PARM1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
PARM1 MUTATED 6 8 2 2
PARM1 WILD-TYPE 108 71 51 21
'TP63 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.123 (Fisher's exact test), Q value = 1

Table S491.  Gene #50: 'TP63 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
TP63 MUTATED 17 11 3 17
TP63 WILD-TYPE 65 40 44 81
'TP63 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.108 (Fisher's exact test), Q value = 1

Table S492.  Gene #50: 'TP63 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
TP63 MUTATED 24 14 10
TP63 WILD-TYPE 77 91 62
'TP63 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0428 (Fisher's exact test), Q value = 1

Table S493.  Gene #50: 'TP63 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
TP63 MUTATED 11 6 1 9
TP63 WILD-TYPE 35 52 25 29

Figure S40.  Get High-res Image Gene #50: 'TP63 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

'TP63 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.276 (Fisher's exact test), Q value = 1

Table S494.  Gene #50: 'TP63 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
TP63 MUTATED 6 10 7 4
TP63 WILD-TYPE 21 48 27 45
'TP63 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.252 (Fisher's exact test), Q value = 1

Table S495.  Gene #50: 'TP63 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
TP63 MUTATED 13 12 23
TP63 WILD-TYPE 80 70 80
'TP63 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.137 (Fisher's exact test), Q value = 1

Table S496.  Gene #50: 'TP63 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
TP63 MUTATED 8 35 5
TP63 WILD-TYPE 55 132 43
'TP63 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.393 (Fisher's exact test), Q value = 1

Table S497.  Gene #50: 'TP63 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
TP63 MUTATED 8 19 8 8 2
TP63 WILD-TYPE 49 69 65 31 10
'TP63 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.775 (Fisher's exact test), Q value = 1

Table S498.  Gene #50: 'TP63 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
TP63 MUTATED 11 14 4 16
TP63 WILD-TYPE 62 57 30 75
'TP63 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.426 (Fisher's exact test), Q value = 1

Table S499.  Gene #50: 'TP63 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
TP63 MUTATED 14 20 11
TP63 WILD-TYPE 76 76 72
'TP63 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0712 (Fisher's exact test), Q value = 1

Table S500.  Gene #50: 'TP63 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
TP63 MUTATED 24 14 3 4
TP63 WILD-TYPE 90 65 50 19
'NGF MUTATION STATUS' versus 'CN_CNMF'

P value = 0.334 (Fisher's exact test), Q value = 1

Table S501.  Gene #51: 'NGF MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
NGF MUTATED 5 1 0 3
NGF WILD-TYPE 77 50 47 95
'NGF MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.917 (Fisher's exact test), Q value = 1

Table S502.  Gene #51: 'NGF MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
NGF MUTATED 4 3 2
NGF WILD-TYPE 97 102 70
'NGF MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0756 (Fisher's exact test), Q value = 1

Table S503.  Gene #51: 'NGF MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
NGF MUTATED 4 1 0 0
NGF WILD-TYPE 42 57 26 38
'NGF MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 1 (Fisher's exact test), Q value = 1

Table S504.  Gene #51: 'NGF MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
NGF MUTATED 1 2 1 1
NGF WILD-TYPE 26 56 33 48
'NGF MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.693 (Fisher's exact test), Q value = 1

Table S505.  Gene #51: 'NGF MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
NGF MUTATED 4 3 2
NGF WILD-TYPE 89 79 101
'NGF MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.719 (Fisher's exact test), Q value = 1

Table S506.  Gene #51: 'NGF MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
NGF MUTATED 3 5 1
NGF WILD-TYPE 60 162 47
'NGF MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.758 (Fisher's exact test), Q value = 1

Table S507.  Gene #51: 'NGF MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
NGF MUTATED 1 2 4 1 0
NGF WILD-TYPE 56 86 69 38 12
'NGF MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.827 (Fisher's exact test), Q value = 1

Table S508.  Gene #51: 'NGF MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
NGF MUTATED 3 1 1 3
NGF WILD-TYPE 70 70 33 88
'NGF MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.907 (Fisher's exact test), Q value = 1

Table S509.  Gene #51: 'NGF MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
NGF MUTATED 2 3 3
NGF WILD-TYPE 88 93 80
'NGF MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.374 (Fisher's exact test), Q value = 1

Table S510.  Gene #51: 'NGF MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
NGF MUTATED 3 1 3 1
NGF WILD-TYPE 111 78 50 22
'ANO4 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.709 (Fisher's exact test), Q value = 1

Table S511.  Gene #52: 'ANO4 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
ANO4 MUTATED 11 7 8 19
ANO4 WILD-TYPE 71 44 39 79
'ANO4 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.331 (Fisher's exact test), Q value = 1

Table S512.  Gene #52: 'ANO4 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
ANO4 MUTATED 20 17 8
ANO4 WILD-TYPE 81 88 64
'ANO4 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.28 (Fisher's exact test), Q value = 1

Table S513.  Gene #52: 'ANO4 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
ANO4 MUTATED 10 8 2 9
ANO4 WILD-TYPE 36 50 24 29
'ANO4 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.779 (Fisher's exact test), Q value = 1

