Correlation between gene mutation status and molecular subtypes
Lung Adenocarcinoma (Primary solid tumor)
28 January 2016  |  analyses__2016_01_28
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 (2016): Correlation between gene mutation status and molecular subtypes. Broad Institute of MIT and Harvard. doi:10.7908/C1MW2GKS
Overview
Introduction

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

Summary

Testing the association between mutation status of 90 genes and 12 molecular subtypes across 481 patients, 64 significant findings detected with P value < 0.05 and Q value < 0.25.

  • TP53 mutation correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • KRAS mutation correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • KEAP1 mutation correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • EGFR mutation correlated to 'CN_CNMF',  'RPPA_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CHIERARCHICAL'.

  • STK11 mutation correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.

  • RB1 mutation correlated to 'MRNASEQ_CHIERARCHICAL'.

  • NF1 mutation correlated to 'CN_CNMF'.

  • SMARCA4 mutation correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • SETD2 mutation correlated to 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • ATM mutation correlated to 'CN_CNMF',  'METHLYATION_CNMF', and 'MRNASEQ_CHIERARCHICAL'.

  • PTPRU mutation correlated to 'MIRSEQ_CNMF' and 'MIRSEQ_CHIERARCHICAL'.

  • ZNF608 mutation correlated to 'MRNASEQ_CHIERARCHICAL'.

  • TRERF1 mutation correlated to 'MIRSEQ_CNMF'.

  • STRA8 mutation correlated to 'RPPA_CNMF' and 'MIRSEQ_CNMF'.

  • WDR66 mutation correlated to 'RPPA_CNMF'.

  • TGFBR3 mutation correlated to 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • HSPA8 mutation correlated to 'MIRSEQ_CNMF'.

  • DSC2 mutation correlated to 'RPPA_CNMF' and 'RPPA_CHIERARCHICAL'.

  • DOT1L mutation correlated to 'MRNASEQ_CHIERARCHICAL'.

  • DLX5 mutation correlated to 'MIRSEQ_CNMF'.

  • A2M mutation correlated to 'MIRSEQ_CNMF'.

  • SND1 mutation correlated to 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • ADAMTS2 mutation correlated to 'METHLYATION_CNMF' and 'MIRSEQ_CHIERARCHICAL'.

Results
Overview of the results

Table 1.  Get Full Table Overview of the association between mutation status of 90 genes and 12 molecular subtypes. Shown in the table are P values (Q values). Thresholded by P value < 0.05 and Q value < 0.25, 64 significant findings detected.

Clinical
Features
MRNA
CNMF
MRNA
CHIERARCHICAL
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 Fisher's exact test Fisher's exact test
TP53 256 (53%) 225 0.0841
(0.548)
0.148
(0.642)
1e-05
(0.00054)
2e-05
(9e-04)
0.00015
(0.0054)
1e-05
(0.00054)
1e-05
(0.00054)
1e-05
(0.00054)
1e-05
(0.00054)
1e-05
(0.00054)
1e-05
(0.00054)
1e-05
(0.00054)
KEAP1 84 (17%) 397 1e-05
(0.00054)
1e-05
(0.00054)
0.00071
(0.0219)
0.37
(0.861)
1e-05
(0.00054)
1e-05
(0.00054)
0.112
(0.582)
0.00018
(0.00627)
0.119
(0.582)
0.00842
(0.156)
STK11 77 (16%) 404 1e-05
(0.00054)
0.00088
(0.0264)
2e-05
(9e-04)
0.0974
(0.559)
1e-05
(0.00054)
1e-05
(0.00054)
0.787
(1.00)
7e-05
(0.00291)
0.00184
(0.051)
0.0383
(0.401)
SMARCA4 38 (8%) 443 0.00258
(0.0648)
1e-05
(0.00054)
0.509
(0.966)
0.108
(0.582)
8e-05
(0.00309)
1e-05
(0.00054)
0.0085
(0.156)
0.00135
(0.0384)
0.115
(0.582)
2e-05
(9e-04)
KRAS 150 (31%) 331 1
(1.00)
1
(1.00)
1e-05
(0.00054)
0.00473
(0.0984)
0.313
(0.801)
0.12
(0.582)
0.435
(0.905)
1e-05
(0.00054)
0.00772
(0.15)
8e-05
(0.00309)
0.501
(0.962)
0.0695
(0.501)
EGFR 67 (14%) 414 1e-05
(0.00054)
0.416
(0.884)
0.00195
(0.0516)
0.021
(0.302)
6e-05
(0.00259)
2e-05
(9e-04)
0.0211
(0.302)
0.00055
(0.018)
0.278
(0.772)
0.031
(0.376)
ATM 42 (9%) 439 0.00304
(0.073)
0.00474
(0.0984)
0.331
(0.815)
0.934
(1.00)
0.0702
(0.502)
0.00062
(0.0197)
0.744
(1.00)
0.0353
(0.392)
0.11
(0.582)
0.732
(1.00)
PTPRU 18 (4%) 463 0.02
(0.299)
0.158
(0.659)
0.102
(0.574)
0.0262
(0.337)
0.0518
(0.46)
0.0626
(0.473)
0.00298
(0.073)
0.00527
(0.107)
0.226
(0.745)
0.11
(0.582)
STRA8 8 (2%) 473 0.0327
(0.384)
0.0979
(0.559)
0.00869
(0.156)
0.0233
(0.314)
0.267
(0.757)
0.0342
(0.388)
0.00834
(0.156)
0.175
(0.687)
0.331
(0.815)
0.211
(0.722)
DSC2 20 (4%) 461 0.509
(0.966)
0.201
(0.715)
0.00248
(0.0638)
0.00444
(0.0959)
0.581
(1.00)
0.877
(1.00)
0.316
(0.802)
0.487
(0.957)
0.178
(0.695)
0.538
(0.992)
ADAMTS2 39 (8%) 442 0.103
(0.574)
0.00125
(0.0365)
0.898
(1.00)
0.188
(0.704)
0.254
(0.757)
0.816
(1.00)
0.112
(0.582)
0.0129
(0.221)
0.648
(1.00)
0.967
(1.00)
RB1 26 (5%) 455 0.0607
(0.473)
0.0861
(0.548)
0.184
(0.699)
0.43
(0.901)
0.295
(0.78)
0.00013
(0.00484)
0.132
(0.6)
0.0948
(0.559)
0.434
(0.905)
0.622
(1.00)
NF1 55 (11%) 426 1
(1.00)
0.792
(1.00)
0.0033
(0.0775)
0.592
(1.00)
0.0623
(0.473)
0.481
(0.954)
0.0455
(0.434)
0.261
(0.757)
0.233
(0.745)
0.115
(0.582)
0.244
(0.757)
0.161
(0.659)
SETD2 30 (6%) 451 0.611
(1.00)
0.281
(0.774)
0.613
(1.00)
0.68
(1.00)
0.634
(1.00)
0.224
(0.745)
0.161
(0.659)
0.0583
(0.473)
0.0728
(0.506)
0.00196
(0.0516)
ZNF608 9 (2%) 472 0.463
(0.932)
0.586
(1.00)
0.232
(0.745)
1
(1.00)
0.464
(0.932)
0.00901
(0.16)
0.683
(1.00)
0.69
(1.00)
0.034
(0.388)
0.233
(0.745)
TRERF1 18 (4%) 463 0.0676
(0.49)
0.405
(0.881)
0.294
(0.78)
0.657
(1.00)
0.255
(0.757)
0.305
(0.788)
0.0115
(0.201)
0.0437
(0.432)
0.123
(0.589)
0.228
(0.745)
WDR66 14 (3%) 467 0.765
(1.00)
0.257
(0.757)
0.00371
(0.0835)
0.106
(0.582)
0.0239
(0.315)
0.487
(0.957)
0.129
(0.596)
0.335
(0.815)
0.36
(0.844)
0.15
(0.642)
TGFBR3 14 (3%) 467 0.237
(0.75)
0.231
(0.745)
0.797
(1.00)
0.142
(0.627)
0.519
(0.976)
0.229
(0.745)
0.0286
(0.355)
0.101
(0.572)
0.27
(0.757)
0.0134
(0.227)
HSPA8 9 (2%) 472 0.365
(0.851)
0.272
(0.76)
0.426
(0.897)
1
(1.00)
0.751
(1.00)
0.222
(0.745)
0.00343
(0.0788)
0.394
(0.881)
0.815
(1.00)
0.78
(1.00)
DOT1L 14 (3%) 467 0.308
(0.789)
0.237
(0.75)
0.061
(0.473)
0.227
(0.745)
0.193
(0.71)
0.00744
(0.149)
0.78
(1.00)
0.0778
(0.518)
0.41
(0.881)
0.52
(0.976)
DLX5 13 (3%) 468 0.314
(0.801)
0.873
(1.00)
0.0894
(0.551)
0.32
(0.81)
0.503
(0.962)
0.721
(1.00)
0.00423
(0.0932)
0.337
(0.815)
0.286
(0.779)
0.174
(0.687)
A2M 20 (4%) 461 0.121
(0.583)
0.409
(0.881)
0.203
(0.715)
0.388
(0.876)
0.0153
(0.255)
0.0532
(0.462)
0.0003
(0.0101)
0.0358
(0.392)
0.631
(1.00)
0.191
(0.708)
SND1 16 (3%) 465 0.203
(0.715)
0.122
(0.585)
0.853
(1.00)
0.0198
(0.299)
0.0599
(0.473)
0.023
(0.314)
0.0349
(0.392)
0.147
(0.642)
0.108
(0.582)
0.00776
(0.15)
RBM10 33 (7%) 448 0.0731
(0.506)
0.108
(0.582)
0.281
(0.774)
0.456
(0.923)
0.18
(0.695)
0.774
(1.00)
0.796
(1.00)
0.0441
(0.432)
0.743
(1.00)
0.766
(1.00)
ARID1A 30 (6%) 451 0.904
(1.00)
0.666
(1.00)
0.467
(0.936)
0.699
(1.00)
0.667
(1.00)
0.879
(1.00)
0.464
(0.932)
0.0949
(0.559)
0.635
(1.00)
0.335
(0.815)
BRAF 39 (8%) 442 0.775
(1.00)
1
(1.00)
0.785
(1.00)
0.0498
(0.455)
0.572
(1.00)
0.895
(1.00)
0.241
(0.75)
0.383
(0.873)
0.457
(0.923)
0.0472
(0.439)
0.87
(1.00)
0.061
(0.473)
MGA 40 (8%) 441 0.892
(1.00)
0.156
(0.659)
0.723
(1.00)
0.104
(0.577)
0.111
(0.582)
0.154
(0.653)
0.0235
(0.314)
0.118
(0.582)
0.415
(0.884)
0.189
(0.704)
FTSJD1 24 (5%) 457 0.41
(0.881)
0.327
(0.815)
0.929
(1.00)
0.382
(0.873)
0.438
(0.909)
0.288
(0.779)
0.613
(1.00)
0.506
(0.963)
0.231
(0.745)
0.153
(0.653)
MET 21 (4%) 460 0.0657
(0.486)
0.669
(1.00)
0.456
(0.923)
0.267
(0.757)
0.119
(0.582)
0.629
(1.00)
0.119
(0.582)
0.208
(0.716)
0.723
(1.00)
0.17
(0.684)
GAGE2A 8 (2%) 473 0.433
(0.904)
0.676
(1.00)
0.72
(1.00)
0.483
(0.956)
0.375
(0.866)
0.577
(1.00)
0.268
(0.757)
0.494
(0.962)
0.962
(1.00)
0.722
(1.00)
U2AF1 11 (2%) 470 0.346
(0.831)
0.762
(1.00)
0.0582
(0.473)
0.683
(1.00)
0.0466
(0.438)
0.127
(0.593)
0.0322
(0.384)
0.778
(1.00)
0.241
(0.75)
0.287
(0.779)
ERBB2 11 (2%) 470 0.445
(0.912)
0.159
(0.659)
0.174
(0.687)
1
(1.00)
0.302
(0.788)
0.137
(0.615)
0.676
(1.00)
0.193
(0.71)
0.626
(1.00)
0.198
(0.715)
CDKN2A 16 (3%) 465 0.319
(0.81)
0.662
(1.00)
0.82
(1.00)
0.689
(1.00)
0.0326
(0.384)
0.203
(0.715)
1
(1.00)
0.922
(1.00)
0.202
(0.715)
0.71
(1.00)
SRPX 14 (3%) 467 0.898
(1.00)
0.228
(0.745)
0.638
(1.00)
0.0392
(0.407)
0.15
(0.642)
0.912
(1.00)
0.502
(0.962)
0.0524
(0.46)
0.687
(1.00)
0.352
(0.836)
TCEAL5 13 (3%) 468 0.837
(1.00)
0.502
(0.962)
0.331
(0.815)
0.926
(1.00)
0.647
(1.00)
0.868
(1.00)
0.475
(0.945)
0.502
(0.962)
0.996
(1.00)
0.858
(1.00)
PPP3CA 12 (2%) 469 0.39
(0.878)
0.404
(0.881)
0.64
(1.00)
0.807
(1.00)
0.406
(0.881)
0.0159
(0.26)
0.0983
(0.559)
0.17
(0.684)
0.957
(1.00)
0.709
(1.00)
FCRLA 15 (3%) 466 0.28
(0.774)
0.238
(0.75)
0.847
(1.00)
0.333
(0.815)
0.472
(0.941)
0.375
(0.866)
1
(1.00)
0.894
(1.00)
0.45
(0.92)
0.132
(0.6)
ARID2 24 (5%) 457 0.173
(0.687)
0.0575
(0.473)
0.827
(1.00)
1
(1.00)
0.975
(1.00)
0.0908
(0.551)
0.0836
(0.548)
0.118
(0.582)
0.239
(0.75)
0.0888
(0.551)
APC 20 (4%) 461 0.57
(1.00)
0.333
(0.815)
0.89
(1.00)
0.882
(1.00)
0.184
(0.699)
0.221
(0.745)
0.0448
(0.432)
0.0617
(0.473)
0.695
(1.00)
0.201
(0.715)
ZEB1 32 (7%) 449 1
(1.00)
1
(1.00)
0.0752
(0.509)
0.439
(0.91)
0.769
(1.00)
0.875
(1.00)
0.966
(1.00)
0.476
(0.945)
0.429
(0.901)
0.158
(0.659)
0.888
(1.00)
0.824
(1.00)
SIP1 4 (1%) 477 0.0871
(0.548)
0.118
(0.582)
0.585
(1.00)
0.471
(0.941)
1
(1.00)
0.324
(0.813)
0.977
(1.00)
0.832
(1.00)
0.407
(0.881)
SLC4A3 18 (4%) 463 0.3
(0.788)
0.289
(0.779)
0.174
(0.687)
0.0606
(0.473)
0.0426
(0.432)
0.456
(0.923)
0.0948
(0.559)
0.475
(0.945)
0.0479
(0.443)
0.0608
(0.473)
STK19 5 (1%) 476 1
(1.00)
1
(1.00)
0.825
(1.00)
0.584
(1.00)
0.691
(1.00)
0.975
(1.00)
0.622
(1.00)
0.706
(1.00)
0.39
(0.878)
0.615
(1.00)
NUDT11 5 (1%) 476 0.163
(0.662)
1
(1.00)
0.623
(1.00)
0.831
(1.00)
0.112
(0.582)
0.305
(0.788)
0.0731
(0.506)
0.577
(1.00)
0.831
(1.00)
0.044
(0.432)
SLAMF9 12 (2%) 469 0.0873
(0.548)
0.0633
(0.475)
0.933
(1.00)
1
(1.00)
0.0862
(0.548)
0.599
(1.00)
0.0909
(0.551)
0.0167
(0.269)
0.643
(1.00)
0.639
(1.00)
DNMT3A 19 (4%) 462 0.161
(0.659)
0.388
(0.876)
0.577
(1.00)
0.294
(0.78)
0.207
(0.716)
0.557
(1.00)
0.332
(0.815)
0.497
(0.962)
0.259
(0.757)
0.0425
(0.432)
CTNNB1 19 (4%) 462 0.0215
(0.302)
0.126
(0.591)
0.0359
(0.392)
0.253
(0.757)
0.222
(0.745)
0.406
(0.881)
0.913
(1.00)
0.813
(1.00)
0.383
(0.873)
1
(1.00)
PIK3CA 28 (6%) 453 0.53
(0.986)
0.208
(0.716)
0.149
(0.642)
0.138
(0.619)
0.0197
(0.299)
0.0258
(0.335)
0.821
(1.00)
0.0872
(0.548)
0.11
(0.582)
0.202
(0.715)
STIM1 9 (2%) 472 0.257
(0.757)
0.181
(0.695)
0.877
(1.00)
0.862
(1.00)
0.115
(0.582)
0.269
(0.757)
0.257
(0.757)
0.261
(0.757)
0.672
(1.00)
0.779
(1.00)
EMG1 5 (1%) 476 0.184
(0.699)
0.555
(1.00)
0.292
(0.78)
0.496
(0.962)
0.749
(1.00)
0.294
(0.78)
0.27
(0.757)
0.262
(0.757)
0.226
(0.745)
0.314
(0.801)
PHKA1 12 (2%) 469 0.0368
(0.398)
0.115
(0.582)
0.693
(1.00)
0.78
(1.00)
0.249
(0.757)
0.353
(0.836)
0.326
(0.815)
0.354
(0.836)
0.516
(0.972)
0.0873
(0.548)
PAK1 9 (2%) 472 1
(1.00)
0.583
(1.00)
0.296
(0.781)
0.883
(1.00)
0.301
(0.788)
0.255
(0.757)
0.908
(1.00)
0.982
(1.00)
0.876
(1.00)
1
(1.00)
NRAS 3 (1%) 478 0.69
(1.00)
0.119
(0.582)
0.894
(1.00)
0.236
(0.75)
0.381
(0.873)
G3BP1 8 (2%) 473 0.215
(0.733)
0.683
(1.00)
0.931
(1.00)
0.336
(0.815)
0.771
(1.00)
0.831
(1.00)
0.903
(1.00)
0.804
(1.00)
0.259
(0.757)
0.431
(0.903)
CACNA1F 27 (6%) 454 0.457
(0.923)
0.648
(1.00)
0.203
(0.715)
0.819
(1.00)
0.125
(0.591)
0.0982
(0.559)
0.0236
(0.314)
0.599
(1.00)
0.241
(0.75)
0.739
(1.00)
NFE2L2 13 (3%) 468 0.923
(1.00)
0.711
(1.00)
0.268
(0.757)
0.249
(0.757)
0.349
(0.835)
0.038
(0.401)
0.747
(1.00)
0.232
(0.745)
0.351
(0.836)
0.759
(1.00)
RPL5 8 (2%) 473 0.0294
(0.36)
0.606
(1.00)
0.901
(1.00)
0.129
(0.596)
0.796
(1.00)
0.719
(1.00)
0.525
(0.981)
0.721
(1.00)
0.563
(1.00)
0.898
(1.00)
NLRP6 10 (2%) 471 0.13
(0.599)
0.294
(0.78)
0.0278
(0.35)
0.165
(0.667)
0.114
(0.582)
0.0192
(0.299)
0.148
(0.642)
0.0612
(0.473)
0.8
(1.00)
0.143
(0.629)
FAM65C 14 (3%) 467 0.374
(0.866)
0.882
(1.00)
0.0564
(0.473)
0.0545
(0.464)
0.93
(1.00)
0.69
(1.00)
0.207
(0.716)
0.701
(1.00)
0.722
(1.00)
0.0873
(0.548)
RIT1 8 (2%) 473 0.18
(0.695)
0.336
(0.815)
0.359
(0.843)
1
(1.00)
0.874
(1.00)
0.175
(0.687)
0.336
(0.815)
0.953
(1.00)
0.697
(1.00)
0.3
(0.788)
CXCR7 10 (2%) 471 0.41
(0.881)
0.0952
(0.559)
0.653
(1.00)
0.188
(0.704)
0.655
(1.00)
0.656
(1.00)
0.245
(0.757)
0.693
(1.00)
0.394
(0.881)
0.205
(0.716)
GAN 10 (2%) 471 0.692
(1.00)
0.818
(1.00)
0.891
(1.00)
0.838
(1.00)
0.397
(0.881)
0.404
(0.881)
0.494
(0.962)
0.678
(1.00)
0.862
(1.00)
0.407
(0.881)
TMEM49 5 (1%) 476 0.207
(0.716)
0.159
(0.659)
0.933
(1.00)
0.0901
(0.551)
0.689
(1.00)
0.224
(0.745)
0.624
(1.00)
0.625
(1.00)
0.637
(1.00)
0.724
(1.00)
CD244 12 (2%) 469 0.418
(0.888)
0.535
(0.989)
0.631
(1.00)
0.772
(1.00)
0.105
(0.579)
0.264
(0.757)
0.052
(0.46)
0.0768
(0.515)
0.26
(0.757)
0.288
(0.779)
KIF18B 4 (1%) 477 0.384
(0.874)
0.391
(0.879)
0.225
(0.745)
0.362
(0.845)
0.127
(0.593)
0.665
(1.00)
0.754
(1.00)
0.268
(0.757)
0.771
(1.00)
PDE6A 16 (3%) 465 0.659
(1.00)
0.71
(1.00)
1
(1.00)
0.12
(0.582)
0.104
(0.578)
0.0278
(0.35)
0.0625
(0.473)
0.0215
(0.302)
0.322
(0.811)
0.388
(0.876)
CHRND 16 (3%) 465 0.125
(0.591)
0.684
(1.00)
0.133
(0.6)
0.0924
(0.557)
0.665
(1.00)
0.202
(0.715)
0.383
(0.873)
0.261
(0.757)
0.816
(1.00)
1
(1.00)
KLK1 8 (2%) 473 0.0716
(0.506)
0.543
(0.996)
0.569
(1.00)
0.0382
(0.401)
0.549
(1.00)
0.646
(1.00)
0.181
(0.695)
0.0504
(0.456)
0.768
(1.00)
0.146
(0.641)
KLHL5 14 (3%) 467 0.535
(0.989)
0.661
(1.00)
0.76
(1.00)
0.0869
(0.548)
0.499
(0.962)
0.795
(1.00)
0.563
(1.00)
0.79
(1.00)
0.546
(0.999)
0.709
(1.00)
RNF160 15 (3%) 466 0.567
(1.00)
0.163
(0.662)
0.0207
(0.302)
0.126
(0.591)
0.231
(0.745)
0.413
(0.884)
0.414
(0.884)
0.263
(0.757)
0.858
(1.00)
0.284
(0.778)
AIFM1 12 (2%) 469 0.588
(1.00)
0.761
(1.00)
0.117
(0.582)
0.0644
(0.479)
0.204
(0.715)
0.493
(0.962)
0.351
(0.836)
0.0506
(0.456)
0.322
(0.811)
0.678
(1.00)
MCM9 3 (1%) 478 0.0199
(0.299)
0.918
(1.00)
0.765
(1.00)
1
(1.00)
0.613
(1.00)
NCKAP1L 19 (4%) 462 0.852
(1.00)
0.0962
(0.559)
0.77
(1.00)
0.621
(1.00)
0.514
(0.971)
0.213
(0.727)
0.0976
(0.559)
0.191
(0.708)
0.946
(1.00)
0.403
(0.881)
ESYT3 8 (2%) 473 0.38
(0.873)
1
(1.00)
0.23
(0.745)
0.259
(0.757)
0.671
(1.00)
0.536
(0.989)
0.306
(0.788)
0.307
(0.788)
0.788
(1.00)
0.408
(0.881)
MIA2 13 (3%) 468 0.344
(0.829)
0.407
(0.881)
0.95
(1.00)
0.139
(0.621)
0.0536
(0.462)
0.266
(0.757)
0.585
(1.00)
0.82
(1.00)
0.444
(0.912)
0.513
(0.97)
TUBB4 17 (4%) 464 0.654
(1.00)
0.849
(1.00)
0.666
(1.00)
0.452
(0.92)
0.674
(1.00)
0.805
(1.00)
0.529
(0.986)
0.587
(1.00)
0.395
(0.881)
0.2
(0.715)
ABHD12B 7 (1%) 474 0.834
(1.00)
0.25
(0.757)
0.625
(1.00)
1
(1.00)
0.785
(1.00)
0.834
(1.00)
0.0572
(0.473)
0.294
(0.78)
0.247
(0.757)
0.488
(0.957)
ANTXR1 19 (4%) 462 0.332
(0.815)
0.609
(1.00)
0.944
(1.00)
0.92
(1.00)
0.25
(0.757)
0.72
(1.00)
0.551
(1.00)
0.765
(1.00)
0.68
(1.00)
0.591
(1.00)
FLCN 9 (2%) 472 0.934
(1.00)
0.487
(0.957)
0.232
(0.745)
0.859
(1.00)
0.594
(1.00)
0.8
(1.00)
0.563
(1.00)
0.542
(0.996)
0.849
(1.00)
1
(1.00)
ZNF556 12 (2%) 469 0.259
(0.757)
0.268
(0.757)
0.734
(1.00)
0.881
(1.00)
0.0667
(0.488)
0.185
(0.7)
0.262
(0.757)
0.306
(0.788)
0.156
(0.659)
0.0334
(0.388)
ASCL3 7 (1%) 474 0.586
(1.00)
0.451
(0.92)
0.339
(0.818)
0.396
(0.881)
0.661
(1.00)
0.907
(1.00)
0.543
(0.996)
0.178
(0.695)
0.782
(1.00)
0.832
(1.00)
DSG3 33 (7%) 448 0.132
(0.6)
0.301
(0.788)
0.201
(0.715)
0.855
(1.00)
0.256
(0.757)
0.708
(1.00)
0.495
(0.962)
0.72
(1.00)
0.579
(1.00)
0.7
(1.00)
C5AR1 6 (1%) 475 0.423
(0.895)
0.337
(0.815)
0.304
(0.788)
0.851
(1.00)
0.523
(0.979)
0.59
(1.00)
0.585
(1.00)
0.197
(0.715)
0.41
(0.881)
0.16
(0.659)
ASXL2 18 (4%) 463 0.273
(0.762)
0.694
(1.00)
0.531
(0.986)
0.0754
(0.509)
0.357
(0.839)
0.715
(1.00)
0.426
(0.897)
0.51
(0.966)
0.0749
(0.509)
0.521
(0.976)
ATAD2 14 (3%) 467 0.87
(1.00)
0.0539
(0.462)
0.0972
(0.559)
0.491
(0.96)
0.371
(0.862)
0.276
(0.767)
0.442
(0.91)
0.0445
(0.432)
0.84
(1.00)
0.283
(0.777)
RAF1 6 (1%) 475 0.424
(0.896)
1
(1.00)
0.181
(0.695)
0.0721
(0.506)
0.442
(0.91)
0.554
(1.00)
0.867
(1.00)
0.12
(0.582)
0.0894
(0.551)
0.0458
(0.434)
C7ORF36 6 (1%) 475 0.623
(1.00)
0.568
(1.00)
0.442
(0.91)
0.852
(1.00)
0.653
(1.00)
0.354
(0.836)
1
(1.00)
0.289
(0.779)
0.0747
(0.509)
1
(1.00)
HTRA1 10 (2%) 471 0.866
(1.00)
0.613
(1.00)
0.502
(0.962)
0.687
(1.00)
0.918
(1.00)
0.761
(1.00)
0.843
(1.00)
0.531
(0.986)
0.706
(1.00)
0.76
(1.00)
TAF1L 50 (10%) 431 1
(1.00)
0.792
(1.00)
0.567
(1.00)
0.189
(0.704)
0.442
(0.91)
0.504
(0.962)
0.0668
(0.488)
0.284
(0.778)
0.0429
(0.432)
0.398
(0.881)
0.58
(1.00)
0.269
(0.757)
PLEKHB2 6 (1%) 475 1
(1.00)
0.337
(0.815)
0.696
(1.00)
0.408
(0.881)
0.142
(0.627)
0.356
(0.839)
0.662
(1.00)
0.235
(0.749)
0.412
(0.882)
0.49
(0.96)
'TP53 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.0841 (Fisher's exact test), Q value = 0.55