Table S514.  Gene #52: 'ANO4 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
ANO4 MUTATED 4 9 8 8
ANO4 WILD-TYPE 23 49 26 41
'ANO4 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.435 (Fisher's exact test), Q value = 1

Table S515.  Gene #52: 'ANO4 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
ANO4 MUTATED 13 17 15
ANO4 WILD-TYPE 80 65 88
'ANO4 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.581 (Fisher's exact test), Q value = 1

Table S516.  Gene #52: 'ANO4 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
ANO4 MUTATED 12 24 9
ANO4 WILD-TYPE 51 143 39
'ANO4 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.851 (Fisher's exact test), Q value = 1

Table S517.  Gene #52: 'ANO4 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
ANO4 MUTATED 12 14 11 5 2
ANO4 WILD-TYPE 45 74 62 34 10
'ANO4 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.968 (Fisher's exact test), Q value = 1

Table S518.  Gene #52: 'ANO4 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
ANO4 MUTATED 13 12 5 14
ANO4 WILD-TYPE 60 59 29 77
'ANO4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.476 (Fisher's exact test), Q value = 1

Table S519.  Gene #52: 'ANO4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
ANO4 MUTATED 18 15 11
ANO4 WILD-TYPE 72 81 72
'ANO4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.426 (Fisher's exact test), Q value = 1

Table S520.  Gene #52: 'ANO4 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
ANO4 MUTATED 22 14 5 3
ANO4 WILD-TYPE 92 65 48 20
'PCDH18 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.298 (Fisher's exact test), Q value = 1

Table S521.  Gene #53: 'PCDH18 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
PCDH18 MUTATED 16 10 4 20
PCDH18 WILD-TYPE 66 41 43 78
'PCDH18 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.98 (Fisher's exact test), Q value = 1

Table S522.  Gene #53: 'PCDH18 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
PCDH18 MUTATED 19 18 13
PCDH18 WILD-TYPE 82 87 59
'PCDH18 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0151 (Fisher's exact test), Q value = 1

Table S523.  Gene #53: 'PCDH18 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
PCDH18 MUTATED 12 8 1 12
PCDH18 WILD-TYPE 34 50 25 26

Figure S41.  Get High-res Image Gene #53: 'PCDH18 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

'PCDH18 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.715 (Fisher's exact test), Q value = 1

Table S524.  Gene #53: 'PCDH18 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
PCDH18 MUTATED 4 14 7 8
PCDH18 WILD-TYPE 23 44 27 41
'PCDH18 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.351 (Fisher's exact test), Q value = 1

Table S525.  Gene #53: 'PCDH18 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
PCDH18 MUTATED 15 19 16
PCDH18 WILD-TYPE 78 63 87
'PCDH18 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1 (Fisher's exact test), Q value = 1

Table S526.  Gene #53: 'PCDH18 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
PCDH18 MUTATED 11 30 9
PCDH18 WILD-TYPE 52 137 39
'PCDH18 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.378 (Fisher's exact test), Q value = 1

Table S527.  Gene #53: 'PCDH18 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
PCDH18 MUTATED 10 18 16 5 0
PCDH18 WILD-TYPE 47 70 57 34 12
'PCDH18 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.371 (Fisher's exact test), Q value = 1

Table S528.  Gene #53: 'PCDH18 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
PCDH18 MUTATED 11 18 5 15
PCDH18 WILD-TYPE 62 53 29 76
'PCDH18 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 1 (Fisher's exact test), Q value = 1

Table S529.  Gene #53: 'PCDH18 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
PCDH18 MUTATED 16 18 15
PCDH18 WILD-TYPE 74 78 68
'PCDH18 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.171 (Fisher's exact test), Q value = 1

Table S530.  Gene #53: 'PCDH18 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
PCDH18 MUTATED 22 19 5 3
PCDH18 WILD-TYPE 92 60 48 20
'NMS MUTATION STATUS' versus 'CN_CNMF'

P value = 0.9 (Fisher's exact test), Q value = 1

Table S531.  Gene #54: 'NMS MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
NMS MUTATED 3 2 2 6
NMS WILD-TYPE 79 49 45 92
'NMS MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.316 (Fisher's exact test), Q value = 1

Table S532.  Gene #54: 'NMS MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
NMS MUTATED 5 7 1
NMS WILD-TYPE 96 98 71
'NMS MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.311 (Fisher's exact test), Q value = 1

Table S533.  Gene #54: 'NMS MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
NMS MUTATED 4 1 2 3
NMS WILD-TYPE 42 57 24 35
'NMS MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.912 (Fisher's exact test), Q value = 1

Table S534.  Gene #54: 'NMS MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
NMS MUTATED 2 4 2 2
NMS WILD-TYPE 25 54 32 47
'NMS MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0106 (Fisher's exact test), Q value = 1

Table S535.  Gene #54: 'NMS MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
NMS MUTATED 2 9 2
NMS WILD-TYPE 91 73 101

Figure S42.  Get High-res Image Gene #54: 'NMS MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