Table S1.  Gene #1: 'TP53 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 8 8 4
TP53 MUTATED 1 4 3
TP53 WILD-TYPE 7 4 1
'TP53 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.148 (Fisher's exact test), Q value = 0.64

Table S2.  Gene #1: 'TP53 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 7 9 4
TP53 MUTATED 1 4 3
TP53 WILD-TYPE 6 5 1
'TP53 MUTATION STATUS' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00054

Table S3.  Gene #1: 'TP53 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
TP53 MUTATED 108 81 28 37
TP53 WILD-TYPE 50 46 95 33

Figure S1.  Get High-res Image Gene #1: 'TP53 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'TP53 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 9e-04

Table S4.  Gene #1: 'TP53 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
TP53 MUTATED 93 98 43
TP53 WILD-TYPE 53 69 74

Figure S2.  Get High-res Image Gene #1: 'TP53 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'TP53 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.00015 (Fisher's exact test), Q value = 0.0054

Table S5.  Gene #1: 'TP53 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
TP53 MUTATED 52 10 18 46 50
TP53 WILD-TYPE 37 12 41 19 51

Figure S3.  Get High-res Image Gene #1: 'TP53 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

'TP53 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00054

Table S6.  Gene #1: 'TP53 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
TP53 MUTATED 62 86 28
TP53 WILD-TYPE 94 35 31

Figure S4.  Get High-res Image Gene #1: 'TP53 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'TP53 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00054

Table S7.  Gene #1: 'TP53 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
TP53 MUTATED 98 29 49 53 26
TP53 WILD-TYPE 29 80 37 52 25

Figure S5.  Get High-res Image Gene #1: 'TP53 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'TP53 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00054

Table S8.  Gene #1: 'TP53 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
TP53 MUTATED 19 80 73 6 19 26 32
TP53 WILD-TYPE 53 29 17 38 30 20 36

Figure S6.  Get High-res Image Gene #1: 'TP53 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'TP53 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00054

Table S9.  Gene #1: 'TP53 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
TP53 MUTATED 65 137 51
TP53 WILD-TYPE 107 68 48

Figure S7.  Get High-res Image Gene #1: 'TP53 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'TP53 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00054

Table S10.  Gene #1: 'TP53 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
TP53 MUTATED 22 11 93 56 65 6
TP53 WILD-TYPE 48 26 42 64 21 22

Figure S8.  Get High-res Image Gene #1: 'TP53 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'TP53 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00054

Table S11.  Gene #1: 'TP53 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
TP53 MUTATED 17 48 65 15 34 50
TP53 WILD-TYPE 38 37 32 27 26 23

Figure S9.  Get High-res Image Gene #1: 'TP53 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'TP53 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00054

Table S12.  Gene #1: 'TP53 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
TP53 MUTATED 34 143 52
TP53 WILD-TYPE 62 79 42

Figure S10.  Get High-res Image Gene #1: 'TP53 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'KRAS MUTATION STATUS' versus 'MRNA_CNMF'

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

Table S13.  Gene #2: 'KRAS MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 8 8 4
KRAS MUTATED 2 2 1
KRAS WILD-TYPE 6 6 3
'KRAS MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

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

Table S14.  Gene #2: 'KRAS MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 7 9 4
KRAS MUTATED 2 2 1
KRAS WILD-TYPE 5 7 3
'KRAS MUTATION STATUS' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00054

Table S15.  Gene #2: 'KRAS MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
KRAS MUTATED 28 43 53 26
KRAS WILD-TYPE 130 84 70 44

Figure S11.  Get High-res Image Gene #2: 'KRAS MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'KRAS MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.00473 (Fisher's exact test), Q value = 0.098

Table S16.  Gene #2: 'KRAS MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
KRAS MUTATED 37 68 30
KRAS WILD-TYPE 109 99 87

Figure S12.  Get High-res Image Gene #2: 'KRAS MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'KRAS MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.313 (Fisher's exact test), Q value = 0.8

Table S17.  Gene #2: 'KRAS MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
KRAS MUTATED 20 6 22 16 32
KRAS WILD-TYPE 69 16 37 49 69
'KRAS MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.12 (Fisher's exact test), Q value = 0.58

Table S18.  Gene #2: 'KRAS MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
KRAS MUTATED 48 27 21
KRAS WILD-TYPE 108 94 38
'KRAS MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.435 (Fisher's exact test), Q value = 0.9

Table S19.  Gene #2: 'KRAS MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
KRAS MUTATED 33 34 33 34 15
KRAS WILD-TYPE 94 75 53 71 36
'KRAS MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00054

Table S20.  Gene #2: 'KRAS MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
KRAS MUTATED 23 30 7 17 26 18 28
KRAS WILD-TYPE 49 79 83 27 23 28 40

Figure S13.  Get High-res Image Gene #2: 'KRAS MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'KRAS MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.00772 (Fisher's exact test), Q value = 0.15

Table S21.  Gene #2: 'KRAS MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
KRAS MUTATED 67 59 21
KRAS WILD-TYPE 105 146 78

Figure S14.  Get High-res Image Gene #2: 'KRAS MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'KRAS MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 8e-05 (Fisher's exact test), Q value = 0.0031

Table S22.  Gene #2: 'KRAS MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
KRAS MUTATED 29 17 42 43 12 4
KRAS WILD-TYPE 41 20 93 77 74 24

Figure S15.  Get High-res Image Gene #2: 'KRAS MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'KRAS MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.501 (Fisher's exact test), Q value = 0.96

Table S23.  Gene #2: 'KRAS MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
KRAS MUTATED 20 31 25 10 20 22
KRAS WILD-TYPE 35 54 72 32 40 51
'KRAS MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0695 (Fisher's exact test), Q value = 0.5

Table S24.  Gene #2: 'KRAS MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
KRAS MUTATED 39 64 25
KRAS WILD-TYPE 57 158 69
'KEAP1 MUTATION STATUS' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00054

Table S25.  Gene #3: 'KEAP1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
KEAP1 MUTATED 9 36 19 20
KEAP1 WILD-TYPE 149 91 104 50

Figure S16.  Get High-res Image Gene #3: 'KEAP1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'KEAP1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00054

Table S26.  Gene #3: 'KEAP1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
KEAP1 MUTATED 53 15 6
KEAP1 WILD-TYPE 93 152 111

Figure S17.  Get High-res Image Gene #3: 'KEAP1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'KEAP1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.00071 (Fisher's exact test), Q value = 0.022

Table S27.  Gene #3: 'KEAP1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
KEAP1 MUTATED 6 3 16 20 18
KEAP1 WILD-TYPE 83 19 43 45 83

Figure S18.  Get High-res Image Gene #3: 'KEAP1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

'KEAP1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.37 (Fisher's exact test), Q value = 0.86

Table S28.  Gene #3: 'KEAP1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
KEAP1 MUTATED 28 27 8
KEAP1 WILD-TYPE 128 94 51
'KEAP1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00054

Table S29.  Gene #3: 'KEAP1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
KEAP1 MUTATED 6 17 26 31 3
KEAP1 WILD-TYPE 121 92 60 74 48

Figure S19.  Get High-res Image Gene #3: 'KEAP1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'KEAP1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00054

Table S30.  Gene #3: 'KEAP1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
KEAP1 MUTATED 2 7 18 24 7 24 1
KEAP1 WILD-TYPE 70 102 72 20 42 22 67

Figure S20.  Get High-res Image Gene #3: 'KEAP1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'KEAP1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.112 (Fisher's exact test), Q value = 0.58

Table S31.  Gene #3: 'KEAP1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
KEAP1 MUTATED 32 39 10
KEAP1 WILD-TYPE 140 166 89
'KEAP1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00018 (Fisher's exact test), Q value = 0.0063

Table S32.  Gene #3: 'KEAP1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
KEAP1 MUTATED 20 4 24 11 22 0
KEAP1 WILD-TYPE 50 33 111 109 64 28

Figure S21.  Get High-res Image Gene #3: 'KEAP1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'KEAP1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.119 (Fisher's exact test), Q value = 0.58

Table S33.  Gene #3: 'KEAP1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
KEAP1 MUTATED 8 22 13 3 10 14
KEAP1 WILD-TYPE 47 63 84 39 50 59
'KEAP1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00842 (Fisher's exact test), Q value = 0.16

Table S34.  Gene #3: 'KEAP1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
KEAP1 MUTATED 16 47 7
KEAP1 WILD-TYPE 80 175 87

Figure S22.  Get High-res Image Gene #3: 'KEAP1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'EGFR MUTATION STATUS' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00054

Table S35.  Gene #4: 'EGFR MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
EGFR MUTATED 45 10 8 3
EGFR WILD-TYPE 113 117 115 67

Figure S23.  Get High-res Image Gene #4: 'EGFR MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'EGFR MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.416 (Fisher's exact test), Q value = 0.88

Table S36.  Gene #4: 'EGFR MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
EGFR MUTATED 18 20 20
EGFR WILD-TYPE 128 147 97
'EGFR MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.00195 (Fisher's exact test), Q value = 0.052

Table S37.  Gene #4: 'EGFR MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
EGFR MUTATED 18 7 11 3 9
EGFR WILD-TYPE 71 15 48 62 92

Figure S24.  Get High-res Image Gene #4: 'EGFR MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

'EGFR MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.021 (Fisher's exact test), Q value = 0.3

Table S38.  Gene #4: 'EGFR MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
EGFR MUTATED 30 15 3
EGFR WILD-TYPE 126 106 56

Figure S25.  Get High-res Image Gene #4: 'EGFR MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'EGFR MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 6e-05 (Fisher's exact test), Q value = 0.0026

Table S39.  Gene #4: 'EGFR MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
EGFR MUTATED 28 17 4 6 12
EGFR WILD-TYPE 99 92 82 99 39

Figure S26.  Get High-res Image Gene #4: 'EGFR MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'EGFR MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 9e-04

Table S40.  Gene #4: 'EGFR MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
EGFR MUTATED 16 16 22 0 1 1 11
EGFR WILD-TYPE 56 93 68 44 48 45 57

Figure S27.  Get High-res Image Gene #4: 'EGFR MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'EGFR MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0211 (Fisher's exact test), Q value = 0.3

Table S41.  Gene #4: 'EGFR MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
EGFR MUTATED 17 28 22
EGFR WILD-TYPE 155 177 77

Figure S28.  Get High-res Image Gene #4: 'EGFR MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'EGFR MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00055 (Fisher's exact test), Q value = 0.018

Table S42.  Gene #4: 'EGFR MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
EGFR MUTATED 4 8 17 16 10 12
EGFR WILD-TYPE 66 29 118 104 76 16

Figure S29.  Get High-res Image Gene #4: 'EGFR MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'EGFR MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.278 (Fisher's exact test), Q value = 0.77

Table S43.  Gene #4: 'EGFR MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
EGFR MUTATED 9 7 12 10 9 10
EGFR WILD-TYPE 46 78 85 32 51 63
'EGFR MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.031 (Fisher's exact test), Q value = 0.38

Table S44.  Gene #4: 'EGFR MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
EGFR MUTATED 10 26 21
EGFR WILD-TYPE 86 196 73

Figure S30.  Get High-res Image Gene #4: 'EGFR MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'STK11 MUTATION STATUS' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00054

Table S45.  Gene #5: 'STK11 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
STK11 MUTATED 5 26 21 25
STK11 WILD-TYPE 153 101 102 45

Figure S31.  Get High-res Image Gene #5: 'STK11 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'STK11 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.00088 (Fisher's exact test), Q value = 0.026

Table S46.  Gene #5: 'STK11 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
STK11 MUTATED 36 25 9
STK11 WILD-TYPE 110 142 108

Figure S32.  Get High-res Image Gene #5: 'STK11 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'STK11 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 9e-04

Table S47.  Gene #5: 'STK11 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
STK11 MUTATED 2 1 19 15 20
STK11 WILD-TYPE 87 21 40 50 81

Figure S33.  Get High-res Image Gene #5: 'STK11 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

'STK11 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0974 (Fisher's exact test), Q value = 0.56

Table S48.  Gene #5: 'STK11 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
STK11 MUTATED 27 15 15
STK11 WILD-TYPE 129 106 44
'STK11 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00054

Table S49.  Gene #5: 'STK11 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
STK11 MUTATED 1 20 18 32 4
STK11 WILD-TYPE 126 89 68 73 47

Figure S34.  Get High-res Image Gene #5: 'STK11 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'STK11 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00054

Table S50.  Gene #5: 'STK11 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
STK11 MUTATED 3 2 1 24 25 17 3
STK11 WILD-TYPE 69 107 89 20 24 29 65

Figure S35.  Get High-res Image Gene #5: 'STK11 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'STK11 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.787 (Fisher's exact test), Q value = 1

Table S51.  Gene #5: 'STK11 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
STK11 MUTATED 26 35 14
STK11 WILD-TYPE 146 170 85
'STK11 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 7e-05 (Fisher's exact test), Q value = 0.0029

Table S52.  Gene #5: 'STK11 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
STK11 MUTATED 20 11 20 9 15 0
STK11 WILD-TYPE 50 26 115 111 71 28

Figure S36.  Get High-res Image Gene #5: 'STK11 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'STK11 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00184 (Fisher's exact test), Q value = 0.051

Table S53.  Gene #5: 'STK11 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
STK11 MUTATED 8 27 11 9 5 9
STK11 WILD-TYPE 47 58 86 33 55 64

Figure S37.  Get High-res Image Gene #5: 'STK11 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'STK11 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0383 (Fisher's exact test), Q value = 0.4

Table S54.  Gene #5: 'STK11 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
STK11 MUTATED 17 44 8
STK11 WILD-TYPE 79 178 86

Figure S38.  Get High-res Image Gene #5: 'STK11 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'RBM10 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0731 (Fisher's exact test), Q value = 0.51

Table S55.  Gene #6: 'RBM10 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
RBM10 MUTATED 6 10 14 3
RBM10 WILD-TYPE 152 117 109 67
'RBM10 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.108 (Fisher's exact test), Q value = 0.58

Table S56.  Gene #6: 'RBM10 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
RBM10 MUTATED 8 16 4
RBM10 WILD-TYPE 138 151 113
'RBM10 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.281 (Fisher's exact test), Q value = 0.77

Table S57.  Gene #6: 'RBM10 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
RBM10 MUTATED 3 0 6 2 7
RBM10 WILD-TYPE 86 22 53 63 94
'RBM10 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.456 (Fisher's exact test), Q value = 0.92

Table S58.  Gene #6: 'RBM10 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
RBM10 MUTATED 10 4 4
RBM10 WILD-TYPE 146 117 55
'RBM10 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.18 (Fisher's exact test), Q value = 0.69

Table S59.  Gene #6: 'RBM10 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
RBM10 MUTATED 7 7 11 4 4
RBM10 WILD-TYPE 120 102 75 101 47
'RBM10 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.774 (Fisher's exact test), Q value = 1

Table S60.  Gene #6: 'RBM10 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
RBM10 MUTATED 3 8 7 2 2 5 6
RBM10 WILD-TYPE 69 101 83 42 47 41 62
'RBM10 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.796 (Fisher's exact test), Q value = 1

Table S61.  Gene #6: 'RBM10 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
RBM10 MUTATED 14 13 6
RBM10 WILD-TYPE 158 192 93
'RBM10 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0441 (Fisher's exact test), Q value = 0.43

Table S62.  Gene #6: 'RBM10 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
RBM10 MUTATED 10 2 4 7 9 1
RBM10 WILD-TYPE 60 35 131 113 77 27

Figure S39.  Get High-res Image Gene #6: 'RBM10 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'RBM10 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.743 (Fisher's exact test), Q value = 1

Table S63.  Gene #6: 'RBM10 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
RBM10 MUTATED 3 3 9 3 4 4
RBM10 WILD-TYPE 52 82 88 39 56 69
'RBM10 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.766 (Fisher's exact test), Q value = 1

Table S64.  Gene #6: 'RBM10 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
RBM10 MUTATED 5 16 5
RBM10 WILD-TYPE 91 206 89
'RB1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0607 (Fisher's exact test), Q value = 0.47

Table S65.  Gene #7: 'RB1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
RB1 MUTATED 14 4 3 5
RB1 WILD-TYPE 144 123 120 65
'RB1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0861 (Fisher's exact test), Q value = 0.55

Table S66.  Gene #7: 'RB1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
RB1 MUTATED 13 9 3
RB1 WILD-TYPE 133 158 114
'RB1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.184 (Fisher's exact test), Q value = 0.7

Table S67.  Gene #7: 'RB1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
RB1 MUTATED 4 2 4 6 2
RB1 WILD-TYPE 85 20 55 59 99
'RB1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.43 (Fisher's exact test), Q value = 0.9

Table S68.  Gene #7: 'RB1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
RB1 MUTATED 6 9 3
RB1 WILD-TYPE 150 112 56
'RB1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.295 (Fisher's exact test), Q value = 0.78

Table S69.  Gene #7: 'RB1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
RB1 MUTATED 8 6 1 8 3
RB1 WILD-TYPE 119 103 85 97 48
'RB1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00013 (Fisher's exact test), Q value = 0.0048

Table S70.  Gene #7: 'RB1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
RB1 MUTATED 2 2 16 0 1 1 4
RB1 WILD-TYPE 70 107 74 44 48 45 64

Figure S40.  Get High-res Image Gene #7: 'RB1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'RB1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.132 (Fisher's exact test), Q value = 0.6

Table S71.  Gene #7: 'RB1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
RB1 MUTATED 5 15 6
RB1 WILD-TYPE 167 190 93
'RB1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0948 (Fisher's exact test), Q value = 0.56

Table S72.  Gene #7: 'RB1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
RB1 MUTATED 0 1 7 9 8 1
RB1 WILD-TYPE 70 36 128 111 78 27
'RB1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.434 (Fisher's exact test), Q value = 0.9

Table S73.  Gene #7: 'RB1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
RB1 MUTATED 2 9 4 2 5 3
RB1 WILD-TYPE 53 76 93 40 55 70
'RB1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.622 (Fisher's exact test), Q value = 1

Table S74.  Gene #7: 'RB1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
RB1 MUTATED 5 16 4
RB1 WILD-TYPE 91 206 90
'ARID1A MUTATION STATUS' versus 'CN_CNMF'

P value = 0.904 (Fisher's exact test), Q value = 1

Table S75.  Gene #8: 'ARID1A MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
ARID1A MUTATED 9 7 9 5
ARID1A WILD-TYPE 149 120 114 65
'ARID1A MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.666 (Fisher's exact test), Q value = 1

Table S76.  Gene #8: 'ARID1A MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
ARID1A MUTATED 9 13 6
ARID1A WILD-TYPE 137 154 111
'ARID1A MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.467 (Fisher's exact test), Q value = 0.94

Table S77.  Gene #8: 'ARID1A MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
ARID1A MUTATED 3 0 3 4 9
ARID1A WILD-TYPE 86 22 56 61 92
'ARID1A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.699 (Fisher's exact test), Q value = 1

Table S78.  Gene #8: 'ARID1A MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
ARID1A MUTATED 7 8 4
ARID1A WILD-TYPE 149 113 55
'ARID1A MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.667 (Fisher's exact test), Q value = 1

Table S79.  Gene #8: 'ARID1A MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
ARID1A MUTATED 8 7 3 7 5
ARID1A WILD-TYPE 119 102 83 98 46
'ARID1A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S80.  Gene #8: 'ARID1A MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
ARID1A MUTATED 7 6 7 2 3 2 3
ARID1A WILD-TYPE 65 103 83 42 46 44 65
'ARID1A MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.464 (Fisher's exact test), Q value = 0.93

Table S81.  Gene #8: 'ARID1A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
ARID1A MUTATED 8 16 6
ARID1A WILD-TYPE 164 189 93
'ARID1A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0949 (Fisher's exact test), Q value = 0.56

Table S82.  Gene #8: 'ARID1A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
ARID1A MUTATED 1 1 8 8 11 1
ARID1A WILD-TYPE 69 36 127 112 75 27
'ARID1A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.635 (Fisher's exact test), Q value = 1

Table S83.  Gene #8: 'ARID1A MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
ARID1A MUTATED 2 8 8 1 3 4
ARID1A WILD-TYPE 53 77 89 41 57 69
'ARID1A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.335 (Fisher's exact test), Q value = 0.81

Table S84.  Gene #8: 'ARID1A MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
ARID1A MUTATED 3 17 6
ARID1A WILD-TYPE 93 205 88
'NF1 MUTATION STATUS' versus 'MRNA_CNMF'

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

Table S85.  Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 8 8 4
NF1 MUTATED 2 1 1
NF1 WILD-TYPE 6 7 3
'NF1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.792 (Fisher's exact test), Q value = 1

Table S86.  Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 7 9 4
NF1 MUTATED 2 1 1
NF1 WILD-TYPE 5 8 3
'NF1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0033 (Fisher's exact test), Q value = 0.077

Table S87.  Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
NF1 MUTATED 21 20 4 10
NF1 WILD-TYPE 137 107 119 60

Figure S41.  Get High-res Image Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'NF1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.592 (Fisher's exact test), Q value = 1

Table S88.  Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
NF1 MUTATED 19 22 11
NF1 WILD-TYPE 127 145 106
'NF1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0623 (Fisher's exact test), Q value = 0.47

Table S89.  Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
NF1 MUTATED 16 1 2 9 12
NF1 WILD-TYPE 73 21 57 56 89
'NF1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.481 (Fisher's exact test), Q value = 0.95

Table S90.  Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
NF1 MUTATED 15 17 8
NF1 WILD-TYPE 141 104 51
'NF1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0455 (Fisher's exact test), Q value = 0.43

Table S91.  Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
NF1 MUTATED 23 6 8 12 5
NF1 WILD-TYPE 104 103 78 93 46

Figure S42.  Get High-res Image Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'NF1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.261 (Fisher's exact test), Q value = 0.76

Table S92.  Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
NF1 MUTATED 4 18 12 2 5 5 8
NF1 WILD-TYPE 68 91 78 42 44 41 60
'NF1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.233 (Fisher's exact test), Q value = 0.75

Table S93.  Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
NF1 MUTATED 14 27 13
NF1 WILD-TYPE 158 178 86
'NF1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.115 (Fisher's exact test), Q value = 0.58

Table S94.  Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
NF1 MUTATED 3 2 21 13 13 2
NF1 WILD-TYPE 67 35 114 107 73 26
'NF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.244 (Fisher's exact test), Q value = 0.76

Table S95.  Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
NF1 MUTATED 3 12 13 3 4 12
NF1 WILD-TYPE 52 73 84 39 56 61
'NF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.161 (Fisher's exact test), Q value = 0.66

Table S96.  Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
NF1 MUTATED 6 30 11
NF1 WILD-TYPE 90 192 83
'SMARCA4 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.00258 (Fisher's exact test), Q value = 0.065

Table S97.  Gene #10: 'SMARCA4 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
SMARCA4 MUTATED 9 20 4 5
SMARCA4 WILD-TYPE 149 107 119 65

Figure S43.  Get High-res Image Gene #10: 'SMARCA4 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'SMARCA4 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00054

Table S98.  Gene #10: 'SMARCA4 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
SMARCA4 MUTATED 27 6 3
SMARCA4 WILD-TYPE 119 161 114

Figure S44.  Get High-res Image Gene #10: 'SMARCA4 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'SMARCA4 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.509 (Fisher's exact test), Q value = 0.97

Table S99.  Gene #10: 'SMARCA4 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
SMARCA4 MUTATED 4 2 3 7 9
SMARCA4 WILD-TYPE 85 20 56 58 92
'SMARCA4 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.108 (Fisher's exact test), Q value = 0.58

Table S100.  Gene #10: 'SMARCA4 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
SMARCA4 MUTATED 8 14 3
SMARCA4 WILD-TYPE 148 107 56
'SMARCA4 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 8e-05 (Fisher's exact test), Q value = 0.0031

Table S101.  Gene #10: 'SMARCA4 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
SMARCA4 MUTATED 7 2 16 12 1
SMARCA4 WILD-TYPE 120 107 70 93 50

Figure S45.  Get High-res Image Gene #10: 'SMARCA4 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'SMARCA4 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00054

Table S102.  Gene #10: 'SMARCA4 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
SMARCA4 MUTATED 0 5 13 2 4 14 0
SMARCA4 WILD-TYPE 72 104 77 42 45 32 68

Figure S46.  Get High-res Image Gene #10: 'SMARCA4 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'SMARCA4 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0085 (Fisher's exact test), Q value = 0.16

Table S103.  Gene #10: 'SMARCA4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
SMARCA4 MUTATED 7 25 5
SMARCA4 WILD-TYPE 165 180 94

Figure S47.  Get High-res Image Gene #10: 'SMARCA4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'SMARCA4 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00135 (Fisher's exact test), Q value = 0.038

Table S104.  Gene #10: 'SMARCA4 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
SMARCA4 MUTATED 5 0 15 2 13 2
SMARCA4 WILD-TYPE 65 37 120 118 73 26

Figure S48.  Get High-res Image Gene #10: 'SMARCA4 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'SMARCA4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.115 (Fisher's exact test), Q value = 0.58

Table S105.  Gene #10: 'SMARCA4 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
SMARCA4 MUTATED 0 7 9 3 7 8
SMARCA4 WILD-TYPE 55 78 88 39 53 65
'SMARCA4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 9e-04

Table S106.  Gene #10: 'SMARCA4 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
SMARCA4 MUTATED 1 30 3
SMARCA4 WILD-TYPE 95 192 91

Figure S49.  Get High-res Image Gene #10: 'SMARCA4 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'BRAF MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.775 (Fisher's exact test), Q value = 1

Table S107.  Gene #11: 'BRAF MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 8 8 4
BRAF MUTATED 1 2 0
BRAF WILD-TYPE 7 6 4
'BRAF MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

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

Table S108.  Gene #11: 'BRAF MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 7 9 4
BRAF MUTATED 1 2 0
BRAF WILD-TYPE 6 7 4
'BRAF MUTATION STATUS' versus 'CN_CNMF'

P value = 0.785 (Fisher's exact test), Q value = 1

Table S109.  Gene #11: 'BRAF MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
BRAF MUTATED 14 8 10 7
BRAF WILD-TYPE 144 119 113 63
'BRAF MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0498 (Fisher's exact test), Q value = 0.46

Table S110.  Gene #11: 'BRAF MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
BRAF MUTATED 9 21 6
BRAF WILD-TYPE 137 146 111

Figure S50.  Get High-res Image Gene #11: 'BRAF MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'BRAF MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.572 (Fisher's exact test), Q value = 1

Table S111.  Gene #11: 'BRAF MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
BRAF MUTATED 9 3 5 3 7
BRAF WILD-TYPE 80 19 54 62 94
'BRAF MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.895 (Fisher's exact test), Q value = 1

Table S112.  Gene #11: 'BRAF MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
BRAF MUTATED 14 9 4
BRAF WILD-TYPE 142 112 55
'BRAF MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.241 (Fisher's exact test), Q value = 0.75

Table S113.  Gene #11: 'BRAF MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
BRAF MUTATED 16 9 4 8 2
BRAF WILD-TYPE 111 100 82 97 49
'BRAF MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.383 (Fisher's exact test), Q value = 0.87

Table S114.  Gene #11: 'BRAF MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
BRAF MUTATED 5 14 8 4 2 1 5
BRAF WILD-TYPE 67 95 82 40 47 45 63
'BRAF MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.457 (Fisher's exact test), Q value = 0.92

Table S115.  Gene #11: 'BRAF MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
BRAF MUTATED 16 18 5
BRAF WILD-TYPE 156 187 94
'BRAF MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0472 (Fisher's exact test), Q value = 0.44

Table S116.  Gene #11: 'BRAF MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
BRAF MUTATED 10 2 14 4 5 4
BRAF WILD-TYPE 60 35 121 116 81 24

Figure S51.  Get High-res Image Gene #11: 'BRAF MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'BRAF MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.87 (Fisher's exact test), Q value = 1

Table S117.  Gene #11: 'BRAF MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
BRAF MUTATED 3 8 8 4 6 4
BRAF WILD-TYPE 52 77 89 38 54 69
'BRAF MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.061 (Fisher's exact test), Q value = 0.47

Table S118.  Gene #11: 'BRAF MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
BRAF MUTATED 7 13 13
BRAF WILD-TYPE 89 209 81
'MGA MUTATION STATUS' versus 'CN_CNMF'

P value = 0.892 (Fisher's exact test), Q value = 1

Table S119.  Gene #12: 'MGA MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
MGA MUTATED 14 11 8 6
MGA WILD-TYPE 144 116 115 64
'MGA MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.156 (Fisher's exact test), Q value = 0.66

Table S120.  Gene #12: 'MGA MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
MGA MUTATED 15 16 5
MGA WILD-TYPE 131 151 112
'MGA MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S121.  Gene #12: 'MGA MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
MGA MUTATED 9 1 4 8 7
MGA WILD-TYPE 80 21 55 57 94
'MGA MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.104 (Fisher's exact test), Q value = 0.58

Table S122.  Gene #12: 'MGA MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
MGA MUTATED 10 16 3
MGA WILD-TYPE 146 105 56
'MGA MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.111 (Fisher's exact test), Q value = 0.58

Table S123.  Gene #12: 'MGA MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
MGA MUTATED 18 5 6 7 4
MGA WILD-TYPE 109 104 80 98 47
'MGA MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.154 (Fisher's exact test), Q value = 0.65

Table S124.  Gene #12: 'MGA MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
MGA MUTATED 3 15 11 3 2 2 4
MGA WILD-TYPE 69 94 79 41 47 44 64
'MGA MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0235 (Fisher's exact test), Q value = 0.31

Table S125.  Gene #12: 'MGA MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
MGA MUTATED 8 25 6
MGA WILD-TYPE 164 180 93

Figure S52.  Get High-res Image Gene #12: 'MGA MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'MGA MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.118 (Fisher's exact test), Q value = 0.58

Table S126.  Gene #12: 'MGA MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
MGA MUTATED 5 3 12 4 12 3
MGA WILD-TYPE 65 34 123 116 74 25
'MGA MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.415 (Fisher's exact test), Q value = 0.88

Table S127.  Gene #12: 'MGA MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
MGA MUTATED 2 12 8 3 5 5
MGA WILD-TYPE 53 73 89 39 55 68
'MGA MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.189 (Fisher's exact test), Q value = 0.7

Table S128.  Gene #12: 'MGA MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
MGA MUTATED 4 21 10
MGA WILD-TYPE 92 201 84
'FTSJD1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.41 (Fisher's exact test), Q value = 0.88

Table S129.  Gene #13: 'FTSJD1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
FTSJD1 MUTATED 12 5 5 2
FTSJD1 WILD-TYPE 146 122 118 68
'FTSJD1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.327 (Fisher's exact test), Q value = 0.81

Table S130.  Gene #13: 'FTSJD1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
FTSJD1 MUTATED 7 11 3
FTSJD1 WILD-TYPE 139 156 114
'FTSJD1 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S131.  Gene #13: 'FTSJD1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
FTSJD1 MUTATED 3 1 3 4 6
FTSJD1 WILD-TYPE 86 21 56 61 95
'FTSJD1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.382 (Fisher's exact test), Q value = 0.87

Table S132.  Gene #13: 'FTSJD1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
FTSJD1 MUTATED 6 9 2
FTSJD1 WILD-TYPE 150 112 57
'FTSJD1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.438 (Fisher's exact test), Q value = 0.91

Table S133.  Gene #13: 'FTSJD1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
FTSJD1 MUTATED 10 6 4 3 1
FTSJD1 WILD-TYPE 117 103 82 102 50
'FTSJD1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.288 (Fisher's exact test), Q value = 0.78

Table S134.  Gene #13: 'FTSJD1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
FTSJD1 MUTATED 2 11 5 2 1 1 2
FTSJD1 WILD-TYPE 70 98 85 42 48 45 66
'FTSJD1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.613 (Fisher's exact test), Q value = 1

Table S135.  Gene #13: 'FTSJD1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
FTSJD1 MUTATED 7 13 4
FTSJD1 WILD-TYPE 165 192 95
'FTSJD1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.506 (Fisher's exact test), Q value = 0.96

Table S136.  Gene #13: 'FTSJD1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
FTSJD1 MUTATED 4 0 10 4 5 1
FTSJD1 WILD-TYPE 66 37 125 116 81 27
'FTSJD1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.231 (Fisher's exact test), Q value = 0.75

Table S137.  Gene #13: 'FTSJD1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
FTSJD1 MUTATED 3 6 2 2 5 1
FTSJD1 WILD-TYPE 52 79 95 40 55 72
'FTSJD1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.153 (Fisher's exact test), Q value = 0.65

Table S138.  Gene #13: 'FTSJD1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
FTSJD1 MUTATED 6 12 1
FTSJD1 WILD-TYPE 90 210 93
'MET MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0657 (Fisher's exact test), Q value = 0.49

Table S139.  Gene #14: 'MET MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
MET MUTATED 13 3 3 2
MET WILD-TYPE 145 124 120 68
'MET MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.669 (Fisher's exact test), Q value = 1

Table S140.  Gene #14: 'MET MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
MET MUTATED 5 9 5
MET WILD-TYPE 141 158 112
'MET MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.456 (Fisher's exact test), Q value = 0.92

Table S141.  Gene #14: 'MET MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
MET MUTATED 8 0 2 3 4
MET WILD-TYPE 81 22 57 62 97
'MET MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.267 (Fisher's exact test), Q value = 0.76

Table S142.  Gene #14: 'MET MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
MET MUTATED 5 9 3
MET WILD-TYPE 151 112 56
'MET MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.119 (Fisher's exact test), Q value = 0.58

Table S143.  Gene #14: 'MET MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
MET MUTATED 8 3 6 1 3
MET WILD-TYPE 119 106 80 104 48
'MET MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S144.  Gene #14: 'MET MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
MET MUTATED 3 6 4 1 0 2 5
MET WILD-TYPE 69 103 86 43 49 44 63
'MET MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.119 (Fisher's exact test), Q value = 0.58

Table S145.  Gene #14: 'MET MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
MET MUTATED 9 5 7
MET WILD-TYPE 163 200 92
'MET MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.208 (Fisher's exact test), Q value = 0.72

Table S146.  Gene #14: 'MET MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
MET MUTATED 2 0 9 8 1 1
MET WILD-TYPE 68 37 126 112 85 27
'MET MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S147.  Gene #14: 'MET MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
MET MUTATED 2 2 7 1 3 4
MET WILD-TYPE 53 83 90 41 57 69
'MET MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.17 (Fisher's exact test), Q value = 0.68

Table S148.  Gene #14: 'MET MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
MET MUTATED 3 8 8
MET WILD-TYPE 93 214 86
'GAGE2A MUTATION STATUS' versus 'CN_CNMF'

P value = 0.433 (Fisher's exact test), Q value = 0.9

Table S149.  Gene #15: 'GAGE2A MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
GAGE2A MUTATED 2 2 4 0
GAGE2A WILD-TYPE 156 125 119 70
'GAGE2A MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.676 (Fisher's exact test), Q value = 1

Table S150.  Gene #15: 'GAGE2A MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
GAGE2A MUTATED 1 3 2
GAGE2A WILD-TYPE 145 164 115
'GAGE2A MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.72 (Fisher's exact test), Q value = 1

Table S151.  Gene #15: 'GAGE2A MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
GAGE2A MUTATED 3 0 0 1 2
GAGE2A WILD-TYPE 86 22 59 64 99
'GAGE2A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.483 (Fisher's exact test), Q value = 0.96

Table S152.  Gene #15: 'GAGE2A MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
GAGE2A MUTATED 2 2 2
GAGE2A WILD-TYPE 154 119 57
'GAGE2A MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.375 (Fisher's exact test), Q value = 0.87

Table S153.  Gene #15: 'GAGE2A MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
GAGE2A MUTATED 2 0 3 2 1
GAGE2A WILD-TYPE 125 109 83 103 50
'GAGE2A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.577 (Fisher's exact test), Q value = 1

Table S154.  Gene #15: 'GAGE2A MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
GAGE2A MUTATED 0 4 1 1 0 1 1
GAGE2A WILD-TYPE 72 105 89 43 49 45 67
'GAGE2A MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.268 (Fisher's exact test), Q value = 0.76

Table S155.  Gene #15: 'GAGE2A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
GAGE2A MUTATED 1 4 3
GAGE2A WILD-TYPE 171 201 96
'GAGE2A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.494 (Fisher's exact test), Q value = 0.96

Table S156.  Gene #15: 'GAGE2A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
GAGE2A MUTATED 0 0 2 2 3 1
GAGE2A WILD-TYPE 70 37 133 118 83 27
'GAGE2A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.962 (Fisher's exact test), Q value = 1

Table S157.  Gene #15: 'GAGE2A MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
GAGE2A MUTATED 1 1 2 0 0 1
GAGE2A WILD-TYPE 54 84 95 42 60 72
'GAGE2A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.722 (Fisher's exact test), Q value = 1

Table S158.  Gene #15: 'GAGE2A MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
GAGE2A MUTATED 1 2 2
GAGE2A WILD-TYPE 95 220 92
'SETD2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.611 (Fisher's exact test), Q value = 1

Table S159.  Gene #16: 'SETD2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
SETD2 MUTATED 7 9 10 4
SETD2 WILD-TYPE 151 118 113 66
'SETD2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.281 (Fisher's exact test), Q value = 0.77

Table S160.  Gene #16: 'SETD2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
SETD2 MUTATED 6 13 10
SETD2 WILD-TYPE 140 154 107
'SETD2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.613 (Fisher's exact test), Q value = 1

Table S161.  Gene #16: 'SETD2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
SETD2 MUTATED 5 3 3 4 5
SETD2 WILD-TYPE 84 19 56 61 96
'SETD2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.68 (Fisher's exact test), Q value = 1

Table S162.  Gene #16: 'SETD2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
SETD2 MUTATED 11 7 2
SETD2 WILD-TYPE 145 114 57
'SETD2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.634 (Fisher's exact test), Q value = 1

Table S163.  Gene #16: 'SETD2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
SETD2 MUTATED 8 8 5 4 5
SETD2 WILD-TYPE 119 101 81 101 46
'SETD2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.224 (Fisher's exact test), Q value = 0.75

Table S164.  Gene #16: 'SETD2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
SETD2 MUTATED 8 7 7 1 0 3 4
SETD2 WILD-TYPE 64 102 83 43 49 43 64
'SETD2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.161 (Fisher's exact test), Q value = 0.66

Table S165.  Gene #16: 'SETD2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
SETD2 MUTATED 12 8 9
SETD2 WILD-TYPE 160 197 90
'SETD2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0583 (Fisher's exact test), Q value = 0.47

Table S166.  Gene #16: 'SETD2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
SETD2 MUTATED 3 2 5 7 6 6
SETD2 WILD-TYPE 67 35 130 113 80 22
'SETD2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0728 (Fisher's exact test), Q value = 0.51

Table S167.  Gene #16: 'SETD2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
SETD2 MUTATED 3 2 13 4 4 3
SETD2 WILD-TYPE 52 83 84 38 56 70
'SETD2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00196 (Fisher's exact test), Q value = 0.052

Table S168.  Gene #16: 'SETD2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
SETD2 MUTATED 1 15 13
SETD2 WILD-TYPE 95 207 81

Figure S53.  Get High-res Image Gene #16: 'SETD2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'U2AF1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.346 (Fisher's exact test), Q value = 0.83