'NMS MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.239 (Fisher's exact test), Q value = 1

Table S536.  Gene #54: 'NMS MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
NMS MUTATED 3 10 0
NMS WILD-TYPE 60 157 48
'NMS MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.921 (Fisher's exact test), Q value = 1

Table S537.  Gene #54: 'NMS MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
NMS MUTATED 4 4 4 1 0
NMS WILD-TYPE 53 84 69 38 12
'NMS MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.876 (Fisher's exact test), Q value = 1

Table S538.  Gene #54: 'NMS MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
NMS MUTATED 3 3 1 6
NMS WILD-TYPE 70 68 33 85
'NMS MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.938 (Fisher's exact test), Q value = 1

Table S539.  Gene #54: 'NMS MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
NMS MUTATED 5 4 4
NMS WILD-TYPE 85 92 79
'NMS MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1 (Fisher's exact test), Q value = 1

Table S540.  Gene #54: 'NMS MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
NMS MUTATED 6 4 2 1
NMS WILD-TYPE 108 75 51 22
'C12ORF43 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.755 (Fisher's exact test), Q value = 1

Table S541.  Gene #55: 'C12ORF43 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
C12ORF43 MUTATED 1 1 0 3
C12ORF43 WILD-TYPE 81 50 47 95
'C12ORF43 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.444 (Fisher's exact test), Q value = 1

Table S542.  Gene #55: 'C12ORF43 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
C12ORF43 MUTATED 2 3 0
C12ORF43 WILD-TYPE 99 102 72
'C12ORF43 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.195 (Fisher's exact test), Q value = 1

Table S543.  Gene #55: 'C12ORF43 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
C12ORF43 MUTATED 2 0 0 2
C12ORF43 WILD-TYPE 44 58 26 36
'C12ORF43 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.269 (Fisher's exact test), Q value = 1

Table S544.  Gene #55: 'C12ORF43 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
C12ORF43 MUTATED 1 1 2 0
C12ORF43 WILD-TYPE 26 57 32 49
'C12ORF43 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.741 (Fisher's exact test), Q value = 1

Table S545.  Gene #55: 'C12ORF43 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
C12ORF43 MUTATED 2 2 1
C12ORF43 WILD-TYPE 91 80 102
'C12ORF43 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.679 (Fisher's exact test), Q value = 1

Table S546.  Gene #55: 'C12ORF43 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
C12ORF43 MUTATED 0 4 1
C12ORF43 WILD-TYPE 63 163 47
'C12ORF43 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.894 (Fisher's exact test), Q value = 1

Table S547.  Gene #55: 'C12ORF43 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
C12ORF43 MUTATED 1 1 2 1 0
C12ORF43 WILD-TYPE 56 87 71 38 12
'C12ORF43 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.494 (Fisher's exact test), Q value = 1

Table S548.  Gene #55: 'C12ORF43 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
C12ORF43 MUTATED 0 2 1 2
C12ORF43 WILD-TYPE 73 69 33 89
'C12ORF43 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.743 (Fisher's exact test), Q value = 1

Table S549.  Gene #55: 'C12ORF43 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
C12ORF43 MUTATED 2 1 2
C12ORF43 WILD-TYPE 88 95 81
'C12ORF43 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.212 (Fisher's exact test), Q value = 1

Table S550.  Gene #55: 'C12ORF43 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
C12ORF43 MUTATED 1 3 0 1
C12ORF43 WILD-TYPE 113 76 53 22
'XIRP2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.387 (Fisher's exact test), Q value = 1

Table S551.  Gene #56: 'XIRP2 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
XIRP2 MUTATED 29 13 14 38
XIRP2 WILD-TYPE 53 38 33 60
'XIRP2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.406 (Fisher's exact test), Q value = 1

Table S552.  Gene #56: 'XIRP2 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
XIRP2 MUTATED 38 36 20
XIRP2 WILD-TYPE 63 69 52
'XIRP2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.202 (Fisher's exact test), Q value = 1

Table S553.  Gene #56: 'XIRP2 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
XIRP2 MUTATED 18 15 11 17
XIRP2 WILD-TYPE 28 43 15 21
'XIRP2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.722 (Fisher's exact test), Q value = 1

Table S554.  Gene #56: 'XIRP2 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
XIRP2 MUTATED 9 19 12 21
XIRP2 WILD-TYPE 18 39 22 28
'XIRP2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.557 (Fisher's exact test), Q value = 1

Table S555.  Gene #56: 'XIRP2 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
XIRP2 MUTATED 29 26 39
XIRP2 WILD-TYPE 64 56 64
'XIRP2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.377 (Fisher's exact test), Q value = 1

Table S556.  Gene #56: 'XIRP2 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
XIRP2 MUTATED 26 53 15
XIRP2 WILD-TYPE 37 114 33
'XIRP2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.626 (Fisher's exact test), Q value = 1

Table S557.  Gene #56: 'XIRP2 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
XIRP2 MUTATED 20 29 23 16 2
XIRP2 WILD-TYPE 37 59 50 23 10
'XIRP2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.656 (Fisher's exact test), Q value = 1