Table S169.  Gene #17: 'U2AF1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
U2AF1 MUTATED 6 2 1 2
U2AF1 WILD-TYPE 152 125 122 68
'U2AF1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.762 (Fisher's exact test), Q value = 1

Table S170.  Gene #17: 'U2AF1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
U2AF1 MUTATED 2 4 3
U2AF1 WILD-TYPE 144 163 114
'U2AF1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0582 (Fisher's exact test), Q value = 0.47

Table S171.  Gene #17: 'U2AF1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
U2AF1 MUTATED 3 1 0 3 0
U2AF1 WILD-TYPE 86 21 59 62 101
'U2AF1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S172.  Gene #17: 'U2AF1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
U2AF1 MUTATED 4 3 0
U2AF1 WILD-TYPE 152 118 59
'U2AF1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0466 (Fisher's exact test), Q value = 0.44

Table S173.  Gene #17: 'U2AF1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
U2AF1 MUTATED 7 3 1 0 0
U2AF1 WILD-TYPE 120 106 85 105 51

Figure S54.  Get High-res Image Gene #17: 'U2AF1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'U2AF1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.127 (Fisher's exact test), Q value = 0.59

Table S174.  Gene #17: 'U2AF1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
U2AF1 MUTATED 1 7 1 0 0 0 2
U2AF1 WILD-TYPE 71 102 89 44 49 46 66
'U2AF1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0322 (Fisher's exact test), Q value = 0.38

Table S175.  Gene #17: 'U2AF1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
U2AF1 MUTATED 8 3 0
U2AF1 WILD-TYPE 164 202 99

Figure S55.  Get High-res Image Gene #17: 'U2AF1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'U2AF1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.778 (Fisher's exact test), Q value = 1

Table S176.  Gene #17: 'U2AF1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
U2AF1 MUTATED 3 0 4 3 1 0
U2AF1 WILD-TYPE 67 37 131 117 85 28
'U2AF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.241 (Fisher's exact test), Q value = 0.75

Table S177.  Gene #17: 'U2AF1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
U2AF1 MUTATED 1 0 5 0 1 2
U2AF1 WILD-TYPE 54 85 92 42 59 71
'U2AF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.287 (Fisher's exact test), Q value = 0.78

Table S178.  Gene #17: 'U2AF1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
U2AF1 MUTATED 2 3 4
U2AF1 WILD-TYPE 94 219 90
'ERBB2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.445 (Fisher's exact test), Q value = 0.91

Table S179.  Gene #18: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
ERBB2 MUTATED 5 2 4 0
ERBB2 WILD-TYPE 153 125 119 70
'ERBB2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.159 (Fisher's exact test), Q value = 0.66

Table S180.  Gene #18: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
ERBB2 MUTATED 2 5 0
ERBB2 WILD-TYPE 144 162 117
'ERBB2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.174 (Fisher's exact test), Q value = 0.69

Table S181.  Gene #18: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
ERBB2 MUTATED 3 2 0 3 2
ERBB2 WILD-TYPE 86 20 59 62 99
'ERBB2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S182.  Gene #18: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
ERBB2 MUTATED 5 4 1
ERBB2 WILD-TYPE 151 117 58
'ERBB2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.302 (Fisher's exact test), Q value = 0.79

Table S183.  Gene #18: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
ERBB2 MUTATED 6 3 1 1 0
ERBB2 WILD-TYPE 121 106 85 104 51
'ERBB2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.137 (Fisher's exact test), Q value = 0.62

Table S184.  Gene #18: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
ERBB2 MUTATED 3 6 1 1 0 0 0
ERBB2 WILD-TYPE 69 103 89 43 49 46 68
'ERBB2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.676 (Fisher's exact test), Q value = 1

Table S185.  Gene #18: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
ERBB2 MUTATED 5 5 1
ERBB2 WILD-TYPE 167 200 98
'ERBB2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.193 (Fisher's exact test), Q value = 0.71

Table S186.  Gene #18: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
ERBB2 MUTATED 4 2 3 1 1 0
ERBB2 WILD-TYPE 66 35 132 119 85 28
'ERBB2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.626 (Fisher's exact test), Q value = 1

Table S187.  Gene #18: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
ERBB2 MUTATED 1 2 1 0 2 0
ERBB2 WILD-TYPE 54 83 96 42 58 73
'ERBB2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.198 (Fisher's exact test), Q value = 0.72

Table S188.  Gene #18: 'ERBB2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
ERBB2 MUTATED 3 3 0
ERBB2 WILD-TYPE 93 219 94
'CDKN2A MUTATION STATUS' versus 'CN_CNMF'

P value = 0.319 (Fisher's exact test), Q value = 0.81

Table S189.  Gene #19: 'CDKN2A MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
CDKN2A MUTATED 4 6 2 4
CDKN2A WILD-TYPE 154 121 121 66
'CDKN2A MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.662 (Fisher's exact test), Q value = 1

Table S190.  Gene #19: 'CDKN2A MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
CDKN2A MUTATED 4 6 2
CDKN2A WILD-TYPE 142 161 115
'CDKN2A MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.82 (Fisher's exact test), Q value = 1

Table S191.  Gene #19: 'CDKN2A MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
CDKN2A MUTATED 2 0 1 3 4
CDKN2A WILD-TYPE 87 22 58 62 97
'CDKN2A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S192.  Gene #19: 'CDKN2A MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
CDKN2A MUTATED 4 5 1
CDKN2A WILD-TYPE 152 116 58
'CDKN2A MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0326 (Fisher's exact test), Q value = 0.38

Table S193.  Gene #19: 'CDKN2A MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
CDKN2A MUTATED 4 1 8 2 1
CDKN2A WILD-TYPE 123 108 78 103 50

Figure S56.  Get High-res Image Gene #19: 'CDKN2A MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'CDKN2A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.203 (Fisher's exact test), Q value = 0.72

Table S194.  Gene #19: 'CDKN2A MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
CDKN2A MUTATED 0 6 4 1 0 3 2
CDKN2A WILD-TYPE 72 103 86 43 49 43 66
'CDKN2A MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S195.  Gene #19: 'CDKN2A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
CDKN2A MUTATED 6 7 3
CDKN2A WILD-TYPE 166 198 96
'CDKN2A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.922 (Fisher's exact test), Q value = 1

Table S196.  Gene #19: 'CDKN2A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
CDKN2A MUTATED 2 1 5 6 2 0
CDKN2A WILD-TYPE 68 36 130 114 84 28
'CDKN2A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.202 (Fisher's exact test), Q value = 0.72

Table S197.  Gene #19: 'CDKN2A MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
CDKN2A MUTATED 1 0 4 0 2 4
CDKN2A WILD-TYPE 54 85 93 42 58 69
'CDKN2A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S198.  Gene #19: 'CDKN2A MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
CDKN2A MUTATED 3 7 1
CDKN2A WILD-TYPE 93 215 93
'SRPX MUTATION STATUS' versus 'CN_CNMF'

P value = 0.898 (Fisher's exact test), Q value = 1

Table S199.  Gene #20: 'SRPX MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
SRPX MUTATED 4 3 5 2
SRPX WILD-TYPE 154 124 118 68
'SRPX MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.228 (Fisher's exact test), Q value = 0.75

Table S200.  Gene #20: 'SRPX MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
SRPX MUTATED 4 2 5
SRPX WILD-TYPE 142 165 112
'SRPX MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.638 (Fisher's exact test), Q value = 1

Table S201.  Gene #20: 'SRPX MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
SRPX MUTATED 2 1 1 1 5
SRPX WILD-TYPE 87 21 58 64 96
'SRPX MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0392 (Fisher's exact test), Q value = 0.41

Table S202.  Gene #20: 'SRPX MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
SRPX MUTATED 2 3 5
SRPX WILD-TYPE 154 118 54

Figure S57.  Get High-res Image Gene #20: 'SRPX MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'SRPX MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.15 (Fisher's exact test), Q value = 0.64

Table S203.  Gene #20: 'SRPX MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
SRPX MUTATED 4 2 0 5 3
SRPX WILD-TYPE 123 107 86 100 48
'SRPX MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.912 (Fisher's exact test), Q value = 1

Table S204.  Gene #20: 'SRPX MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
SRPX MUTATED 3 4 2 0 2 1 2
SRPX WILD-TYPE 69 105 88 44 47 45 66
'SRPX MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.502 (Fisher's exact test), Q value = 0.96

Table S205.  Gene #20: 'SRPX MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
SRPX MUTATED 3 8 3
SRPX WILD-TYPE 169 197 96
'SRPX MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0524 (Fisher's exact test), Q value = 0.46

Table S206.  Gene #20: 'SRPX MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
SRPX MUTATED 2 4 2 2 2 2
SRPX WILD-TYPE 68 33 133 118 84 26
'SRPX MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.687 (Fisher's exact test), Q value = 1

Table S207.  Gene #20: 'SRPX MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
SRPX MUTATED 1 3 3 1 2 0
SRPX WILD-TYPE 54 82 94 41 58 73
'SRPX MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.352 (Fisher's exact test), Q value = 0.84

Table S208.  Gene #20: 'SRPX MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
SRPX MUTATED 1 5 4
SRPX WILD-TYPE 95 217 90
'ATM MUTATION STATUS' versus 'CN_CNMF'

P value = 0.00304 (Fisher's exact test), Q value = 0.073

Table S209.  Gene #21: 'ATM MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
ATM MUTATED 5 16 10 11
ATM WILD-TYPE 153 111 113 59

Figure S58.  Get High-res Image Gene #21: 'ATM MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'ATM MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.00474 (Fisher's exact test), Q value = 0.098

Table S210.  Gene #21: 'ATM MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
ATM MUTATED 16 17 2
ATM WILD-TYPE 130 150 115

Figure S59.  Get High-res Image Gene #21: 'ATM MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'ATM MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.331 (Fisher's exact test), Q value = 0.81

Table S211.  Gene #21: 'ATM MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
ATM MUTATED 4 1 5 9 9
ATM WILD-TYPE 85 21 54 56 92
'ATM MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.934 (Fisher's exact test), Q value = 1

Table S212.  Gene #21: 'ATM MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
ATM MUTATED 13 11 4
ATM WILD-TYPE 143 110 55
'ATM MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0702 (Fisher's exact test), Q value = 0.5

Table S213.  Gene #21: 'ATM MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
ATM MUTATED 9 7 7 17 2
ATM WILD-TYPE 118 102 79 88 49
'ATM MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00062 (Fisher's exact test), Q value = 0.02

Table S214.  Gene #21: 'ATM MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
ATM MUTATED 6 6 4 6 13 5 2
ATM WILD-TYPE 66 103 86 38 36 41 66

Figure S60.  Get High-res Image Gene #21: 'ATM MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'ATM MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.744 (Fisher's exact test), Q value = 1

Table S215.  Gene #21: 'ATM MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
ATM MUTATED 13 20 9
ATM WILD-TYPE 159 185 90
'ATM MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0353 (Fisher's exact test), Q value = 0.39

Table S216.  Gene #21: 'ATM MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
ATM MUTATED 8 8 14 6 4 2
ATM WILD-TYPE 62 29 121 114 82 26

Figure S61.  Get High-res Image Gene #21: 'ATM MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'ATM MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.11 (Fisher's exact test), Q value = 0.58

Table S217.  Gene #21: 'ATM MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
ATM MUTATED 3 12 5 4 8 3
ATM WILD-TYPE 52 73 92 38 52 70
'ATM MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.732 (Fisher's exact test), Q value = 1

Table S218.  Gene #21: 'ATM MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
ATM MUTATED 8 21 6
ATM WILD-TYPE 88 201 88
'TCEAL5 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.837 (Fisher's exact test), Q value = 1

Table S219.  Gene #22: 'TCEAL5 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
TCEAL5 MUTATED 4 3 3 3
TCEAL5 WILD-TYPE 154 124 120 67
'TCEAL5 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.502 (Fisher's exact test), Q value = 0.96

Table S220.  Gene #22: 'TCEAL5 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
TCEAL5 MUTATED 6 3 3
TCEAL5 WILD-TYPE 140 164 114
'TCEAL5 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.331 (Fisher's exact test), Q value = 0.81

Table S221.  Gene #22: 'TCEAL5 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
TCEAL5 MUTATED 2 1 2 5 2
TCEAL5 WILD-TYPE 87 21 57 60 99
'TCEAL5 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S222.  Gene #22: 'TCEAL5 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
TCEAL5 MUTATED 5 5 2
TCEAL5 WILD-TYPE 151 116 57
'TCEAL5 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S223.  Gene #22: 'TCEAL5 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
TCEAL5 MUTATED 5 3 1 3 0
TCEAL5 WILD-TYPE 122 106 85 102 51
'TCEAL5 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.868 (Fisher's exact test), Q value = 1

Table S224.  Gene #22: 'TCEAL5 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
TCEAL5 MUTATED 3 3 2 1 2 0 1
TCEAL5 WILD-TYPE 69 106 88 43 47 46 67
'TCEAL5 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.475 (Fisher's exact test), Q value = 0.94

Table S225.  Gene #22: 'TCEAL5 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
TCEAL5 MUTATED 3 6 4
TCEAL5 WILD-TYPE 169 199 95
'TCEAL5 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.502 (Fisher's exact test), Q value = 0.96

Table S226.  Gene #22: 'TCEAL5 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
TCEAL5 MUTATED 1 2 2 4 4 0
TCEAL5 WILD-TYPE 69 35 133 116 82 28
'TCEAL5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.996 (Fisher's exact test), Q value = 1

Table S227.  Gene #22: 'TCEAL5 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
TCEAL5 MUTATED 2 2 3 1 2 2
TCEAL5 WILD-TYPE 53 83 94 41 58 71
'TCEAL5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.858 (Fisher's exact test), Q value = 1

Table S228.  Gene #22: 'TCEAL5 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
TCEAL5 MUTATED 2 7 3
TCEAL5 WILD-TYPE 94 215 91
'PPP3CA MUTATION STATUS' versus 'CN_CNMF'

P value = 0.39 (Fisher's exact test), Q value = 0.88

Table S229.  Gene #23: 'PPP3CA MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
PPP3CA MUTATED 4 1 5 2
PPP3CA WILD-TYPE 154 126 118 68
'PPP3CA MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.404 (Fisher's exact test), Q value = 0.88

Table S230.  Gene #23: 'PPP3CA MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
PPP3CA MUTATED 5 5 1
PPP3CA WILD-TYPE 141 162 116
'PPP3CA MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.64 (Fisher's exact test), Q value = 1

Table S231.  Gene #23: 'PPP3CA MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
PPP3CA MUTATED 2 1 2 2 1
PPP3CA WILD-TYPE 87 21 57 63 100
'PPP3CA MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S232.  Gene #23: 'PPP3CA MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
PPP3CA MUTATED 5 2 1
PPP3CA WILD-TYPE 151 119 58
'PPP3CA MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.406 (Fisher's exact test), Q value = 0.88

Table S233.  Gene #23: 'PPP3CA MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
PPP3CA MUTATED 2 2 3 5 0
PPP3CA WILD-TYPE 125 107 83 100 51
'PPP3CA MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0159 (Fisher's exact test), Q value = 0.26

Table S234.  Gene #23: 'PPP3CA MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
PPP3CA MUTATED 1 3 3 5 0 0 0
PPP3CA WILD-TYPE 71 106 87 39 49 46 68

Figure S62.  Get High-res Image Gene #23: 'PPP3CA MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'PPP3CA MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0983 (Fisher's exact test), Q value = 0.56

Table S235.  Gene #23: 'PPP3CA MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
PPP3CA MUTATED 2 9 1
PPP3CA WILD-TYPE 170 196 98
'PPP3CA MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.17 (Fisher's exact test), Q value = 0.68

Table S236.  Gene #23: 'PPP3CA MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
PPP3CA MUTATED 1 0 8 1 2 0
PPP3CA WILD-TYPE 69 37 127 119 84 28
'PPP3CA MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.957 (Fisher's exact test), Q value = 1

Table S237.  Gene #23: 'PPP3CA MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
PPP3CA MUTATED 1 3 2 1 1 3
PPP3CA WILD-TYPE 54 82 95 41 59 70
'PPP3CA MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.709 (Fisher's exact test), Q value = 1

Table S238.  Gene #23: 'PPP3CA MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
PPP3CA MUTATED 3 7 1
PPP3CA WILD-TYPE 93 215 93
'FCRLA MUTATION STATUS' versus 'CN_CNMF'

P value = 0.28 (Fisher's exact test), Q value = 0.77

Table S239.  Gene #24: 'FCRLA MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
FCRLA MUTATED 7 4 1 3
FCRLA WILD-TYPE 151 123 122 67
'FCRLA MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.238 (Fisher's exact test), Q value = 0.75

Table S240.  Gene #24: 'FCRLA MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
FCRLA MUTATED 4 9 2
FCRLA WILD-TYPE 142 158 115
'FCRLA MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.847 (Fisher's exact test), Q value = 1

Table S241.  Gene #24: 'FCRLA MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
FCRLA MUTATED 3 1 1 3 3
FCRLA WILD-TYPE 86 21 58 62 98
'FCRLA MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.333 (Fisher's exact test), Q value = 0.81

Table S242.  Gene #24: 'FCRLA MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
FCRLA MUTATED 6 5 0
FCRLA WILD-TYPE 150 116 59
'FCRLA MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.472 (Fisher's exact test), Q value = 0.94

Table S243.  Gene #24: 'FCRLA MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
FCRLA MUTATED 5 2 1 4 3
FCRLA WILD-TYPE 122 107 85 101 48
'FCRLA MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.375 (Fisher's exact test), Q value = 0.87

Table S244.  Gene #24: 'FCRLA MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
FCRLA MUTATED 1 5 1 0 3 2 3
FCRLA WILD-TYPE 71 104 89 44 46 44 65
'FCRLA MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S245.  Gene #24: 'FCRLA MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
FCRLA MUTATED 5 7 3
FCRLA WILD-TYPE 167 198 96
'FCRLA MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S246.  Gene #24: 'FCRLA MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
FCRLA MUTATED 3 1 6 3 2 0
FCRLA WILD-TYPE 67 36 129 117 84 28
'FCRLA MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.45 (Fisher's exact test), Q value = 0.92

Table S247.  Gene #24: 'FCRLA MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
FCRLA MUTATED 0 2 6 2 2 2
FCRLA WILD-TYPE 55 83 91 40 58 71
'FCRLA MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.132 (Fisher's exact test), Q value = 0.6

Table S248.  Gene #24: 'FCRLA MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
FCRLA MUTATED 1 7 6
FCRLA WILD-TYPE 95 215 88
'ARID2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.173 (Fisher's exact test), Q value = 0.69

Table S249.  Gene #25: 'ARID2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
ARID2 MUTATED 9 9 2 4
ARID2 WILD-TYPE 149 118 121 66
'ARID2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0575 (Fisher's exact test), Q value = 0.47

Table S250.  Gene #25: 'ARID2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
ARID2 MUTATED 6 13 2
ARID2 WILD-TYPE 140 154 115
'ARID2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.827 (Fisher's exact test), Q value = 1

Table S251.  Gene #25: 'ARID2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
ARID2 MUTATED 4 0 4 2 5
ARID2 WILD-TYPE 85 22 55 63 96
'ARID2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S252.  Gene #25: 'ARID2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
ARID2 MUTATED 7 6 2
ARID2 WILD-TYPE 149 115 57
'ARID2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.975 (Fisher's exact test), Q value = 1

Table S253.  Gene #25: 'ARID2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
ARID2 MUTATED 8 5 4 5 2
ARID2 WILD-TYPE 119 104 82 100 49
'ARID2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0908 (Fisher's exact test), Q value = 0.55

Table S254.  Gene #25: 'ARID2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
ARID2 MUTATED 1 5 6 5 0 4 3
ARID2 WILD-TYPE 71 104 84 39 49 42 65
'ARID2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0836 (Fisher's exact test), Q value = 0.55

Table S255.  Gene #25: 'ARID2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
ARID2 MUTATED 4 15 5
ARID2 WILD-TYPE 168 190 94
'ARID2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.118 (Fisher's exact test), Q value = 0.58

Table S256.  Gene #25: 'ARID2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
ARID2 MUTATED 3 0 13 3 4 1
ARID2 WILD-TYPE 67 37 122 117 82 27
'ARID2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.239 (Fisher's exact test), Q value = 0.75

Table S257.  Gene #25: 'ARID2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
ARID2 MUTATED 2 5 2 2 1 7
ARID2 WILD-TYPE 53 80 95 40 59 66
'ARID2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0888 (Fisher's exact test), Q value = 0.55

Table S258.  Gene #25: 'ARID2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
ARID2 MUTATED 2 15 2
ARID2 WILD-TYPE 94 207 92
'APC MUTATION STATUS' versus 'CN_CNMF'

P value = 0.57 (Fisher's exact test), Q value = 1

Table S259.  Gene #26: 'APC MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
APC MUTATED 5 8 4 3
APC WILD-TYPE 153 119 119 67
'APC MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.333 (Fisher's exact test), Q value = 0.81

Table S260.  Gene #26: 'APC MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
APC MUTATED 8 4 3
APC WILD-TYPE 138 163 114
'APC MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.89 (Fisher's exact test), Q value = 1

Table S261.  Gene #26: 'APC MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
APC MUTATED 5 1 3 3 3
APC WILD-TYPE 84 21 56 62 98
'APC MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S262.  Gene #26: 'APC MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
APC MUTATED 8 5 2
APC WILD-TYPE 148 116 57
'APC MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.184 (Fisher's exact test), Q value = 0.7

Table S263.  Gene #26: 'APC MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
APC MUTATED 6 2 5 7 0
APC WILD-TYPE 121 107 81 98 51
'APC MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.221 (Fisher's exact test), Q value = 0.75

Table S264.  Gene #26: 'APC MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
APC MUTATED 1 4 7 2 1 4 1
APC WILD-TYPE 71 105 83 42 48 42 67
'APC MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0448 (Fisher's exact test), Q value = 0.43

Table S265.  Gene #26: 'APC MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
APC MUTATED 5 14 1
APC WILD-TYPE 167 191 98

Figure S63.  Get High-res Image Gene #26: 'APC MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'APC MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0617 (Fisher's exact test), Q value = 0.47

Table S266.  Gene #26: 'APC MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
APC MUTATED 0 1 10 3 6 0
APC WILD-TYPE 70 36 125 117 80 28
'APC MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.695 (Fisher's exact test), Q value = 1

Table S267.  Gene #26: 'APC MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
APC MUTATED 2 4 3 0 1 4
APC WILD-TYPE 53 81 94 42 59 69
'APC MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.201 (Fisher's exact test), Q value = 0.72

Table S268.  Gene #26: 'APC MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
APC MUTATED 2 11 1
APC WILD-TYPE 94 211 93
'ZEB1 MUTATION STATUS' versus 'MRNA_CNMF'

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

Table S269.  Gene #27: 'ZEB1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 8 8 4
ZEB1 MUTATED 1 2 1
ZEB1 WILD-TYPE 7 6 3
'ZEB1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

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

Table S270.  Gene #27: 'ZEB1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 7 9 4
ZEB1 MUTATED 1 2 1
ZEB1 WILD-TYPE 6 7 3
'ZEB1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0752 (Fisher's exact test), Q value = 0.51

Table S271.  Gene #27: 'ZEB1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
ZEB1 MUTATED 14 6 4 8
ZEB1 WILD-TYPE 144 121 119 62
'ZEB1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.439 (Fisher's exact test), Q value = 0.91

Table S272.  Gene #27: 'ZEB1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
ZEB1 MUTATED 12 11 5
ZEB1 WILD-TYPE 134 156 112
'ZEB1 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S273.  Gene #27: 'ZEB1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
ZEB1 MUTATED 6 2 3 6 5
ZEB1 WILD-TYPE 83 20 56 59 96
'ZEB1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S274.  Gene #27: 'ZEB1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
ZEB1 MUTATED 10 9 3
ZEB1 WILD-TYPE 146 112 56
'ZEB1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.966 (Fisher's exact test), Q value = 1

Table S275.  Gene #27: 'ZEB1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
ZEB1 MUTATED 8 6 7 7 3
ZEB1 WILD-TYPE 119 103 79 98 48
'ZEB1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.476 (Fisher's exact test), Q value = 0.94

Table S276.  Gene #27: 'ZEB1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
ZEB1 MUTATED 4 9 8 2 3 0 5
ZEB1 WILD-TYPE 68 100 82 42 46 46 63
'ZEB1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.429 (Fisher's exact test), Q value = 0.9

Table S277.  Gene #27: 'ZEB1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
ZEB1 MUTATED 9 17 5
ZEB1 WILD-TYPE 163 188 94
'ZEB1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.158 (Fisher's exact test), Q value = 0.66

Table S278.  Gene #27: 'ZEB1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
ZEB1 MUTATED 3 1 7 6 11 3
ZEB1 WILD-TYPE 67 36 128 114 75 25
'ZEB1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.888 (Fisher's exact test), Q value = 1

Table S279.  Gene #27: 'ZEB1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
ZEB1 MUTATED 4 4 6 3 5 3
ZEB1 WILD-TYPE 51 81 91 39 55 70
'ZEB1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.824 (Fisher's exact test), Q value = 1

Table S280.  Gene #27: 'ZEB1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
ZEB1 MUTATED 5 13 7
ZEB1 WILD-TYPE 91 209 87
'SIP1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.0871 (Fisher's exact test), Q value = 0.55

Table S281.  Gene #28: 'SIP1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 8 8 4
SIP1 MUTATED 1 0 2
SIP1 WILD-TYPE 7 8 2
'SIP1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.118 (Fisher's exact test), Q value = 0.58

Table S282.  Gene #28: 'SIP1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 7 9 4
SIP1 MUTATED 0 1 2
SIP1 WILD-TYPE 7 8 2
'SIP1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.585 (Fisher's exact test), Q value = 1

Table S283.  Gene #28: 'SIP1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
SIP1 MUTATED 2 2 0 0
SIP1 WILD-TYPE 156 125 123 70
'SIP1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.471 (Fisher's exact test), Q value = 0.94

Table S284.  Gene #28: 'SIP1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
SIP1 MUTATED 2 0 0 1 0
SIP1 WILD-TYPE 87 22 59 64 101
'SIP1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S285.  Gene #28: 'SIP1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
SIP1 MUTATED 2 1 0
SIP1 WILD-TYPE 154 120 59
'SIP1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.324 (Fisher's exact test), Q value = 0.81

Table S286.  Gene #28: 'SIP1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
SIP1 MUTATED 3 0 0 1 0
SIP1 WILD-TYPE 124 109 86 104 51
'SIP1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.977 (Fisher's exact test), Q value = 1

Table S287.  Gene #28: 'SIP1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
SIP1 MUTATED 1 2 1 0 0 0 0
SIP1 WILD-TYPE 71 107 89 44 49 46 68
'SIP1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.832 (Fisher's exact test), Q value = 1

Table S288.  Gene #28: 'SIP1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
SIP1 MUTATED 2 2 0
SIP1 WILD-TYPE 170 203 99
'SIP1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.407 (Fisher's exact test), Q value = 0.88

Table S289.  Gene #28: 'SIP1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
SIP1 MUTATED 2 0 1 0 1 0
SIP1 WILD-TYPE 68 37 134 120 85 28
'SLC4A3 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.3 (Fisher's exact test), Q value = 0.79

Table S290.  Gene #29: 'SLC4A3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
SLC4A3 MUTATED 6 8 2 2
SLC4A3 WILD-TYPE 152 119 121 68
'SLC4A3 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.289 (Fisher's exact test), Q value = 0.78

Table S291.  Gene #29: 'SLC4A3 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
SLC4A3 MUTATED 8 8 2
SLC4A3 WILD-TYPE 138 159 115
'SLC4A3 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.174 (Fisher's exact test), Q value = 0.69

Table S292.  Gene #29: 'SLC4A3 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
SLC4A3 MUTATED 5 1 1 6 2
SLC4A3 WILD-TYPE 84 21 58 59 99
'SLC4A3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0606 (Fisher's exact test), Q value = 0.47

Table S293.  Gene #29: 'SLC4A3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
SLC4A3 MUTATED 6 9 0
SLC4A3 WILD-TYPE 150 112 59
'SLC4A3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0426 (Fisher's exact test), Q value = 0.43

Table S294.  Gene #29: 'SLC4A3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
SLC4A3 MUTATED 10 1 3 4 0
SLC4A3 WILD-TYPE 117 108 83 101 51

Figure S64.  Get High-res Image Gene #29: 'SLC4A3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'SLC4A3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.456 (Fisher's exact test), Q value = 0.92

Table S295.  Gene #29: 'SLC4A3 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
SLC4A3 MUTATED 0 6 5 1 2 2 2
SLC4A3 WILD-TYPE 72 103 85 43 47 44 66
'SLC4A3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0948 (Fisher's exact test), Q value = 0.56

Table S296.  Gene #29: 'SLC4A3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
SLC4A3 MUTATED 5 12 1
SLC4A3 WILD-TYPE 167 193 98
'SLC4A3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.475 (Fisher's exact test), Q value = 0.94

Table S297.  Gene #29: 'SLC4A3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
SLC4A3 MUTATED 2 0 9 3 3 1
SLC4A3 WILD-TYPE 68 37 126 117 83 27
'SLC4A3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0479 (Fisher's exact test), Q value = 0.44

Table S298.  Gene #29: 'SLC4A3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
SLC4A3 MUTATED 1 5 1 0 3 7
SLC4A3 WILD-TYPE 54 80 96 42 57 66

Figure S65.  Get High-res Image Gene #29: 'SLC4A3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'SLC4A3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0608 (Fisher's exact test), Q value = 0.47

Table S299.  Gene #29: 'SLC4A3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
SLC4A3 MUTATED 2 14 1
SLC4A3 WILD-TYPE 94 208 93
'STK19 MUTATION STATUS' versus 'CN_CNMF'

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

Table S300.  Gene #30: 'STK19 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
STK19 MUTATED 2 1 1 1
STK19 WILD-TYPE 156 126 122 69
'STK19 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S301.  Gene #30: 'STK19 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
STK19 MUTATED 2 2 1
STK19 WILD-TYPE 144 165 116
'STK19 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.825 (Fisher's exact test), Q value = 1

Table S302.  Gene #30: 'STK19 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
STK19 MUTATED 1 0 0 0 2
STK19 WILD-TYPE 88 22 59 65 99
'STK19 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.584 (Fisher's exact test), Q value = 1

Table S303.  Gene #30: 'STK19 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
STK19 MUTATED 1 1 1
STK19 WILD-TYPE 155 120 58
'STK19 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.691 (Fisher's exact test), Q value = 1

Table S304.  Gene #30: 'STK19 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
STK19 MUTATED 2 1 1 0 1
STK19 WILD-TYPE 125 108 85 105 50
'STK19 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.975 (Fisher's exact test), Q value = 1

Table S305.  Gene #30: 'STK19 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
STK19 MUTATED 1 1 1 0 0 1 1
STK19 WILD-TYPE 71 108 89 44 49 45 67
'STK19 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.622 (Fisher's exact test), Q value = 1

Table S306.  Gene #30: 'STK19 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
STK19 MUTATED 1 2 2
STK19 WILD-TYPE 171 203 97
'STK19 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S307.  Gene #30: 'STK19 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
STK19 MUTATED 0 0 3 2 0 0
STK19 WILD-TYPE 70 37 132 118 86 28
'STK19 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.39 (Fisher's exact test), Q value = 0.88

Table S308.  Gene #30: 'STK19 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
STK19 MUTATED 1 2 0 0 0 2
STK19 WILD-TYPE 54 83 97 42 60 71
'STK19 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.615 (Fisher's exact test), Q value = 1

Table S309.  Gene #30: 'STK19 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
STK19 MUTATED 1 4 0
STK19 WILD-TYPE 95 218 94
'NUDT11 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.163 (Fisher's exact test), Q value = 0.66

Table S310.  Gene #31: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
NUDT11 MUTATED 1 0 2 2
NUDT11 WILD-TYPE 157 127 121 68
'NUDT11 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S311.  Gene #31: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
NUDT11 MUTATED 2 2 1
NUDT11 WILD-TYPE 144 165 116
'NUDT11 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.623 (Fisher's exact test), Q value = 1

Table S312.  Gene #31: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
NUDT11 MUTATED 1 0 2 0 1
NUDT11 WILD-TYPE 88 22 57 65 100
'NUDT11 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.831 (Fisher's exact test), Q value = 1

Table S313.  Gene #31: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
NUDT11 MUTATED 2 1 1
NUDT11 WILD-TYPE 154 120 58
'NUDT11 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.112 (Fisher's exact test), Q value = 0.58

Table S314.  Gene #31: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
NUDT11 MUTATED 1 1 0 0 2
NUDT11 WILD-TYPE 126 108 86 105 49
'NUDT11 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.305 (Fisher's exact test), Q value = 0.79

Table S315.  Gene #31: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
NUDT11 MUTATED 0 1 0 1 0 0 2
NUDT11 WILD-TYPE 72 108 90 43 49 46 66
'NUDT11 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0731 (Fisher's exact test), Q value = 0.51

Table S316.  Gene #31: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
NUDT11 MUTATED 4 0 1
NUDT11 WILD-TYPE 168 205 98
'NUDT11 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.577 (Fisher's exact test), Q value = 1

Table S317.  Gene #31: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
NUDT11 MUTATED 2 0 1 2 0 0
NUDT11 WILD-TYPE 68 37 134 118 86 28
'NUDT11 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.831 (Fisher's exact test), Q value = 1

Table S318.  Gene #31: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
NUDT11 MUTATED 1 0 1 0 1 1
NUDT11 WILD-TYPE 54 85 96 42 59 72
'NUDT11 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.044 (Fisher's exact test), Q value = 0.43

Table S319.  Gene #31: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
NUDT11 MUTATED 2 0 2
NUDT11 WILD-TYPE 94 222 92

Figure S66.  Get High-res Image Gene #31: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'SLAMF9 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0873 (Fisher's exact test), Q value = 0.55

Table S320.  Gene #32: 'SLAMF9 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
SLAMF9 MUTATED 7 3 0 2
SLAMF9 WILD-TYPE 151 124 123 68
'SLAMF9 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0633 (Fisher's exact test), Q value = 0.47

Table S321.  Gene #32: 'SLAMF9 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
SLAMF9 MUTATED 6 5 0
SLAMF9 WILD-TYPE 140 162 117
'SLAMF9 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.933 (Fisher's exact test), Q value = 1

Table S322.  Gene #32: 'SLAMF9 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
SLAMF9 MUTATED 4 0 2 3 3
SLAMF9 WILD-TYPE 85 22 57 62 98
'SLAMF9 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S323.  Gene #32: 'SLAMF9 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
SLAMF9 MUTATED 6 4 2
SLAMF9 WILD-TYPE 150 117 57
'SLAMF9 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0862 (Fisher's exact test), Q value = 0.55

Table S324.  Gene #32: 'SLAMF9 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
SLAMF9 MUTATED 6 0 2 4 0
SLAMF9 WILD-TYPE 121 109 84 101 51
'SLAMF9 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.599 (Fisher's exact test), Q value = 1

Table S325.  Gene #32: 'SLAMF9 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
SLAMF9 MUTATED 2 4 4 0 1 1 0
SLAMF9 WILD-TYPE 70 105 86 44 48 45 68
'SLAMF9 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0909 (Fisher's exact test), Q value = 0.55

Table S326.  Gene #32: 'SLAMF9 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
SLAMF9 MUTATED 1 8 3
SLAMF9 WILD-TYPE 171 197 96
'SLAMF9 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0167 (Fisher's exact test), Q value = 0.27

Table S327.  Gene #32: 'SLAMF9 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
SLAMF9 MUTATED 0 0 8 0 3 1
SLAMF9 WILD-TYPE 70 37 127 120 83 27

Figure S67.  Get High-res Image Gene #32: 'SLAMF9 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'SLAMF9 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.643 (Fisher's exact test), Q value = 1

Table S328.  Gene #32: 'SLAMF9 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
SLAMF9 MUTATED 0 4 3 1 1 1
SLAMF9 WILD-TYPE 55 81 94 41 59 72
'SLAMF9 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.639 (Fisher's exact test), Q value = 1

Table S329.  Gene #32: 'SLAMF9 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
SLAMF9 MUTATED 1 7 2
SLAMF9 WILD-TYPE 95 215 92
'DNMT3A MUTATION STATUS' versus 'CN_CNMF'

P value = 0.161 (Fisher's exact test), Q value = 0.66

Table S330.  Gene #33: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
DNMT3A MUTATED 5 9 2 3
DNMT3A WILD-TYPE 153 118 121 67
'DNMT3A MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.388 (Fisher's exact test), Q value = 0.88

Table S331.  Gene #33: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
DNMT3A MUTATED 9 5 5
DNMT3A WILD-TYPE 137 162 112
'DNMT3A MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.577 (Fisher's exact test), Q value = 1

Table S332.  Gene #33: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
DNMT3A MUTATED 3 1 0 2 4
DNMT3A WILD-TYPE 86 21 59 63 97
'DNMT3A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.294 (Fisher's exact test), Q value = 0.78

Table S333.  Gene #33: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
DNMT3A MUTATED 3 6 1
DNMT3A WILD-TYPE 153 115 58
'DNMT3A MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.207 (Fisher's exact test), Q value = 0.72

Table S334.  Gene #33: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
DNMT3A MUTATED 5 3 7 4 0
DNMT3A WILD-TYPE 122 106 79 101 51
'DNMT3A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S335.  Gene #33: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
DNMT3A MUTATED 3 3 5 1 2 4 1
DNMT3A WILD-TYPE 69 106 85 43 47 42 67
'DNMT3A MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.332 (Fisher's exact test), Q value = 0.81

Table S336.  Gene #33: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
DNMT3A MUTATED 4 11 4
DNMT3A WILD-TYPE 168 194 95
'DNMT3A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.497 (Fisher's exact test), Q value = 0.96

Table S337.  Gene #33: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
DNMT3A MUTATED 2 1 5 4 7 0
DNMT3A WILD-TYPE 68 36 130 116 79 28
'DNMT3A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.259 (Fisher's exact test), Q value = 0.76

Table S338.  Gene #33: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
DNMT3A MUTATED 0 5 3 1 3 6
DNMT3A WILD-TYPE 55 80 94 41 57 67
'DNMT3A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0425 (Fisher's exact test), Q value = 0.43

Table S339.  Gene #33: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
DNMT3A MUTATED 1 15 2
DNMT3A WILD-TYPE 95 207 92

Figure S68.  Get High-res Image Gene #33: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'CTNNB1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0215 (Fisher's exact test), Q value = 0.3

Table S340.  Gene #34: 'CTNNB1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
CTNNB1 MUTATED 3 2 8 6
CTNNB1 WILD-TYPE 155 125 115 64

Figure S69.  Get High-res Image Gene #34: 'CTNNB1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'CTNNB1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.126 (Fisher's exact test), Q value = 0.59

Table S341.  Gene #34: 'CTNNB1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
CTNNB1 MUTATED 7 8 1
CTNNB1 WILD-TYPE 139 159 116
'CTNNB1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0359 (Fisher's exact test), Q value = 0.39

Table S342.  Gene #34: 'CTNNB1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
CTNNB1 MUTATED 1 1 6 1 2
CTNNB1 WILD-TYPE 88 21 53 64 99

Figure S70.  Get High-res Image Gene #34: 'CTNNB1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

'CTNNB1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.253 (Fisher's exact test), Q value = 0.76

Table S343.  Gene #34: 'CTNNB1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
CTNNB1 MUTATED 8 2 1
CTNNB1 WILD-TYPE 148 119 58
'CTNNB1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.222 (Fisher's exact test), Q value = 0.75

Table S344.  Gene #34: 'CTNNB1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
CTNNB1 MUTATED 4 5 1 8 1
CTNNB1 WILD-TYPE 123 104 85 97 50
'CTNNB1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.406 (Fisher's exact test), Q value = 0.88

Table S345.  Gene #34: 'CTNNB1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
CTNNB1 MUTATED 4 2 5 4 1 1 2
CTNNB1 WILD-TYPE 68 107 85 40 48 45 66
'CTNNB1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.913 (Fisher's exact test), Q value = 1

Table S346.  Gene #34: 'CTNNB1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
CTNNB1 MUTATED 7 9 3
CTNNB1 WILD-TYPE 165 196 96
'CTNNB1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.813 (Fisher's exact test), Q value = 1

Table S347.  Gene #34: 'CTNNB1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
CTNNB1 MUTATED 3 0 6 4 5 1
CTNNB1 WILD-TYPE 67 37 129 116 81 27
'CTNNB1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.383 (Fisher's exact test), Q value = 0.87

Table S348.  Gene #34: 'CTNNB1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
CTNNB1 MUTATED 1 1 1 2 2 4
CTNNB1 WILD-TYPE 54 84 96 40 58 69
'CTNNB1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S349.  Gene #34: 'CTNNB1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
CTNNB1 MUTATED 3 6 2
CTNNB1 WILD-TYPE 93 216 92
'PTPRU MUTATION STATUS' versus 'CN_CNMF'

P value = 0.02 (Fisher's exact test), Q value = 0.3

Table S350.  Gene #35: 'PTPRU MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
PTPRU MUTATED 9 7 0 2
PTPRU WILD-TYPE 149 120 123 68

Figure S71.  Get High-res Image Gene #35: 'PTPRU MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'PTPRU MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.158 (Fisher's exact test), Q value = 0.66

Table S351.  Gene #35: 'PTPRU MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
PTPRU MUTATED 5 8 1
PTPRU WILD-TYPE 141 159 116
'PTPRU MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.102 (Fisher's exact test), Q value = 0.57

Table S352.  Gene #35: 'PTPRU MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
PTPRU MUTATED 3 3 2 5 2
PTPRU WILD-TYPE 86 19 57 60 99
'PTPRU MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0262 (Fisher's exact test), Q value = 0.34

Table S353.  Gene #35: 'PTPRU MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
PTPRU MUTATED 5 10 0
PTPRU WILD-TYPE 151 111 59

Figure S72.  Get High-res Image Gene #35: 'PTPRU MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'PTPRU MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0518 (Fisher's exact test), Q value = 0.46

Table S354.  Gene #35: 'PTPRU MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
PTPRU MUTATED 9 1 1 6 1
PTPRU WILD-TYPE 118 108 85 99 50
'PTPRU MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0626 (Fisher's exact test), Q value = 0.47

Table S355.  Gene #35: 'PTPRU MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
PTPRU MUTATED 2 6 8 0 1 1 0
PTPRU WILD-TYPE 70 103 82 44 48 45 68
'PTPRU MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.00298 (Fisher's exact test), Q value = 0.073

Table S356.  Gene #35: 'PTPRU MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
PTPRU MUTATED 1 14 2
PTPRU WILD-TYPE 171 191 97

Figure S73.  Get High-res Image Gene #35: 'PTPRU MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'PTPRU MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00527 (Fisher's exact test), Q value = 0.11

Table S357.  Gene #35: 'PTPRU MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
PTPRU MUTATED 0 0 11 1 5 0
PTPRU WILD-TYPE 70 37 124 119 81 28

Figure S74.  Get High-res Image Gene #35: 'PTPRU MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'PTPRU MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.226 (Fisher's exact test), Q value = 0.75

Table S358.  Gene #35: 'PTPRU MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
PTPRU MUTATED 0 5 1 1 2 4
PTPRU WILD-TYPE 55 80 96 41 58 69
'PTPRU MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.11 (Fisher's exact test), Q value = 0.58

Table S359.  Gene #35: 'PTPRU MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
PTPRU MUTATED 1 11 1
PTPRU WILD-TYPE 95 211 93
'PIK3CA MUTATION STATUS' versus 'CN_CNMF'

P value = 0.53 (Fisher's exact test), Q value = 0.99

Table S360.  Gene #36: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
PIK3CA MUTATED 8 10 8 2
PIK3CA WILD-TYPE 150 117 115 68
'PIK3CA MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.208 (Fisher's exact test), Q value = 0.72

Table S361.  Gene #36: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
PIK3CA MUTATED 9 6 10
PIK3CA WILD-TYPE 137 161 107
'PIK3CA MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.149 (Fisher's exact test), Q value = 0.64

Table S362.  Gene #36: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
PIK3CA MUTATED 2 2 2 5 10
PIK3CA WILD-TYPE 87 20 57 60 91
'PIK3CA MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.138 (Fisher's exact test), Q value = 0.62

Table S363.  Gene #36: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
PIK3CA MUTATED 7 7 7
PIK3CA WILD-TYPE 149 114 52
'PIK3CA MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0197 (Fisher's exact test), Q value = 0.3

Table S364.  Gene #36: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
PIK3CA MUTATED 4 5 10 3 6
PIK3CA WILD-TYPE 123 104 76 102 45

Figure S75.  Get High-res Image Gene #36: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'PIK3CA MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0258 (Fisher's exact test), Q value = 0.34