Table S558.  Gene #56: 'XIRP2 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
XIRP2 MUTATED 24 25 14 27
XIRP2 WILD-TYPE 49 46 20 64
'XIRP2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.91 (Fisher's exact test), Q value = 1

Table S559.  Gene #56: 'XIRP2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
XIRP2 MUTATED 31 33 26
XIRP2 WILD-TYPE 59 63 57
'XIRP2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.234 (Fisher's exact test), Q value = 1

Table S560.  Gene #56: 'XIRP2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
XIRP2 MUTATED 43 24 13 10
XIRP2 WILD-TYPE 71 55 40 13
'USH2A MUTATION STATUS' versus 'CN_CNMF'

P value = 0.895 (Fisher's exact test), Q value = 1

Table S561.  Gene #57: 'USH2A MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
USH2A MUTATED 28 15 14 34
USH2A WILD-TYPE 54 36 33 64
'USH2A MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.377 (Fisher's exact test), Q value = 1

Table S562.  Gene #57: 'USH2A MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
USH2A MUTATED 38 33 20
USH2A WILD-TYPE 63 72 52
'USH2A MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0673 (Fisher's exact test), Q value = 1

Table S563.  Gene #57: 'USH2A MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
USH2A MUTATED 18 14 12 18
USH2A WILD-TYPE 28 44 14 20
'USH2A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.823 (Fisher's exact test), Q value = 1

Table S564.  Gene #57: 'USH2A MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
USH2A MUTATED 11 20 11 20
USH2A WILD-TYPE 16 38 23 29
'USH2A MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.574 (Fisher's exact test), Q value = 1

Table S565.  Gene #57: 'USH2A MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
USH2A MUTATED 27 30 34
USH2A WILD-TYPE 66 52 69
'USH2A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.268 (Fisher's exact test), Q value = 1

Table S566.  Gene #57: 'USH2A MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
USH2A MUTATED 23 57 11
USH2A WILD-TYPE 40 110 37
'USH2A MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.524 (Fisher's exact test), Q value = 1

Table S567.  Gene #57: 'USH2A MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
USH2A MUTATED 20 30 19 16 3
USH2A WILD-TYPE 37 58 54 23 9
'USH2A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.208 (Fisher's exact test), Q value = 1

Table S568.  Gene #57: 'USH2A MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
USH2A MUTATED 28 23 14 23
USH2A WILD-TYPE 45 48 20 68
'USH2A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.345 (Fisher's exact test), Q value = 1

Table S569.  Gene #57: 'USH2A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
USH2A MUTATED 33 33 22
USH2A WILD-TYPE 57 63 61
'USH2A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0394 (Fisher's exact test), Q value = 1

Table S570.  Gene #57: 'USH2A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
USH2A MUTATED 44 27 9 8
USH2A WILD-TYPE 70 52 44 15

Figure S43.  Get High-res Image Gene #57: 'USH2A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

'DDX3X MUTATION STATUS' versus 'CN_CNMF'

P value = 0.497 (Fisher's exact test), Q value = 1

Table S571.  Gene #58: 'DDX3X MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
DDX3X MUTATED 5 2 2 10
DDX3X WILD-TYPE 77 49 45 88
'DDX3X MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 1 (Fisher's exact test), Q value = 1

Table S572.  Gene #58: 'DDX3X MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
DDX3X MUTATED 7 7 5
DDX3X WILD-TYPE 94 98 67
'DDX3X MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.578 (Fisher's exact test), Q value = 1

Table S573.  Gene #58: 'DDX3X MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
DDX3X MUTATED 5 4 1 5
DDX3X WILD-TYPE 41 54 25 33
'DDX3X MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.187 (Fisher's exact test), Q value = 1

Table S574.  Gene #58: 'DDX3X MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
DDX3X MUTATED 5 4 1 5
DDX3X WILD-TYPE 22 54 33 44
'DDX3X MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.697 (Fisher's exact test), Q value = 1

Table S575.  Gene #58: 'DDX3X MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
DDX3X MUTATED 5 7 7
DDX3X WILD-TYPE 88 75 96
'DDX3X MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.28 (Fisher's exact test), Q value = 1

Table S576.  Gene #58: 'DDX3X MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
DDX3X MUTATED 6 12 1
DDX3X WILD-TYPE 57 155 47
'DDX3X MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.662 (Fisher's exact test), Q value = 1

Table S577.  Gene #58: 'DDX3X MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
DDX3X MUTATED 2 7 6 4 0
DDX3X WILD-TYPE 55 81 67 35 12
'DDX3X MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.515 (Fisher's exact test), Q value = 1

Table S578.  Gene #58: 'DDX3X MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
DDX3X MUTATED 5 3 4 7
DDX3X WILD-TYPE 68 68 30 84
'DDX3X MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.761 (Fisher's exact test), Q value = 1

Table S579.  Gene #58: 'DDX3X MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
DDX3X MUTATED 5 7 7
DDX3X WILD-TYPE 85 89 76
'DDX3X MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.534 (Fisher's exact test), Q value = 1