Table S365.  Gene #36: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
PIK3CA MUTATED 6 5 12 1 0 2 2
PIK3CA WILD-TYPE 66 104 78 43 49 44 66

Figure S76.  Get High-res Image Gene #36: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'PIK3CA MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S366.  Gene #36: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
PIK3CA MUTATED 9 12 7
PIK3CA WILD-TYPE 163 193 92
'PIK3CA MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0872 (Fisher's exact test), Q value = 0.55

Table S367.  Gene #36: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
PIK3CA MUTATED 1 0 8 9 6 4
PIK3CA WILD-TYPE 69 37 127 111 80 24
'PIK3CA MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.11 (Fisher's exact test), Q value = 0.58

Table S368.  Gene #36: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
PIK3CA MUTATED 2 1 10 3 2 5
PIK3CA WILD-TYPE 53 84 87 39 58 68
'PIK3CA MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.202 (Fisher's exact test), Q value = 0.72

Table S369.  Gene #36: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
PIK3CA MUTATED 2 14 7
PIK3CA WILD-TYPE 94 208 87
'ZNF608 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.463 (Fisher's exact test), Q value = 0.93

Table S370.  Gene #37: 'ZNF608 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
ZNF608 MUTATED 1 3 3 2
ZNF608 WILD-TYPE 157 124 120 68
'ZNF608 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.586 (Fisher's exact test), Q value = 1

Table S371.  Gene #37: 'ZNF608 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
ZNF608 MUTATED 4 2 3
ZNF608 WILD-TYPE 142 165 114
'ZNF608 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.232 (Fisher's exact test), Q value = 0.75

Table S372.  Gene #37: 'ZNF608 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
ZNF608 MUTATED 0 0 0 1 4
ZNF608 WILD-TYPE 89 22 59 64 97
'ZNF608 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S373.  Gene #37: 'ZNF608 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
ZNF608 MUTATED 2 2 1
ZNF608 WILD-TYPE 154 119 58
'ZNF608 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.464 (Fisher's exact test), Q value = 0.93

Table S374.  Gene #37: 'ZNF608 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
ZNF608 MUTATED 1 1 2 4 1
ZNF608 WILD-TYPE 126 108 84 101 50
'ZNF608 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00901 (Fisher's exact test), Q value = 0.16

Table S375.  Gene #37: 'ZNF608 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
ZNF608 MUTATED 1 0 1 2 4 1 0
ZNF608 WILD-TYPE 71 109 89 42 45 45 68

Figure S77.  Get High-res Image Gene #37: 'ZNF608 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'ZNF608 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S376.  Gene #37: 'ZNF608 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
ZNF608 MUTATED 2 5 2
ZNF608 WILD-TYPE 170 200 97
'ZNF608 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S377.  Gene #37: 'ZNF608 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
ZNF608 MUTATED 0 1 3 2 3 0
ZNF608 WILD-TYPE 70 36 132 118 83 28
'ZNF608 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.034 (Fisher's exact test), Q value = 0.39

Table S378.  Gene #37: 'ZNF608 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
ZNF608 MUTATED 1 6 0 0 1 1
ZNF608 WILD-TYPE 54 79 97 42 59 72

Figure S78.  Get High-res Image Gene #37: 'ZNF608 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'ZNF608 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.233 (Fisher's exact test), Q value = 0.75

Table S379.  Gene #37: 'ZNF608 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
ZNF608 MUTATED 2 7 0
ZNF608 WILD-TYPE 94 215 94
'STIM1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.257 (Fisher's exact test), Q value = 0.76

Table S380.  Gene #38: 'STIM1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
STIM1 MUTATED 4 1 1 3
STIM1 WILD-TYPE 154 126 122 67
'STIM1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.181 (Fisher's exact test), Q value = 0.69

Table S381.  Gene #38: 'STIM1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
STIM1 MUTATED 4 4 0
STIM1 WILD-TYPE 142 163 117
'STIM1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.877 (Fisher's exact test), Q value = 1

Table S382.  Gene #38: 'STIM1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
STIM1 MUTATED 2 0 1 2 1
STIM1 WILD-TYPE 87 22 58 63 100
'STIM1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.862 (Fisher's exact test), Q value = 1

Table S383.  Gene #38: 'STIM1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
STIM1 MUTATED 2 3 1
STIM1 WILD-TYPE 154 118 58
'STIM1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.115 (Fisher's exact test), Q value = 0.58

Table S384.  Gene #38: 'STIM1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
STIM1 MUTATED 6 1 0 2 0
STIM1 WILD-TYPE 121 108 86 103 51
'STIM1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.269 (Fisher's exact test), Q value = 0.76

Table S385.  Gene #38: 'STIM1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
STIM1 MUTATED 1 5 3 0 0 0 0
STIM1 WILD-TYPE 71 104 87 44 49 46 68
'STIM1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.257 (Fisher's exact test), Q value = 0.76

Table S386.  Gene #38: 'STIM1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
STIM1 MUTATED 3 6 0
STIM1 WILD-TYPE 169 199 99
'STIM1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.261 (Fisher's exact test), Q value = 0.76

Table S387.  Gene #38: 'STIM1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
STIM1 MUTATED 2 0 5 0 2 0
STIM1 WILD-TYPE 68 37 130 120 84 28
'STIM1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S388.  Gene #38: 'STIM1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
STIM1 MUTATED 0 3 1 0 1 2
STIM1 WILD-TYPE 55 82 96 42 59 71
'STIM1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.779 (Fisher's exact test), Q value = 1

Table S389.  Gene #38: 'STIM1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
STIM1 MUTATED 1 5 1
STIM1 WILD-TYPE 95 217 93
'EMG1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.184 (Fisher's exact test), Q value = 0.7

Table S390.  Gene #39: 'EMG1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 8 8 4
EMG1 MUTATED 3 0 0
EMG1 WILD-TYPE 5 8 4
'EMG1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.555 (Fisher's exact test), Q value = 1

Table S391.  Gene #39: 'EMG1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 7 9 4
EMG1 MUTATED 2 1 0
EMG1 WILD-TYPE 5 8 4
'EMG1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.292 (Fisher's exact test), Q value = 0.78

Table S392.  Gene #39: 'EMG1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
EMG1 MUTATED 2 0 3 0
EMG1 WILD-TYPE 156 127 120 70
'EMG1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.496 (Fisher's exact test), Q value = 0.96

Table S393.  Gene #39: 'EMG1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
EMG1 MUTATED 0 2 1
EMG1 WILD-TYPE 146 165 116
'EMG1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.749 (Fisher's exact test), Q value = 1

Table S394.  Gene #39: 'EMG1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
EMG1 MUTATED 2 0 0 0 1
EMG1 WILD-TYPE 87 22 59 65 100
'EMG1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.294 (Fisher's exact test), Q value = 0.78

Table S395.  Gene #39: 'EMG1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
EMG1 MUTATED 3 0 0
EMG1 WILD-TYPE 153 121 59
'EMG1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.27 (Fisher's exact test), Q value = 0.76

Table S396.  Gene #39: 'EMG1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
EMG1 MUTATED 2 3 0 0 0
EMG1 WILD-TYPE 125 106 86 105 51
'EMG1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.262 (Fisher's exact test), Q value = 0.76

Table S397.  Gene #39: 'EMG1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
EMG1 MUTATED 3 1 0 0 0 0 1
EMG1 WILD-TYPE 69 108 90 44 49 46 67
'EMG1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.226 (Fisher's exact test), Q value = 0.75

Table S398.  Gene #39: 'EMG1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
EMG1 MUTATED 4 1 0
EMG1 WILD-TYPE 168 204 99
'EMG1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.314 (Fisher's exact test), Q value = 0.8

Table S399.  Gene #39: 'EMG1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
EMG1 MUTATED 2 0 1 1 0 1
EMG1 WILD-TYPE 68 37 134 119 86 27
'PHKA1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0368 (Fisher's exact test), Q value = 0.4

Table S400.  Gene #40: 'PHKA1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
PHKA1 MUTATED 8 2 0 2
PHKA1 WILD-TYPE 150 125 123 68

Figure S79.  Get High-res Image Gene #40: 'PHKA1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'PHKA1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.115 (Fisher's exact test), Q value = 0.58

Table S401.  Gene #40: 'PHKA1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
PHKA1 MUTATED 7 3 1
PHKA1 WILD-TYPE 139 164 116
'PHKA1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.693 (Fisher's exact test), Q value = 1

Table S402.  Gene #40: 'PHKA1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
PHKA1 MUTATED 2 1 2 1 5
PHKA1 WILD-TYPE 87 21 57 64 96
'PHKA1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.78 (Fisher's exact test), Q value = 1

Table S403.  Gene #40: 'PHKA1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
PHKA1 MUTATED 5 5 1
PHKA1 WILD-TYPE 151 116 58
'PHKA1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.249 (Fisher's exact test), Q value = 0.76

Table S404.  Gene #40: 'PHKA1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
PHKA1 MUTATED 5 3 0 4 0
PHKA1 WILD-TYPE 122 106 86 101 51
'PHKA1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.353 (Fisher's exact test), Q value = 0.84

Table S405.  Gene #40: 'PHKA1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
PHKA1 MUTATED 1 6 3 0 1 1 0
PHKA1 WILD-TYPE 71 103 87 44 48 45 68
'PHKA1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.326 (Fisher's exact test), Q value = 0.81

Table S406.  Gene #40: 'PHKA1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
PHKA1 MUTATED 3 8 1
PHKA1 WILD-TYPE 169 197 98
'PHKA1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.354 (Fisher's exact test), Q value = 0.84

Table S407.  Gene #40: 'PHKA1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
PHKA1 MUTATED 1 2 4 1 4 0
PHKA1 WILD-TYPE 69 35 131 119 82 28
'PHKA1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.516 (Fisher's exact test), Q value = 0.97

Table S408.  Gene #40: 'PHKA1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
PHKA1 MUTATED 0 4 3 0 1 3
PHKA1 WILD-TYPE 55 81 94 42 59 70
'PHKA1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0873 (Fisher's exact test), Q value = 0.55

Table S409.  Gene #40: 'PHKA1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
PHKA1 MUTATED 0 9 2
PHKA1 WILD-TYPE 96 213 92
'PAK1 MUTATION STATUS' versus 'CN_CNMF'

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

Table S410.  Gene #41: 'PAK1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
PAK1 MUTATED 3 3 2 1
PAK1 WILD-TYPE 155 124 121 69
'PAK1 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S411.  Gene #41: 'PAK1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
PAK1 MUTATED 4 2 3
PAK1 WILD-TYPE 142 165 114
'PAK1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.296 (Fisher's exact test), Q value = 0.78

Table S412.  Gene #41: 'PAK1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
PAK1 MUTATED 1 1 3 1 1
PAK1 WILD-TYPE 88 21 56 64 100
'PAK1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.883 (Fisher's exact test), Q value = 1

Table S413.  Gene #41: 'PAK1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
PAK1 MUTATED 4 2 1
PAK1 WILD-TYPE 152 119 58
'PAK1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.301 (Fisher's exact test), Q value = 0.79

Table S414.  Gene #41: 'PAK1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
PAK1 MUTATED 1 4 3 1 0
PAK1 WILD-TYPE 126 105 83 104 51
'PAK1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.255 (Fisher's exact test), Q value = 0.76

Table S415.  Gene #41: 'PAK1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
PAK1 MUTATED 1 0 2 2 1 2 1
PAK1 WILD-TYPE 71 109 88 42 48 44 67
'PAK1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.908 (Fisher's exact test), Q value = 1

Table S416.  Gene #41: 'PAK1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
PAK1 MUTATED 4 4 1
PAK1 WILD-TYPE 168 201 98
'PAK1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.982 (Fisher's exact test), Q value = 1

Table S417.  Gene #41: 'PAK1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
PAK1 MUTATED 2 0 3 2 2 0
PAK1 WILD-TYPE 68 37 132 118 84 28
'PAK1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S418.  Gene #41: 'PAK1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
PAK1 MUTATED 1 2 3 1 0 2
PAK1 WILD-TYPE 54 83 94 41 60 71
'PAK1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S419.  Gene #41: 'PAK1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
PAK1 MUTATED 2 5 2
PAK1 WILD-TYPE 94 217 92
'NRAS MUTATION STATUS' versus 'CN_CNMF'

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

Table S420.  Gene #42: 'NRAS MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
NRAS MUTATED 1 1 0 1
NRAS WILD-TYPE 157 126 123 69
'NRAS MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.119 (Fisher's exact test), Q value = 0.58

Table S421.  Gene #42: 'NRAS MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
NRAS MUTATED 3 0 0 0 0
NRAS WILD-TYPE 124 109 86 105 51
'NRAS MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S422.  Gene #42: 'NRAS MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
NRAS MUTATED 0 2 1 0 0 0 0
NRAS WILD-TYPE 72 107 89 44 49 46 68
'NRAS MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.236 (Fisher's exact test), Q value = 0.75

Table S423.  Gene #42: 'NRAS MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
NRAS MUTATED 0 3 0
NRAS WILD-TYPE 172 202 99
'NRAS MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.381 (Fisher's exact test), Q value = 0.87

Table S424.  Gene #42: 'NRAS MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
NRAS MUTATED 0 0 3 0 0 0
NRAS WILD-TYPE 70 37 132 120 86 28
'G3BP1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.215 (Fisher's exact test), Q value = 0.73

Table S425.  Gene #43: 'G3BP1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
G3BP1 MUTATED 1 1 4 2
G3BP1 WILD-TYPE 157 126 119 68
'G3BP1 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S426.  Gene #43: 'G3BP1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
G3BP1 MUTATED 1 1 2
G3BP1 WILD-TYPE 145 166 115
'G3BP1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.931 (Fisher's exact test), Q value = 1

Table S427.  Gene #43: 'G3BP1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
G3BP1 MUTATED 1 0 1 2 2
G3BP1 WILD-TYPE 88 22 58 63 99
'G3BP1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.336 (Fisher's exact test), Q value = 0.81

Table S428.  Gene #43: 'G3BP1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
G3BP1 MUTATED 2 4 0
G3BP1 WILD-TYPE 154 117 59
'G3BP1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S429.  Gene #43: 'G3BP1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
G3BP1 MUTATED 1 2 1 3 1
G3BP1 WILD-TYPE 126 107 85 102 50
'G3BP1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.831 (Fisher's exact test), Q value = 1

Table S430.  Gene #43: 'G3BP1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
G3BP1 MUTATED 0 3 2 1 1 0 1
G3BP1 WILD-TYPE 72 106 88 43 48 46 67
'G3BP1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.903 (Fisher's exact test), Q value = 1

Table S431.  Gene #43: 'G3BP1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
G3BP1 MUTATED 3 3 2
G3BP1 WILD-TYPE 169 202 97
'G3BP1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S432.  Gene #43: 'G3BP1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
G3BP1 MUTATED 1 1 1 3 2 0
G3BP1 WILD-TYPE 69 36 134 117 84 28
'G3BP1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.259 (Fisher's exact test), Q value = 0.76

Table S433.  Gene #43: 'G3BP1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
G3BP1 MUTATED 0 0 3 0 1 0
G3BP1 WILD-TYPE 55 85 94 42 59 73
'G3BP1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.431 (Fisher's exact test), Q value = 0.9

Table S434.  Gene #43: 'G3BP1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
G3BP1 MUTATED 0 2 2
G3BP1 WILD-TYPE 96 220 92
'TRERF1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0676 (Fisher's exact test), Q value = 0.49

Table S435.  Gene #44: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
TRERF1 MUTATED 6 9 1 2
TRERF1 WILD-TYPE 152 118 122 68
'TRERF1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.405 (Fisher's exact test), Q value = 0.88

Table S436.  Gene #44: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
TRERF1 MUTATED 7 7 2
TRERF1 WILD-TYPE 139 160 115
'TRERF1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.294 (Fisher's exact test), Q value = 0.78

Table S437.  Gene #44: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
TRERF1 MUTATED 1 1 4 1 4
TRERF1 WILD-TYPE 88 21 55 64 97
'TRERF1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.657 (Fisher's exact test), Q value = 1

Table S438.  Gene #44: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
TRERF1 MUTATED 5 3 3
TRERF1 WILD-TYPE 151 118 56
'TRERF1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.255 (Fisher's exact test), Q value = 0.76

Table S439.  Gene #44: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
TRERF1 MUTATED 7 1 5 3 2
TRERF1 WILD-TYPE 120 108 81 102 49
'TRERF1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.305 (Fisher's exact test), Q value = 0.79

Table S440.  Gene #44: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
TRERF1 MUTATED 1 5 5 1 0 4 2
TRERF1 WILD-TYPE 71 104 85 43 49 42 66
'TRERF1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0115 (Fisher's exact test), Q value = 0.2

Table S441.  Gene #44: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
TRERF1 MUTATED 2 14 2
TRERF1 WILD-TYPE 170 191 97

Figure S80.  Get High-res Image Gene #44: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'TRERF1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0437 (Fisher's exact test), Q value = 0.43

Table S442.  Gene #44: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
TRERF1 MUTATED 1 0 12 3 2 0
TRERF1 WILD-TYPE 69 37 123 117 84 28

Figure S81.  Get High-res Image Gene #44: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'TRERF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.123 (Fisher's exact test), Q value = 0.59

Table S443.  Gene #44: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
TRERF1 MUTATED 0 3 5 0 1 6
TRERF1 WILD-TYPE 55 82 92 42 59 67
'TRERF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.228 (Fisher's exact test), Q value = 0.75

Table S444.  Gene #44: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
TRERF1 MUTATED 1 11 3
TRERF1 WILD-TYPE 95 211 91
'CACNA1F MUTATION STATUS' versus 'CN_CNMF'

P value = 0.457 (Fisher's exact test), Q value = 0.92

Table S445.  Gene #45: 'CACNA1F MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
CACNA1F MUTATED 12 5 5 5
CACNA1F WILD-TYPE 146 122 118 65
'CACNA1F MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.648 (Fisher's exact test), Q value = 1

Table S446.  Gene #45: 'CACNA1F MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
CACNA1F MUTATED 10 11 5
CACNA1F WILD-TYPE 136 156 112
'CACNA1F MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.203 (Fisher's exact test), Q value = 0.72

Table S447.  Gene #45: 'CACNA1F MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
CACNA1F MUTATED 6 3 1 5 4
CACNA1F WILD-TYPE 83 19 58 60 97
'CACNA1F MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.819 (Fisher's exact test), Q value = 1

Table S448.  Gene #45: 'CACNA1F MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
CACNA1F MUTATED 8 7 4
CACNA1F WILD-TYPE 148 114 55
'CACNA1F MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.125 (Fisher's exact test), Q value = 0.59

Table S449.  Gene #45: 'CACNA1F MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
CACNA1F MUTATED 11 2 6 4 4
CACNA1F WILD-TYPE 116 107 80 101 47
'CACNA1F MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0982 (Fisher's exact test), Q value = 0.56

Table S450.  Gene #45: 'CACNA1F MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
CACNA1F MUTATED 1 5 7 1 1 5 7
CACNA1F WILD-TYPE 71 104 83 43 48 41 61
'CACNA1F MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0236 (Fisher's exact test), Q value = 0.31

Table S451.  Gene #45: 'CACNA1F MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
CACNA1F MUTATED 9 17 1
CACNA1F WILD-TYPE 163 188 98

Figure S82.  Get High-res Image Gene #45: 'CACNA1F MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'CACNA1F MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.599 (Fisher's exact test), Q value = 1

Table S452.  Gene #45: 'CACNA1F MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
CACNA1F MUTATED 4 4 7 8 4 0
CACNA1F WILD-TYPE 66 33 128 112 82 28
'CACNA1F MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.241 (Fisher's exact test), Q value = 0.75

Table S453.  Gene #45: 'CACNA1F MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
CACNA1F MUTATED 3 4 6 0 7 6
CACNA1F WILD-TYPE 52 81 91 42 53 67
'CACNA1F MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S454.  Gene #45: 'CACNA1F MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
CACNA1F MUTATED 6 16 4
CACNA1F WILD-TYPE 90 206 90
'NFE2L2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.923 (Fisher's exact test), Q value = 1

Table S455.  Gene #46: 'NFE2L2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
NFE2L2 MUTATED 4 4 4 1
NFE2L2 WILD-TYPE 154 123 119 69
'NFE2L2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.711 (Fisher's exact test), Q value = 1

Table S456.  Gene #46: 'NFE2L2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
NFE2L2 MUTATED 5 5 2
NFE2L2 WILD-TYPE 141 162 115
'NFE2L2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.268 (Fisher's exact test), Q value = 0.76

Table S457.  Gene #46: 'NFE2L2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
NFE2L2 MUTATED 1 2 2 1 2
NFE2L2 WILD-TYPE 88 20 57 64 99
'NFE2L2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.249 (Fisher's exact test), Q value = 0.76

Table S458.  Gene #46: 'NFE2L2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
NFE2L2 MUTATED 6 1 1
NFE2L2 WILD-TYPE 150 120 58
'NFE2L2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.349 (Fisher's exact test), Q value = 0.83

Table S459.  Gene #46: 'NFE2L2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
NFE2L2 MUTATED 2 2 5 2 2
NFE2L2 WILD-TYPE 125 107 81 103 49
'NFE2L2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.038 (Fisher's exact test), Q value = 0.4

Table S460.  Gene #46: 'NFE2L2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
NFE2L2 MUTATED 0 2 3 3 0 4 1
NFE2L2 WILD-TYPE 72 107 87 41 49 42 67

Figure S83.  Get High-res Image Gene #46: 'NFE2L2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'NFE2L2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S461.  Gene #46: 'NFE2L2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
NFE2L2 MUTATED 3 6 3
NFE2L2 WILD-TYPE 169 199 96
'NFE2L2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.232 (Fisher's exact test), Q value = 0.75

Table S462.  Gene #46: 'NFE2L2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
NFE2L2 MUTATED 2 0 7 1 1 1
NFE2L2 WILD-TYPE 68 37 128 119 85 27
'NFE2L2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.351 (Fisher's exact test), Q value = 0.84

Table S463.  Gene #46: 'NFE2L2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
NFE2L2 MUTATED 3 1 1 2 2 1
NFE2L2 WILD-TYPE 52 84 96 40 58 72
'NFE2L2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.759 (Fisher's exact test), Q value = 1

Table S464.  Gene #46: 'NFE2L2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
NFE2L2 MUTATED 3 6 1
NFE2L2 WILD-TYPE 93 216 93
'RPL5 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0294 (Fisher's exact test), Q value = 0.36

Table S465.  Gene #47: 'RPL5 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
RPL5 MUTATED 1 1 6 0
RPL5 WILD-TYPE 157 126 117 70