Table S580.  Gene #58: 'DDX3X MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
DDX3X MUTATED 10 3 4 2
DDX3X WILD-TYPE 104 76 49 21
'PTPN22 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.464 (Fisher's exact test), Q value = 1

Table S581.  Gene #59: 'PTPN22 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
PTPN22 MUTATED 4 6 4 10
PTPN22 WILD-TYPE 78 45 43 88
'PTPN22 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.106 (Fisher's exact test), Q value = 1

Table S582.  Gene #59: 'PTPN22 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
PTPN22 MUTATED 11 11 2
PTPN22 WILD-TYPE 90 94 70
'PTPN22 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.439 (Fisher's exact test), Q value = 1

Table S583.  Gene #59: 'PTPN22 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
PTPN22 MUTATED 3 5 0 4
PTPN22 WILD-TYPE 43 53 26 34
'PTPN22 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0254 (Fisher's exact test), Q value = 1

Table S584.  Gene #59: 'PTPN22 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
PTPN22 MUTATED 1 9 0 2
PTPN22 WILD-TYPE 26 49 34 47

Figure S44.  Get High-res Image Gene #59: 'PTPN22 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

'PTPN22 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.554 (Fisher's exact test), Q value = 1

Table S585.  Gene #59: 'PTPN22 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
PTPN22 MUTATED 6 9 9
PTPN22 WILD-TYPE 87 73 94
'PTPN22 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.323 (Fisher's exact test), Q value = 1

Table S586.  Gene #59: 'PTPN22 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
PTPN22 MUTATED 4 18 2
PTPN22 WILD-TYPE 59 149 46
'PTPN22 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.624 (Fisher's exact test), Q value = 1

Table S587.  Gene #59: 'PTPN22 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
PTPN22 MUTATED 5 8 4 5 0
PTPN22 WILD-TYPE 52 80 69 34 12
'PTPN22 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.801 (Fisher's exact test), Q value = 1

Table S588.  Gene #59: 'PTPN22 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
PTPN22 MUTATED 6 6 4 6
PTPN22 WILD-TYPE 67 65 30 85
'PTPN22 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.21 (Fisher's exact test), Q value = 1

Table S589.  Gene #59: 'PTPN22 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
PTPN22 MUTATED 11 7 4
PTPN22 WILD-TYPE 79 89 79
'PTPN22 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.484 (Fisher's exact test), Q value = 1

Table S590.  Gene #59: 'PTPN22 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
PTPN22 MUTATED 10 7 2 3
PTPN22 WILD-TYPE 104 72 51 20
'C3ORF71 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.515 (Fisher's exact test), Q value = 1

Table S591.  Gene #60: 'C3ORF71 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
C3ORF71 MUTATED 0 1 1 2
C3ORF71 WILD-TYPE 82 50 46 96
'C3ORF71 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.306 (Fisher's exact test), Q value = 1

Table S592.  Gene #60: 'C3ORF71 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
C3ORF71 MUTATED 0 2 2
C3ORF71 WILD-TYPE 101 103 70
'C3ORF71 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.482 (Fisher's exact test), Q value = 1

Table S593.  Gene #60: 'C3ORF71 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
C3ORF71 MUTATED 1 3 0 0
C3ORF71 WILD-TYPE 45 55 26 38
'C3ORF71 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.522 (Fisher's exact test), Q value = 1

Table S594.  Gene #60: 'C3ORF71 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
C3ORF71 MUTATED 1 2 1 0
C3ORF71 WILD-TYPE 26 56 33 49
'C3ORF71 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.151 (Fisher's exact test), Q value = 1

Table S595.  Gene #60: 'C3ORF71 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
C3ORF71 MUTATED 3 1 0
C3ORF71 WILD-TYPE 90 81 103
'C3ORF71 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.173 (Fisher's exact test), Q value = 1

Table S596.  Gene #60: 'C3ORF71 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
C3ORF71 MUTATED 0 2 2
C3ORF71 WILD-TYPE 63 165 46
'C3ORF71 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.858 (Fisher's exact test), Q value = 1

Table S597.  Gene #60: 'C3ORF71 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
C3ORF71 MUTATED 1 1 2 0 0
C3ORF71 WILD-TYPE 56 87 71 39 12
'C3ORF71 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.158 (Fisher's exact test), Q value = 1

Table S598.  Gene #60: 'C3ORF71 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
C3ORF71 MUTATED 1 3 0 0
C3ORF71 WILD-TYPE 72 68 34 91
'C3ORF71 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.693 (Fisher's exact test), Q value = 1

Table S599.  Gene #60: 'C3ORF71 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
C3ORF71 MUTATED 1 1 2
C3ORF71 WILD-TYPE 89 95 81
'C3ORF71 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.381 (Fisher's exact test), Q value = 1

Table S600.  Gene #60: 'C3ORF71 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
C3ORF71 MUTATED 1 3 0 0
C3ORF71 WILD-TYPE 113 76 53 23
'CEACAM6 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.712 (Fisher's exact test), Q value = 1

Table S601.  Gene #61: 'CEACAM6 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
CEACAM6 MUTATED 4 3 1 7
CEACAM6 WILD-TYPE 78 48 46 91
'CEACAM6 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.418 (Fisher's exact test), Q value = 1

Table S602.  Gene #61: 'CEACAM6 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
CEACAM6 MUTATED 8 4 3
CEACAM6 WILD-TYPE 93 101 69
'CEACAM6 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.923 (Fisher's exact test), Q value = 1

Table S603.  Gene #61: 'CEACAM6 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
CEACAM6 MUTATED 3 5 1 2
CEACAM6 WILD-TYPE 43 53 25 36
'CEACAM6 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.739 (Fisher's exact test), Q value = 1

Table S604.  Gene #61: 'CEACAM6 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
CEACAM6 MUTATED 1 3 2 5
CEACAM6 WILD-TYPE 26 55 32 44
'CEACAM6 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.895 (Fisher's exact test), Q value = 1

Table S605.  Gene #61: 'CEACAM6 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
CEACAM6 MUTATED 6 4 5
CEACAM6 WILD-TYPE 87 78 98
'CEACAM6 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.571 (Fisher's exact test), Q value = 1

Table S606.  Gene #61: 'CEACAM6 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
CEACAM6 MUTATED 3 8 4
CEACAM6 WILD-TYPE 60 159 44
'CEACAM6 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.47 (Fisher's exact test), Q value = 1

Table S607.  Gene #61: 'CEACAM6 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
CEACAM6 MUTATED 2 8 3 1 1
CEACAM6 WILD-TYPE 55 80 70 38 11
'CEACAM6 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.754 (Fisher's exact test), Q value = 1

Table S608.  Gene #61: 'CEACAM6 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
CEACAM6 MUTATED 3 4 1 7
CEACAM6 WILD-TYPE 70 67 33 84
'CEACAM6 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.398 (Fisher's exact test), Q value = 1

Table S609.  Gene #61: 'CEACAM6 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
CEACAM6 MUTATED 4 8 3
CEACAM6 WILD-TYPE 86 88 80
'CEACAM6 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.297 (Fisher's exact test), Q value = 1

Table S610.  Gene #61: 'CEACAM6 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
CEACAM6 MUTATED 10 3 1 1
CEACAM6 WILD-TYPE 104 76 52 22
'MUC7 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.782 (Fisher's exact test), Q value = 1

Table S611.  Gene #62: 'MUC7 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
MUC7 MUTATED 7 3 2 5
MUC7 WILD-TYPE 75 48 45 93
'MUC7 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.318 (Fisher's exact test), Q value = 1

Table S612.  Gene #62: 'MUC7 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
MUC7 MUTATED 9 4 4
MUC7 WILD-TYPE 92 101 68
'MUC7 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.579 (Fisher's exact test), Q value = 1

Table S613.  Gene #62: 'MUC7 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
MUC7 MUTATED 1 5 1 2
MUC7 WILD-TYPE 45 53 25 36
'MUC7 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.744 (Fisher's exact test), Q value = 1

Table S614.  Gene #62: 'MUC7 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
MUC7 MUTATED 1 2 2 4
MUC7 WILD-TYPE 26 56 32 45
'MUC7 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.862 (Fisher's exact test), Q value = 1

Table S615.  Gene #62: 'MUC7 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
MUC7 MUTATED 5 6 6
MUC7 WILD-TYPE 88 76 97
'MUC7 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.067 (Fisher's exact test), Q value = 1

Table S616.  Gene #62: 'MUC7 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
MUC7 MUTATED 8 7 2
MUC7 WILD-TYPE 55 160 46
'MUC7 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0506 (Fisher's exact test), Q value = 1

Table S617.  Gene #62: 'MUC7 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
MUC7 MUTATED 6 7 1 0 0
MUC7 WILD-TYPE 51 81 72 39 12
'MUC7 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.404 (Fisher's exact test), Q value = 1

Table S618.  Gene #62: 'MUC7 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
MUC7 MUTATED 6 3 0 5
MUC7 WILD-TYPE 67 68 34 86
'MUC7 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0915 (Fisher's exact test), Q value = 1

Table S619.  Gene #62: 'MUC7 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
MUC7 MUTATED 5 8 1
MUC7 WILD-TYPE 85 88 82
'MUC7 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.464 (Fisher's exact test), Q value = 1

Table S620.  Gene #62: 'MUC7 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
MUC7 MUTATED 9 3 2 0
MUC7 WILD-TYPE 105 76 51 23
'SELP MUTATION STATUS' versus 'CN_CNMF'

P value = 0.267 (Fisher's exact test), Q value = 1

Table S621.  Gene #63: 'SELP MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
SELP MUTATED 15 4 4 11
SELP WILD-TYPE 67 47 43 87
'SELP MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0847 (Fisher's exact test), Q value = 1

Table S622.  Gene #63: 'SELP MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
SELP MUTATED 18 8 8
SELP WILD-TYPE 83 97 64
'SELP MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0387 (Fisher's exact test), Q value = 1