Figure S84.  Get High-res Image Gene #47: 'RPL5 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'RPL5 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S466.  Gene #47: 'RPL5 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
RPL5 MUTATED 4 2 2
RPL5 WILD-TYPE 142 165 115
'RPL5 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.901 (Fisher's exact test), Q value = 1

Table S467.  Gene #47: 'RPL5 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
RPL5 MUTATED 1 0 2 1 2
RPL5 WILD-TYPE 88 22 57 64 99
'RPL5 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.129 (Fisher's exact test), Q value = 0.6

Table S468.  Gene #47: 'RPL5 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
RPL5 MUTATED 5 0 1
RPL5 WILD-TYPE 151 121 58
'RPL5 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.796 (Fisher's exact test), Q value = 1

Table S469.  Gene #47: 'RPL5 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
RPL5 MUTATED 1 3 1 2 1
RPL5 WILD-TYPE 126 106 85 103 50
'RPL5 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.719 (Fisher's exact test), Q value = 1

Table S470.  Gene #47: 'RPL5 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
RPL5 MUTATED 1 1 2 2 0 1 1
RPL5 WILD-TYPE 71 108 88 42 49 45 67
'RPL5 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.525 (Fisher's exact test), Q value = 0.98

Table S471.  Gene #47: 'RPL5 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
RPL5 MUTATED 2 3 3
RPL5 WILD-TYPE 170 202 96
'RPL5 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.721 (Fisher's exact test), Q value = 1

Table S472.  Gene #47: 'RPL5 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
RPL5 MUTATED 0 0 3 2 3 0
RPL5 WILD-TYPE 70 37 132 118 83 28
'RPL5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.563 (Fisher's exact test), Q value = 1

Table S473.  Gene #47: 'RPL5 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
RPL5 MUTATED 2 3 1 1 0 1
RPL5 WILD-TYPE 53 82 96 41 60 72
'RPL5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.898 (Fisher's exact test), Q value = 1

Table S474.  Gene #47: 'RPL5 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
RPL5 MUTATED 2 5 1
RPL5 WILD-TYPE 94 217 93
'STRA8 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0327 (Fisher's exact test), Q value = 0.38

Table S475.  Gene #48: 'STRA8 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
STRA8 MUTATED 1 4 0 3
STRA8 WILD-TYPE 157 123 123 67

Figure S85.  Get High-res Image Gene #48: 'STRA8 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'STRA8 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0979 (Fisher's exact test), Q value = 0.56

Table S476.  Gene #48: 'STRA8 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
STRA8 MUTATED 4 1 0
STRA8 WILD-TYPE 142 166 117
'STRA8 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.00869 (Fisher's exact test), Q value = 0.16

Table S477.  Gene #48: 'STRA8 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
STRA8 MUTATED 0 0 0 5 1
STRA8 WILD-TYPE 89 22 59 60 100

Figure S86.  Get High-res Image Gene #48: 'STRA8 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

'STRA8 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0233 (Fisher's exact test), Q value = 0.31

Table S478.  Gene #48: 'STRA8 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
STRA8 MUTATED 0 5 1
STRA8 WILD-TYPE 156 116 58

Figure S87.  Get High-res Image Gene #48: 'STRA8 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'STRA8 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.267 (Fisher's exact test), Q value = 0.76

Table S479.  Gene #48: 'STRA8 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
STRA8 MUTATED 2 0 1 4 1
STRA8 WILD-TYPE 125 109 85 101 50
'STRA8 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0342 (Fisher's exact test), Q value = 0.39

Table S480.  Gene #48: 'STRA8 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
STRA8 MUTATED 0 1 4 0 3 0 0
STRA8 WILD-TYPE 72 108 86 44 46 46 68

Figure S88.  Get High-res Image Gene #48: 'STRA8 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'STRA8 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.00834 (Fisher's exact test), Q value = 0.16

Table S481.  Gene #48: 'STRA8 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
STRA8 MUTATED 0 7 0
STRA8 WILD-TYPE 172 198 99

Figure S89.  Get High-res Image Gene #48: 'STRA8 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'STRA8 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.175 (Fisher's exact test), Q value = 0.69

Table S482.  Gene #48: 'STRA8 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
STRA8 MUTATED 0 0 4 0 3 0
STRA8 WILD-TYPE 70 37 131 120 83 28
'STRA8 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.331 (Fisher's exact test), Q value = 0.81

Table S483.  Gene #48: 'STRA8 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
STRA8 MUTATED 0 3 2 0 0 0
STRA8 WILD-TYPE 55 82 95 42 60 73
'STRA8 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.211 (Fisher's exact test), Q value = 0.72

Table S484.  Gene #48: 'STRA8 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
STRA8 MUTATED 0 5 0
STRA8 WILD-TYPE 96 217 94
'NLRP6 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.13 (Fisher's exact test), Q value = 0.6

Table S485.  Gene #49: 'NLRP6 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
NLRP6 MUTATED 1 6 2 1
NLRP6 WILD-TYPE 157 121 121 69
'NLRP6 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.294 (Fisher's exact test), Q value = 0.78

Table S486.  Gene #49: 'NLRP6 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
NLRP6 MUTATED 2 6 1
NLRP6 WILD-TYPE 144 161 116
'NLRP6 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0278 (Fisher's exact test), Q value = 0.35

Table S487.  Gene #49: 'NLRP6 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
NLRP6 MUTATED 1 0 0 4 0
NLRP6 WILD-TYPE 88 22 59 61 101

Figure S90.  Get High-res Image Gene #49: 'NLRP6 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

'NLRP6 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.165 (Fisher's exact test), Q value = 0.67

Table S488.  Gene #49: 'NLRP6 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
NLRP6 MUTATED 1 4 0
NLRP6 WILD-TYPE 155 117 59
'NLRP6 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.114 (Fisher's exact test), Q value = 0.58

Table S489.  Gene #49: 'NLRP6 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
NLRP6 MUTATED 2 1 0 5 2
NLRP6 WILD-TYPE 125 108 86 100 49
'NLRP6 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0192 (Fisher's exact test), Q value = 0.3

Table S490.  Gene #49: 'NLRP6 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
NLRP6 MUTATED 1 0 2 0 4 0 3
NLRP6 WILD-TYPE 71 109 88 44 45 46 65

Figure S91.  Get High-res Image Gene #49: 'NLRP6 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'NLRP6 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.148 (Fisher's exact test), Q value = 0.64

Table S491.  Gene #49: 'NLRP6 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
NLRP6 MUTATED 1 7 2
NLRP6 WILD-TYPE 171 198 97
'NLRP6 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0612 (Fisher's exact test), Q value = 0.47

Table S492.  Gene #49: 'NLRP6 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
NLRP6 MUTATED 1 2 2 0 4 1
NLRP6 WILD-TYPE 69 35 133 120 82 27
'NLRP6 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.8 (Fisher's exact test), Q value = 1

Table S493.  Gene #49: 'NLRP6 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
NLRP6 MUTATED 0 3 2 1 2 1
NLRP6 WILD-TYPE 55 82 95 41 58 72
'NLRP6 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.143 (Fisher's exact test), Q value = 0.63

Table S494.  Gene #49: 'NLRP6 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
NLRP6 MUTATED 0 5 4
NLRP6 WILD-TYPE 96 217 90
'FAM65C MUTATION STATUS' versus 'CN_CNMF'

P value = 0.374 (Fisher's exact test), Q value = 0.87

Table S495.  Gene #50: 'FAM65C MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
FAM65C MUTATED 4 5 5 0
FAM65C WILD-TYPE 154 122 118 70
'FAM65C MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S496.  Gene #50: 'FAM65C MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
FAM65C MUTATED 4 6 3
FAM65C WILD-TYPE 142 161 114
'FAM65C MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0564 (Fisher's exact test), Q value = 0.47

Table S497.  Gene #50: 'FAM65C MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
FAM65C MUTATED 0 1 2 0 5
FAM65C WILD-TYPE 89 21 57 65 96
'FAM65C MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0545 (Fisher's exact test), Q value = 0.46

Table S498.  Gene #50: 'FAM65C MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
FAM65C MUTATED 3 1 4
FAM65C WILD-TYPE 153 120 55
'FAM65C MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.93 (Fisher's exact test), Q value = 1

Table S499.  Gene #50: 'FAM65C MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
FAM65C MUTATED 4 3 3 2 2
FAM65C WILD-TYPE 123 106 83 103 49
'FAM65C MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S500.  Gene #50: 'FAM65C MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
FAM65C MUTATED 2 5 3 1 1 2 0
FAM65C WILD-TYPE 70 104 87 43 48 44 68
'FAM65C MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.207 (Fisher's exact test), Q value = 0.72

Table S501.  Gene #50: 'FAM65C MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
FAM65C MUTATED 2 8 4
FAM65C WILD-TYPE 170 197 95
'FAM65C MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.701 (Fisher's exact test), Q value = 1

Table S502.  Gene #50: 'FAM65C MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
FAM65C MUTATED 2 0 5 2 4 1
FAM65C WILD-TYPE 68 37 130 118 82 27
'FAM65C MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.722 (Fisher's exact test), Q value = 1

Table S503.  Gene #50: 'FAM65C MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
FAM65C MUTATED 0 2 4 1 1 3
FAM65C WILD-TYPE 55 83 93 41 59 70
'FAM65C MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0873 (Fisher's exact test), Q value = 0.55

Table S504.  Gene #50: 'FAM65C MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
FAM65C MUTATED 0 9 2
FAM65C WILD-TYPE 96 213 92
'WDR66 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.765 (Fisher's exact test), Q value = 1

Table S505.  Gene #51: 'WDR66 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
WDR66 MUTATED 6 4 2 2
WDR66 WILD-TYPE 152 123 121 68
'WDR66 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.257 (Fisher's exact test), Q value = 0.76

Table S506.  Gene #51: 'WDR66 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
WDR66 MUTATED 7 3 2
WDR66 WILD-TYPE 139 164 115
'WDR66 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.00371 (Fisher's exact test), Q value = 0.083

Table S507.  Gene #51: 'WDR66 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
WDR66 MUTATED 0 0 5 5 1
WDR66 WILD-TYPE 89 22 54 60 100

Figure S92.  Get High-res Image Gene #51: 'WDR66 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

'WDR66 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.106 (Fisher's exact test), Q value = 0.58

Table S508.  Gene #51: 'WDR66 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
WDR66 MUTATED 4 7 0
WDR66 WILD-TYPE 152 114 59
'WDR66 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0239 (Fisher's exact test), Q value = 0.32

Table S509.  Gene #51: 'WDR66 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
WDR66 MUTATED 0 3 2 7 2
WDR66 WILD-TYPE 127 106 84 98 49

Figure S93.  Get High-res Image Gene #51: 'WDR66 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'WDR66 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.487 (Fisher's exact test), Q value = 0.96

Table S510.  Gene #51: 'WDR66 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
WDR66 MUTATED 2 1 4 0 2 2 3
WDR66 WILD-TYPE 70 108 86 44 47 44 65
'WDR66 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.129 (Fisher's exact test), Q value = 0.6

Table S511.  Gene #51: 'WDR66 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
WDR66 MUTATED 3 10 1
WDR66 WILD-TYPE 169 195 98
'WDR66 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.335 (Fisher's exact test), Q value = 0.81

Table S512.  Gene #51: 'WDR66 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
WDR66 MUTATED 1 0 8 2 3 0
WDR66 WILD-TYPE 69 37 127 118 83 28
'WDR66 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.36 (Fisher's exact test), Q value = 0.84

Table S513.  Gene #51: 'WDR66 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
WDR66 MUTATED 1 5 1 1 3 1
WDR66 WILD-TYPE 54 80 96 41 57 72
'WDR66 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.15 (Fisher's exact test), Q value = 0.64

Table S514.  Gene #51: 'WDR66 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
WDR66 MUTATED 4 8 0
WDR66 WILD-TYPE 92 214 94
'RIT1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.18 (Fisher's exact test), Q value = 0.69

Table S515.  Gene #52: 'RIT1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
RIT1 MUTATED 1 5 1 1
RIT1 WILD-TYPE 157 122 122 69
'RIT1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.336 (Fisher's exact test), Q value = 0.81

Table S516.  Gene #52: 'RIT1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
RIT1 MUTATED 3 3 0
RIT1 WILD-TYPE 143 164 117
'RIT1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.359 (Fisher's exact test), Q value = 0.84

Table S517.  Gene #52: 'RIT1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
RIT1 MUTATED 0 1 1 1 2
RIT1 WILD-TYPE 89 21 58 64 99
'RIT1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S518.  Gene #52: 'RIT1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
RIT1 MUTATED 2 2 1
RIT1 WILD-TYPE 154 119 58
'RIT1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.874 (Fisher's exact test), Q value = 1

Table S519.  Gene #52: 'RIT1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
RIT1 MUTATED 1 2 2 2 1
RIT1 WILD-TYPE 126 107 84 103 50
'RIT1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.175 (Fisher's exact test), Q value = 0.69

Table S520.  Gene #52: 'RIT1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
RIT1 MUTATED 0 2 0 2 1 2 1
RIT1 WILD-TYPE 72 107 90 42 48 44 67
'RIT1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.336 (Fisher's exact test), Q value = 0.81

Table S521.  Gene #52: 'RIT1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
RIT1 MUTATED 2 2 3
RIT1 WILD-TYPE 170 203 96
'RIT1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.953 (Fisher's exact test), Q value = 1

Table S522.  Gene #52: 'RIT1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
RIT1 MUTATED 1 1 2 2 1 0
RIT1 WILD-TYPE 69 36 133 118 85 28
'RIT1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.697 (Fisher's exact test), Q value = 1

Table S523.  Gene #52: 'RIT1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
RIT1 MUTATED 1 1 2 0 2 0
RIT1 WILD-TYPE 54 84 95 42 58 73
'RIT1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.3 (Fisher's exact test), Q value = 0.79

Table S524.  Gene #52: 'RIT1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
RIT1 MUTATED 3 2 1
RIT1 WILD-TYPE 93 220 93
'TGFBR3 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.237 (Fisher's exact test), Q value = 0.75

Table S525.  Gene #53: 'TGFBR3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
TGFBR3 MUTATED 5 4 1 4
TGFBR3 WILD-TYPE 153 123 122 66
'TGFBR3 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.231 (Fisher's exact test), Q value = 0.75

Table S526.  Gene #53: 'TGFBR3 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
TGFBR3 MUTATED 6 7 1
TGFBR3 WILD-TYPE 140 160 116
'TGFBR3 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.797 (Fisher's exact test), Q value = 1

Table S527.  Gene #53: 'TGFBR3 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
TGFBR3 MUTATED 2 0 2 3 2
TGFBR3 WILD-TYPE 87 22 57 62 99
'TGFBR3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.142 (Fisher's exact test), Q value = 0.63

Table S528.  Gene #53: 'TGFBR3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
TGFBR3 MUTATED 2 6 1
TGFBR3 WILD-TYPE 154 115 58
'TGFBR3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.519 (Fisher's exact test), Q value = 0.98

Table S529.  Gene #53: 'TGFBR3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
TGFBR3 MUTATED 5 1 4 3 1
TGFBR3 WILD-TYPE 122 108 82 102 50
'TGFBR3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.229 (Fisher's exact test), Q value = 0.75

Table S530.  Gene #53: 'TGFBR3 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
TGFBR3 MUTATED 1 6 1 0 2 3 1
TGFBR3 WILD-TYPE 71 103 89 44 47 43 67
'TGFBR3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0286 (Fisher's exact test), Q value = 0.35

Table S531.  Gene #53: 'TGFBR3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
TGFBR3 MUTATED 2 11 1
TGFBR3 WILD-TYPE 170 194 98

Figure S94.  Get High-res Image Gene #53: 'TGFBR3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'TGFBR3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.101 (Fisher's exact test), Q value = 0.57

Table S532.  Gene #53: 'TGFBR3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
TGFBR3 MUTATED 2 1 9 1 1 0
TGFBR3 WILD-TYPE 68 36 126 119 85 28
'TGFBR3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.27 (Fisher's exact test), Q value = 0.76

Table S533.  Gene #53: 'TGFBR3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
TGFBR3 MUTATED 0 5 3 0 1 4
TGFBR3 WILD-TYPE 55 80 94 42 59 69
'TGFBR3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0134 (Fisher's exact test), Q value = 0.23

Table S534.  Gene #53: 'TGFBR3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
TGFBR3 MUTATED 0 12 1
TGFBR3 WILD-TYPE 96 210 93

Figure S95.  Get High-res Image Gene #53: 'TGFBR3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'CXCR7 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.41 (Fisher's exact test), Q value = 0.88

Table S535.  Gene #54: 'CXCR7 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
CXCR7 MUTATED 3 5 1 1
CXCR7 WILD-TYPE 155 122 122 69
'CXCR7 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0952 (Fisher's exact test), Q value = 0.56

Table S536.  Gene #54: 'CXCR7 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
CXCR7 MUTATED 4 6 0
CXCR7 WILD-TYPE 142 161 117
'CXCR7 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S537.  Gene #54: 'CXCR7 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
CXCR7 MUTATED 1 1 2 1 2
CXCR7 WILD-TYPE 88 21 57 64 99
'CXCR7 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.188 (Fisher's exact test), Q value = 0.7

Table S538.  Gene #54: 'CXCR7 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
CXCR7 MUTATED 2 5 0
CXCR7 WILD-TYPE 154 116 59
'CXCR7 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.655 (Fisher's exact test), Q value = 1

Table S539.  Gene #54: 'CXCR7 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
CXCR7 MUTATED 3 1 1 4 1
CXCR7 WILD-TYPE 124 108 85 101 50
'CXCR7 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.656 (Fisher's exact test), Q value = 1

Table S540.  Gene #54: 'CXCR7 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
CXCR7 MUTATED 0 3 1 1 2 1 2
CXCR7 WILD-TYPE 72 106 89 43 47 45 66
'CXCR7 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.245 (Fisher's exact test), Q value = 0.76

Table S541.  Gene #54: 'CXCR7 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
CXCR7 MUTATED 4 6 0
CXCR7 WILD-TYPE 168 199 99
'CXCR7 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.693 (Fisher's exact test), Q value = 1

Table S542.  Gene #54: 'CXCR7 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
CXCR7 MUTATED 0 0 4 4 2 0
CXCR7 WILD-TYPE 70 37 131 116 84 28
'CXCR7 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.394 (Fisher's exact test), Q value = 0.88

Table S543.  Gene #54: 'CXCR7 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
CXCR7 MUTATED 0 3 3 0 0 3
CXCR7 WILD-TYPE 55 82 94 42 60 70
'CXCR7 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.205 (Fisher's exact test), Q value = 0.72

Table S544.  Gene #54: 'CXCR7 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
CXCR7 MUTATED 0 7 2
CXCR7 WILD-TYPE 96 215 92
'GAN MUTATION STATUS' versus 'CN_CNMF'

P value = 0.692 (Fisher's exact test), Q value = 1

Table S545.  Gene #55: 'GAN MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
GAN MUTATED 2 4 2 2
GAN WILD-TYPE 156 123 121 68
'GAN MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S546.  Gene #55: 'GAN MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
GAN MUTATED 2 3 3
GAN WILD-TYPE 144 164 114
'GAN MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.891 (Fisher's exact test), Q value = 1

Table S547.  Gene #55: 'GAN MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
GAN MUTATED 3 1 2 1 3
GAN WILD-TYPE 86 21 57 64 98
'GAN MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.838 (Fisher's exact test), Q value = 1

Table S548.  Gene #55: 'GAN MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
GAN MUTATED 4 4 2
GAN WILD-TYPE 152 117 57
'GAN MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.397 (Fisher's exact test), Q value = 0.88

Table S549.  Gene #55: 'GAN MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
GAN MUTATED 2 3 4 1 0
GAN WILD-TYPE 125 106 82 104 51
'GAN MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.404 (Fisher's exact test), Q value = 0.88

Table S550.  Gene #55: 'GAN MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
GAN MUTATED 3 3 1 1 0 2 0
GAN WILD-TYPE 69 106 89 43 49 44 68
'GAN MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.494 (Fisher's exact test), Q value = 0.96

Table S551.  Gene #55: 'GAN MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
GAN MUTATED 2 6 2
GAN WILD-TYPE 170 199 97
'GAN MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.678 (Fisher's exact test), Q value = 1

Table S552.  Gene #55: 'GAN MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
GAN MUTATED 0 0 4 3 2 1
GAN WILD-TYPE 70 37 131 117 84 27
'GAN MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.862 (Fisher's exact test), Q value = 1

Table S553.  Gene #55: 'GAN MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
GAN MUTATED 0 2 3 0 1 1
GAN WILD-TYPE 55 83 94 42 59 72
'GAN MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.407 (Fisher's exact test), Q value = 0.88

Table S554.  Gene #55: 'GAN MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
GAN MUTATED 0 5 2
GAN WILD-TYPE 96 217 92
'TMEM49 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.207 (Fisher's exact test), Q value = 0.72

Table S555.  Gene #56: 'TMEM49 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
TMEM49 MUTATED 4 0 1 0
TMEM49 WILD-TYPE 154 127 122 70
'TMEM49 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.159 (Fisher's exact test), Q value = 0.66

Table S556.  Gene #56: 'TMEM49 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
TMEM49 MUTATED 0 2 3
TMEM49 WILD-TYPE 146 165 114
'TMEM49 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.933 (Fisher's exact test), Q value = 1

Table S557.  Gene #56: 'TMEM49 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
TMEM49 MUTATED 1 0 0 1 2
TMEM49 WILD-TYPE 88 22 59 64 99
'TMEM49 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0901 (Fisher's exact test), Q value = 0.55

Table S558.  Gene #56: 'TMEM49 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
TMEM49 MUTATED 0 3 1
TMEM49 WILD-TYPE 156 118 58
'TMEM49 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S559.  Gene #56: 'TMEM49 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
TMEM49 MUTATED 2 1 1 0 1
TMEM49 WILD-TYPE 125 108 85 105 50
'TMEM49 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.224 (Fisher's exact test), Q value = 0.75

Table S560.  Gene #56: 'TMEM49 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
TMEM49 MUTATED 1 1 0 0 0 0 3
TMEM49 WILD-TYPE 71 108 90 44 49 46 65
'TMEM49 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.624 (Fisher's exact test), Q value = 1

Table S561.  Gene #56: 'TMEM49 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
TMEM49 MUTATED 1 2 2
TMEM49 WILD-TYPE 171 203 97
'TMEM49 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.625 (Fisher's exact test), Q value = 1