Table S623.  Gene #63: 'SELP MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
SELP MUTATED 9 4 0 5
SELP WILD-TYPE 37 54 26 33

Figure S45.  Get High-res Image Gene #63: 'SELP MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

'SELP MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0729 (Fisher's exact test), Q value = 1

Table S624.  Gene #63: 'SELP MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
SELP MUTATED 3 9 5 1
SELP WILD-TYPE 24 49 29 48
'SELP MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.461 (Fisher's exact test), Q value = 1

Table S625.  Gene #63: 'SELP MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
SELP MUTATED 12 7 15
SELP WILD-TYPE 81 75 88
'SELP MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.87 (Fisher's exact test), Q value = 1

Table S626.  Gene #63: 'SELP MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
SELP MUTATED 7 20 7
SELP WILD-TYPE 56 147 41
'SELP MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.864 (Fisher's exact test), Q value = 1

Table S627.  Gene #63: 'SELP MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
SELP MUTATED 6 12 7 5 2
SELP WILD-TYPE 51 76 66 34 10
'SELP MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.408 (Fisher's exact test), Q value = 1

Table S628.  Gene #63: 'SELP MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
SELP MUTATED 5 9 4 14
SELP WILD-TYPE 68 62 30 77
'SELP MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.817 (Fisher's exact test), Q value = 1

Table S629.  Gene #63: 'SELP MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
SELP MUTATED 12 10 10
SELP WILD-TYPE 78 86 73
'SELP MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.729 (Fisher's exact test), Q value = 1

Table S630.  Gene #63: 'SELP MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
SELP MUTATED 14 11 4 3
SELP WILD-TYPE 100 68 49 20
'LIPH MUTATION STATUS' versus 'CN_CNMF'

P value = 0.479 (Fisher's exact test), Q value = 1

Table S631.  Gene #64: 'LIPH MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
LIPH MUTATED 6 4 2 3
LIPH WILD-TYPE 76 47 45 95
'LIPH MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.347 (Fisher's exact test), Q value = 1

Table S632.  Gene #64: 'LIPH MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
LIPH MUTATED 8 5 2
LIPH WILD-TYPE 93 100 70
'LIPH MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.256 (Fisher's exact test), Q value = 1

Table S633.  Gene #64: 'LIPH MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
LIPH MUTATED 4 2 0 4
LIPH WILD-TYPE 42 56 26 34
'LIPH MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.415 (Fisher's exact test), Q value = 1

Table S634.  Gene #64: 'LIPH MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
LIPH MUTATED 3 2 3 2
LIPH WILD-TYPE 24 56 31 47
'LIPH MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.796 (Fisher's exact test), Q value = 1

Table S635.  Gene #64: 'LIPH MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
LIPH MUTATED 4 4 7
LIPH WILD-TYPE 89 78 96
'LIPH MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.421 (Fisher's exact test), Q value = 1

Table S636.  Gene #64: 'LIPH MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
LIPH MUTATED 5 9 1
LIPH WILD-TYPE 58 158 47
'LIPH MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.831 (Fisher's exact test), Q value = 1

Table S637.  Gene #64: 'LIPH MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
LIPH MUTATED 2 6 5 1 0
LIPH WILD-TYPE 55 82 68 38 12
'LIPH MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.908 (Fisher's exact test), Q value = 1

Table S638.  Gene #64: 'LIPH MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
LIPH MUTATED 3 4 1 6
LIPH WILD-TYPE 70 67 33 85
'LIPH MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.617 (Fisher's exact test), Q value = 1

Table S639.  Gene #64: 'LIPH MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
LIPH MUTATED 3 6 5
LIPH WILD-TYPE 87 90 78
'LIPH MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.975 (Fisher's exact test), Q value = 1

Table S640.  Gene #64: 'LIPH MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
LIPH MUTATED 7 4 2 1
LIPH WILD-TYPE 107 75 51 22
'MMP1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0184 (Fisher's exact test), Q value = 1

Table S641.  Gene #65: 'MMP1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
MMP1 MUTATED 0 2 4 8
MMP1 WILD-TYPE 82 49 43 90

Figure S46.  Get High-res Image Gene #65: 'MMP1 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

'MMP1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.251 (Fisher's exact test), Q value = 1

Table S642.  Gene #65: 'MMP1 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
MMP1 MUTATED 8 3 3
MMP1 WILD-TYPE 93 102 69
'MMP1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.76 (Fisher's exact test), Q value = 1

Table S643.  Gene #65: 'MMP1 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
MMP1 MUTATED 1 2 0 2
MMP1 WILD-TYPE 45 56 26 36
'MMP1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.868 (Fisher's exact test), Q value = 1

Table S644.  Gene #65: 'MMP1 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
MMP1 MUTATED 1 1 1 2
MMP1 WILD-TYPE 26 57 33 47
'MMP1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.835 (Fisher's exact test), Q value = 1

Table S645.  Gene #65: 'MMP1 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
MMP1 MUTATED 5 3 6
MMP1 WILD-TYPE 88 79 97
'MMP1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.502 (Fisher's exact test), Q value = 1

Table S646.  Gene #65: 'MMP1 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
MMP1 MUTATED 3 7 4
MMP1 WILD-TYPE 60 160 44
'MMP1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.39 (Fisher's exact test), Q value = 1

Table S647.  Gene #65: 'MMP1 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
MMP1 MUTATED 4 4 5 0 1
MMP1 WILD-TYPE 53 84 68 39 11
'MMP1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0569 (Fisher's exact test), Q value = 1

Table S648.  Gene #65: 'MMP1 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
MMP1 MUTATED 1 7 0 6
MMP1 WILD-TYPE 72 64 34 85
'MMP1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.94 (Fisher's exact test), Q value = 1

Table S649.  Gene #65: 'MMP1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
MMP1 MUTATED 4 5 5
MMP1 WILD-TYPE 86 91 78
'MMP1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.395 (Fisher's exact test), Q value = 1

Table S650.  Gene #65: 'MMP1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
MMP1 MUTATED 7 6 1 0
MMP1 WILD-TYPE 107 73 52 23
'KLF11 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.275 (Fisher's exact test), Q value = 1

Table S651.  Gene #66: 'KLF11 MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
KLF11 MUTATED 2 1 0 6
KLF11 WILD-TYPE 80 50 47 92
'KLF11 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0702 (Fisher's exact test), Q value = 1

Table S652.  Gene #66: 'KLF11 MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
KLF11 MUTATED 6 3 0
KLF11 WILD-TYPE 95 102 72
'KLF11 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.841 (Fisher's exact test), Q value = 1

Table S653.  Gene #66: 'KLF11 MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
KLF11 MUTATED 2 3 0 1
KLF11 WILD-TYPE 44 55 26 37
'KLF11 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0258 (Fisher's exact test), Q value = 1

Table S654.  Gene #66: 'KLF11 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
KLF11 MUTATED 2 0 0 4
KLF11 WILD-TYPE 25 58 34 45

Figure S47.  Get High-res Image Gene #66: 'KLF11 MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

'KLF11 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.583 (Fisher's exact test), Q value = 1

Table S655.  Gene #66: 'KLF11 MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 93 82 103
KLF11 MUTATED 2 2 5
KLF11 WILD-TYPE 91 80 98
'KLF11 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.891 (Fisher's exact test), Q value = 1

Table S656.  Gene #66: 'KLF11 MUTATION STATUS' versus Molecular Subtype #6: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 63 167 48
KLF11 MUTATED 2 5 2
KLF11 WILD-TYPE 61 162 46
'KLF11 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.934 (Fisher's exact test), Q value = 1

Table S657.  Gene #66: 'KLF11 MUTATION STATUS' versus Molecular Subtype #7: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 57 88 73 39 12
KLF11 MUTATED 3 3 2 1 0
KLF11 WILD-TYPE 54 85 71 38 12
'KLF11 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.929 (Fisher's exact test), Q value = 1

Table S658.  Gene #66: 'KLF11 MUTATION STATUS' versus Molecular Subtype #8: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 73 71 34 91
KLF11 MUTATED 2 2 1 4
KLF11 WILD-TYPE 71 69 33 87
'KLF11 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.913 (Fisher's exact test), Q value = 1

Table S659.  Gene #66: 'KLF11 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 90 96 83
KLF11 MUTATED 3 4 2
KLF11 WILD-TYPE 87 92 81
'KLF11 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.439 (Fisher's exact test), Q value = 1

Table S660.  Gene #66: 'KLF11 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 114 79 53 23
KLF11 MUTATED 5 3 0 1
KLF11 WILD-TYPE 109 76 53 22
'USP9X MUTATION STATUS' versus 'CN_CNMF'

P value = 0.212 (Fisher's exact test), Q value = 1

Table S661.  Gene #67: 'USP9X MUTATION STATUS' versus Molecular Subtype #1: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 82 51 47 98
USP9X MUTATED 7 3 0 6
USP9X WILD-TYPE 75 48 47 92
'USP9X MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.185 (Fisher's exact test), Q value = 1

Table S662.  Gene #67: 'USP9X MUTATION STATUS' versus Molecular Subtype #2: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 101 105 72
USP9X MUTATED 9 3 4
USP9X WILD-TYPE 92 102 68
'USP9X MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.213 (Fisher's exact test), Q value = 1

Table S663.  Gene #67: 'USP9X MUTATION STATUS' versus Molecular Subtype #3: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 46 58 26 38
USP9X MUTATED 1 4 0 4
USP9X WILD-TYPE 45 54 26 34
'USP9X MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.148 (Fisher's exact test), Q value = 1

Table S664.  Gene #67: 'USP9X MUTATION STATUS' versus Molecular Subtype #4: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 27 58 34 49
USP9X MUTATED 0 5 0 4
USP9X WILD-TYPE 27 53 34 45
'USP9X MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 1 (Fisher's exact test), Q value = 1

Table S665.  Gene #67: 'USP9X MUTATION STATUS' versus Molecular Subtype #5: 'MRNASEQ_CNMF'

nPatients CLUS