Table S562.  Gene #56: 'TMEM49 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
TMEM49 MUTATED 0 0 2 3 0 0
TMEM49 WILD-TYPE 70 37 133 117 86 28
'TMEM49 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.637 (Fisher's exact test), Q value = 1

Table S563.  Gene #56: 'TMEM49 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
TMEM49 MUTATED 0 0 2 1 1 1
TMEM49 WILD-TYPE 55 85 95 41 59 72
'TMEM49 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.724 (Fisher's exact test), Q value = 1

Table S564.  Gene #56: 'TMEM49 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
TMEM49 MUTATED 1 2 2
TMEM49 WILD-TYPE 95 220 92
'HSPA8 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.365 (Fisher's exact test), Q value = 0.85

Table S565.  Gene #57: 'HSPA8 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
HSPA8 MUTATED 5 3 1 0
HSPA8 WILD-TYPE 153 124 122 70
'HSPA8 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.272 (Fisher's exact test), Q value = 0.76

Table S566.  Gene #57: 'HSPA8 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
HSPA8 MUTATED 3 4 0
HSPA8 WILD-TYPE 143 163 117
'HSPA8 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.426 (Fisher's exact test), Q value = 0.9

Table S567.  Gene #57: 'HSPA8 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
HSPA8 MUTATED 1 0 2 3 1
HSPA8 WILD-TYPE 88 22 57 62 100
'HSPA8 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S568.  Gene #57: 'HSPA8 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
HSPA8 MUTATED 3 3 1
HSPA8 WILD-TYPE 153 118 58
'HSPA8 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.751 (Fisher's exact test), Q value = 1

Table S569.  Gene #57: 'HSPA8 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
HSPA8 MUTATED 2 1 3 2 1
HSPA8 WILD-TYPE 125 108 83 103 50
'HSPA8 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.222 (Fisher's exact test), Q value = 0.75

Table S570.  Gene #57: 'HSPA8 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
HSPA8 MUTATED 0 2 5 0 0 1 1
HSPA8 WILD-TYPE 72 107 85 44 49 45 67
'HSPA8 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.00343 (Fisher's exact test), Q value = 0.079

Table S571.  Gene #57: 'HSPA8 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
HSPA8 MUTATED 0 8 0
HSPA8 WILD-TYPE 172 197 99

Figure S96.  Get High-res Image Gene #57: 'HSPA8 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'HSPA8 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.394 (Fisher's exact test), Q value = 0.88

Table S572.  Gene #57: 'HSPA8 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
HSPA8 MUTATED 0 0 2 2 4 0
HSPA8 WILD-TYPE 70 37 133 118 82 28
'HSPA8 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.815 (Fisher's exact test), Q value = 1

Table S573.  Gene #57: 'HSPA8 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
HSPA8 MUTATED 1 2 3 0 0 1
HSPA8 WILD-TYPE 54 83 94 42 60 72
'HSPA8 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.78 (Fisher's exact test), Q value = 1

Table S574.  Gene #57: 'HSPA8 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
HSPA8 MUTATED 1 5 1
HSPA8 WILD-TYPE 95 217 93
'CD244 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.418 (Fisher's exact test), Q value = 0.89

Table S575.  Gene #58: 'CD244 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
CD244 MUTATED 6 4 1 1
CD244 WILD-TYPE 152 123 122 69
'CD244 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.535 (Fisher's exact test), Q value = 0.99

Table S576.  Gene #58: 'CD244 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
CD244 MUTATED 6 4 2
CD244 WILD-TYPE 140 163 115
'CD244 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S577.  Gene #58: 'CD244 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
CD244 MUTATED 2 0 0 1 4
CD244 WILD-TYPE 87 22 59 64 97
'CD244 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.772 (Fisher's exact test), Q value = 1

Table S578.  Gene #58: 'CD244 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
CD244 MUTATED 3 2 2
CD244 WILD-TYPE 153 119 57
'CD244 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.105 (Fisher's exact test), Q value = 0.58

Table S579.  Gene #58: 'CD244 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
CD244 MUTATED 5 0 2 2 3
CD244 WILD-TYPE 122 109 84 103 48
'CD244 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.264 (Fisher's exact test), Q value = 0.76

Table S580.  Gene #58: 'CD244 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
CD244 MUTATED 0 2 5 1 0 2 2
CD244 WILD-TYPE 72 107 85 43 49 44 66
'CD244 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.052 (Fisher's exact test), Q value = 0.46

Table S581.  Gene #58: 'CD244 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
CD244 MUTATED 3 9 0
CD244 WILD-TYPE 169 196 99
'CD244 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0768 (Fisher's exact test), Q value = 0.52

Table S582.  Gene #58: 'CD244 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
CD244 MUTATED 3 0 2 1 6 0
CD244 WILD-TYPE 67 37 133 119 80 28
'CD244 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.26 (Fisher's exact test), Q value = 0.76

Table S583.  Gene #58: 'CD244 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
CD244 MUTATED 0 2 3 0 1 5
CD244 WILD-TYPE 55 83 94 42 59 68
'CD244 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.288 (Fisher's exact test), Q value = 0.78

Table S584.  Gene #58: 'CD244 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
CD244 MUTATED 1 9 1
CD244 WILD-TYPE 95 213 93
'KIF18B MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.384 (Fisher's exact test), Q value = 0.87

Table S585.  Gene #59: 'KIF18B MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 8 8 4
KIF18B MUTATED 0 2 1
KIF18B WILD-TYPE 8 6 3
'KIF18B MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.391 (Fisher's exact test), Q value = 0.88

Table S586.  Gene #59: 'KIF18B MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 7 9 4
KIF18B MUTATED 0 2 1
KIF18B WILD-TYPE 7 7 3
'KIF18B MUTATION STATUS' versus 'CN_CNMF'

P value = 0.225 (Fisher's exact test), Q value = 0.75

Table S587.  Gene #59: 'KIF18B MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
KIF18B MUTATED 1 1 0 2
KIF18B WILD-TYPE 157 126 123 68
'KIF18B MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.362 (Fisher's exact test), Q value = 0.85

Table S588.  Gene #59: 'KIF18B MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
KIF18B MUTATED 1 1 0 0 1
KIF18B WILD-TYPE 88 21 59 65 100
'KIF18B MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.127 (Fisher's exact test), Q value = 0.59

Table S589.  Gene #59: 'KIF18B MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
KIF18B MUTATED 0 3 0
KIF18B WILD-TYPE 156 118 59
'KIF18B MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.665 (Fisher's exact test), Q value = 1

Table S590.  Gene #59: 'KIF18B MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
KIF18B MUTATED 1 0 1 2 0
KIF18B WILD-TYPE 126 109 85 103 51
'KIF18B MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.754 (Fisher's exact test), Q value = 1

Table S591.  Gene #59: 'KIF18B MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
KIF18B MUTATED 0 2 2 0 0 0 0
KIF18B WILD-TYPE 72 107 88 44 49 46 68
'KIF18B MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.268 (Fisher's exact test), Q value = 0.76

Table S592.  Gene #59: 'KIF18B MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
KIF18B MUTATED 0 3 1
KIF18B WILD-TYPE 172 202 98
'KIF18B MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S593.  Gene #59: 'KIF18B MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
KIF18B MUTATED 0 0 1 1 2 0
KIF18B WILD-TYPE 70 37 134 119 84 28
'PDE6A MUTATION STATUS' versus 'CN_CNMF'

P value = 0.659 (Fisher's exact test), Q value = 1

Table S594.  Gene #60: 'PDE6A MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
PDE6A MUTATED 4 6 3 3
PDE6A WILD-TYPE 154 121 120 67
'PDE6A MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S595.  Gene #60: 'PDE6A MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
PDE6A MUTATED 5 5 2
PDE6A WILD-TYPE 141 162 115
'PDE6A MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S596.  Gene #60: 'PDE6A MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
PDE6A MUTATED 2 0 2 2 3
PDE6A WILD-TYPE 87 22 57 63 98
'PDE6A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.12 (Fisher's exact test), Q value = 0.58

Table S597.  Gene #60: 'PDE6A MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
PDE6A MUTATED 3 6 0
PDE6A WILD-TYPE 153 115 59
'PDE6A MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.104 (Fisher's exact test), Q value = 0.58

Table S598.  Gene #60: 'PDE6A MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
PDE6A MUTATED 4 1 4 7 0
PDE6A WILD-TYPE 123 108 82 98 51
'PDE6A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0278 (Fisher's exact test), Q value = 0.35

Table S599.  Gene #60: 'PDE6A MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
PDE6A MUTATED 2 1 4 1 5 3 0
PDE6A WILD-TYPE 70 108 86 43 44 43 68

Figure S97.  Get High-res Image Gene #60: 'PDE6A MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'PDE6A MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0625 (Fisher's exact test), Q value = 0.47

Table S600.  Gene #60: 'PDE6A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
PDE6A MUTATED 2 11 2
PDE6A WILD-TYPE 170 194 97
'PDE6A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0215 (Fisher's exact test), Q value = 0.3

Table S601.  Gene #60: 'PDE6A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
PDE6A MUTATED 1 3 6 0 5 0
PDE6A WILD-TYPE 69 34 129 120 81 28

Figure S98.  Get High-res Image Gene #60: 'PDE6A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'PDE6A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.322 (Fisher's exact test), Q value = 0.81

Table S602.  Gene #60: 'PDE6A MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
PDE6A MUTATED 0 5 2 1 3 1
PDE6A WILD-TYPE 55 80 95 41 57 72
'PDE6A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.388 (Fisher's exact test), Q value = 0.88

Table S603.  Gene #60: 'PDE6A MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
PDE6A MUTATED 2 9 1
PDE6A WILD-TYPE 94 213 93
'CHRND MUTATION STATUS' versus 'CN_CNMF'

P value = 0.125 (Fisher's exact test), Q value = 0.59

Table S604.  Gene #61: 'CHRND MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
CHRND MUTATED 7 7 1 1
CHRND WILD-TYPE 151 120 122 69
'CHRND MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.684 (Fisher's exact test), Q value = 1

Table S605.  Gene #61: 'CHRND MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
CHRND MUTATED 5 6 2
CHRND WILD-TYPE 141 161 115
'CHRND MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.133 (Fisher's exact test), Q value = 0.6

Table S606.  Gene #61: 'CHRND MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
CHRND MUTATED 3 1 0 5 2
CHRND WILD-TYPE 86 21 59 60 99
'CHRND MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0924 (Fisher's exact test), Q value = 0.56

Table S607.  Gene #61: 'CHRND MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
CHRND MUTATED 2 7 2
CHRND WILD-TYPE 154 114 57
'CHRND MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.665 (Fisher's exact test), Q value = 1

Table S608.  Gene #61: 'CHRND MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
CHRND MUTATED 6 2 2 5 1
CHRND WILD-TYPE 121 107 84 100 50
'CHRND MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.202 (Fisher's exact test), Q value = 0.72

Table S609.  Gene #61: 'CHRND MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
CHRND MUTATED 0 4 2 1 4 1 4
CHRND WILD-TYPE 72 105 88 43 45 45 64
'CHRND MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.383 (Fisher's exact test), Q value = 0.87

Table S610.  Gene #61: 'CHRND MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
CHRND MUTATED 4 10 2
CHRND WILD-TYPE 168 195 97
'CHRND MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.261 (Fisher's exact test), Q value = 0.76

Table S611.  Gene #61: 'CHRND MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
CHRND MUTATED 1 1 4 3 7 0
CHRND WILD-TYPE 69 36 131 117 79 28
'CHRND MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.816 (Fisher's exact test), Q value = 1

Table S612.  Gene #61: 'CHRND MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
CHRND MUTATED 0 3 3 1 2 3
CHRND WILD-TYPE 55 82 94 41 58 70
'CHRND MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S613.  Gene #61: 'CHRND MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
CHRND MUTATED 3 7 2
CHRND WILD-TYPE 93 215 92
'KLK1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0716 (Fisher's exact test), Q value = 0.51

Table S614.  Gene #62: 'KLK1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
KLK1 MUTATED 4 1 0 3
KLK1 WILD-TYPE 154 126 123 67
'KLK1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.543 (Fisher's exact test), Q value = 1

Table S615.  Gene #62: 'KLK1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
KLK1 MUTATED 4 3 1
KLK1 WILD-TYPE 142 164 116
'KLK1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.569 (Fisher's exact test), Q value = 1

Table S616.  Gene #62: 'KLK1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
KLK1 MUTATED 0 0 0 1 2
KLK1 WILD-TYPE 89 22 59 64 99
'KLK1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0382 (Fisher's exact test), Q value = 0.4

Table S617.  Gene #62: 'KLK1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
KLK1 MUTATED 0 1 2
KLK1 WILD-TYPE 156 120 57

Figure S99.  Get High-res Image Gene #62: 'KLK1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'KLK1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.549 (Fisher's exact test), Q value = 1

Table S618.  Gene #62: 'KLK1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
KLK1 MUTATED 3 2 0 3 0
KLK1 WILD-TYPE 124 107 86 102 51
'KLK1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.646 (Fisher's exact test), Q value = 1

Table S619.  Gene #62: 'KLK1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
KLK1 MUTATED 1 4 2 0 1 0 0
KLK1 WILD-TYPE 71 105 88 44 48 46 68
'KLK1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.181 (Fisher's exact test), Q value = 0.69

Table S620.  Gene #62: 'KLK1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
KLK1 MUTATED 2 6 0
KLK1 WILD-TYPE 170 199 99
'KLK1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0504 (Fisher's exact test), Q value = 0.46

Table S621.  Gene #62: 'KLK1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
KLK1 MUTATED 1 3 2 0 2 0
KLK1 WILD-TYPE 69 34 133 120 84 28
'KLK1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.768 (Fisher's exact test), Q value = 1

Table S622.  Gene #62: 'KLK1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
KLK1 MUTATED 1 3 1 0 2 1
KLK1 WILD-TYPE 54 82 96 42 58 72
'KLK1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.146 (Fisher's exact test), Q value = 0.64

Table S623.  Gene #62: 'KLK1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
KLK1 MUTATED 0 7 1
KLK1 WILD-TYPE 96 215 93
'KLHL5 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.535 (Fisher's exact test), Q value = 0.99

Table S624.  Gene #63: 'KLHL5 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
KLHL5 MUTATED 4 6 2 2
KLHL5 WILD-TYPE 154 121 121 68
'KLHL5 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S625.  Gene #63: 'KLHL5 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
KLHL5 MUTATED 4 6 2
KLHL5 WILD-TYPE 142 161 115
'KLHL5 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.76 (Fisher's exact test), Q value = 1

Table S626.  Gene #63: 'KLHL5 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
KLHL5 MUTATED 2 1 1 3 3
KLHL5 WILD-TYPE 87 21 58 62 98
'KLHL5 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0869 (Fisher's exact test), Q value = 0.55

Table S627.  Gene #63: 'KLHL5 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
KLHL5 MUTATED 2 4 4
KLHL5 WILD-TYPE 154 117 55
'KLHL5 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.499 (Fisher's exact test), Q value = 0.96

Table S628.  Gene #63: 'KLHL5 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
KLHL5 MUTATED 3 4 4 1 2
KLHL5 WILD-TYPE 124 105 82 104 49
'KLHL5 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S629.  Gene #63: 'KLHL5 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
KLHL5 MUTATED 1 4 3 1 0 2 3
KLHL5 WILD-TYPE 71 105 87 43 49 44 65
'KLHL5 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.563 (Fisher's exact test), Q value = 1

Table S630.  Gene #63: 'KLHL5 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
KLHL5 MUTATED 6 7 1
KLHL5 WILD-TYPE 166 198 98
'KLHL5 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.79 (Fisher's exact test), Q value = 1

Table S631.  Gene #63: 'KLHL5 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
KLHL5 MUTATED 1 0 6 4 3 0
KLHL5 WILD-TYPE 69 37 129 116 83 28
'KLHL5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S632.  Gene #63: 'KLHL5 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
KLHL5 MUTATED 1 2 2 0 4 2
KLHL5 WILD-TYPE 54 83 95 42 56 71
'KLHL5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.709 (Fisher's exact test), Q value = 1

Table S633.  Gene #63: 'KLHL5 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
KLHL5 MUTATED 3 7 1
KLHL5 WILD-TYPE 93 215 93
'DSC2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.509 (Fisher's exact test), Q value = 0.97

Table S634.  Gene #64: 'DSC2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
DSC2 MUTATED 10 4 4 2
DSC2 WILD-TYPE 148 123 119 68
'DSC2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.201 (Fisher's exact test), Q value = 0.72

Table S635.  Gene #64: 'DSC2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
DSC2 MUTATED 6 10 2
DSC2 WILD-TYPE 140 157 115
'DSC2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.00248 (Fisher's exact test), Q value = 0.064

Table S636.  Gene #64: 'DSC2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
DSC2 MUTATED 0 3 1 2 9
DSC2 WILD-TYPE 89 19 58 63 92

Figure S100.  Get High-res Image Gene #64: 'DSC2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

'DSC2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.00444 (Fisher's exact test), Q value = 0.096

Table S637.  Gene #64: 'DSC2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
DSC2 MUTATED 7 1 7
DSC2 WILD-TYPE 149 120 52

Figure S101.  Get High-res Image Gene #64: 'DSC2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'DSC2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.581 (Fisher's exact test), Q value = 1

Table S638.  Gene #64: 'DSC2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
DSC2 MUTATED 7 6 4 2 1
DSC2 WILD-TYPE 120 103 82 103 50
'DSC2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.877 (Fisher's exact test), Q value = 1

Table S639.  Gene #64: 'DSC2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
DSC2 MUTATED 4 6 4 2 2 1 1
DSC2 WILD-TYPE 68 103 86 42 47 45 67
'DSC2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.316 (Fisher's exact test), Q value = 0.8

Table S640.  Gene #64: 'DSC2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
DSC2 MUTATED 6 7 7
DSC2 WILD-TYPE 166 198 92
'DSC2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.487 (Fisher's exact test), Q value = 0.96

Table S641.  Gene #64: 'DSC2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
DSC2 MUTATED 1 1 5 5 7 1
DSC2 WILD-TYPE 69 36 130 115 79 27
'DSC2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.178 (Fisher's exact test), Q value = 0.69

Table S642.  Gene #64: 'DSC2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
DSC2 MUTATED 1 3 8 3 1 1
DSC2 WILD-TYPE 54 82 89 39 59 72
'DSC2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.538 (Fisher's exact test), Q value = 0.99

Table S643.  Gene #64: 'DSC2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
DSC2 MUTATED 2 10 5
DSC2 WILD-TYPE 94 212 89
'RNF160 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.567 (Fisher's exact test), Q value = 1

Table S644.  Gene #65: 'RNF160 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
RNF160 MUTATED 5 6 2 2
RNF160 WILD-TYPE 153 121 121 68
'RNF160 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.163 (Fisher's exact test), Q value = 0.66

Table S645.  Gene #65: 'RNF160 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
RNF160 MUTATED 4 8 1
RNF160 WILD-TYPE 142 159 116
'RNF160 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0207 (Fisher's exact test), Q value = 0.3

Table S646.  Gene #65: 'RNF160 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
RNF160 MUTATED 0 1 0 4 6
RNF160 WILD-TYPE 89 21 59 61 95

Figure S102.  Get High-res Image Gene #65: 'RNF160 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

'RNF160 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.126 (Fisher's exact test), Q value = 0.59

Table S647.  Gene #65: 'RNF160 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
RNF160 MUTATED 2 6 3
RNF160 WILD-TYPE 154 115 56
'RNF160 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.231 (Fisher's exact test), Q value = 0.75

Table S648.  Gene #65: 'RNF160 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
RNF160 MUTATED 8 2 2 3 0
RNF160 WILD-TYPE 119 107 84 102 51
'RNF160 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.413 (Fisher's exact test), Q value = 0.88

Table S649.  Gene #65: 'RNF160 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
RNF160 MUTATED 1 6 4 1 1 2 0
RNF160 WILD-TYPE 71 103 86 43 48 44 68
'RNF160 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.414 (Fisher's exact test), Q value = 0.88

Table S650.  Gene #65: 'RNF160 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
RNF160 MUTATED 3 8 4
RNF160 WILD-TYPE 169 197 95
'RNF160 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.263 (Fisher's exact test), Q value = 0.76

Table S651.  Gene #65: 'RNF160 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
RNF160 MUTATED 1 1 9 2 2 0
RNF160 WILD-TYPE 69 36 126 118 84 28
'RNF160 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.858 (Fisher's exact test), Q value = 1

Table S652.  Gene #65: 'RNF160 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
RNF160 MUTATED 1 4 2 1 3 2
RNF160 WILD-TYPE 54 81 95 41 57 71
'RNF160 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.284 (Fisher's exact test), Q value = 0.78

Table S653.  Gene #65: 'RNF160 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
RNF160 MUTATED 2 10 1
RNF160 WILD-TYPE 94 212 93
'AIFM1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.588 (Fisher's exact test), Q value = 1

Table S654.  Gene #66: 'AIFM1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
AIFM1 MUTATED 3 2 4 3
AIFM1 WILD-TYPE 155 125 119 67
'AIFM1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.761 (Fisher's exact test), Q value = 1

Table S655.  Gene #66: 'AIFM1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
AIFM1 MUTATED 3 6 3
AIFM1 WILD-TYPE 143 161 114
'AIFM1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.117 (Fisher's exact test), Q value = 0.58

Table S656.  Gene #66: 'AIFM1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
AIFM1 MUTATED 0 0 1 2 6
AIFM1 WILD-TYPE 89 22 58 63 95
'AIFM1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0644 (Fisher's exact test), Q value = 0.48

Table S657.  Gene #66: 'AIFM1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
AIFM1 MUTATED 1 6 2
AIFM1 WILD-TYPE 155 115 57
'AIFM1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.204 (Fisher's exact test), Q value = 0.72

Table S658.  Gene #66: 'AIFM1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
AIFM1 MUTATED 2 3 0 5 2
AIFM1 WILD-TYPE 125 106 86 100 49
'AIFM1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.493 (Fisher's exact test), Q value = 0.96

Table S659.  Gene #66: 'AIFM1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
AIFM1 MUTATED 3 2 1 0 3 1 2
AIFM1 WILD-TYPE 69 107 89 44 46 45 66
'AIFM1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.351 (Fisher's exact test), Q value = 0.84

Table S660.  Gene #66: 'AIFM1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
AIFM1 MUTATED 2 7 3
AIFM1 WILD-TYPE 170 198 96
'AIFM1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0506 (Fisher's exact test), Q value = 0.46

Table S661.  Gene #66: 'AIFM1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
AIFM1 MUTATED 0 2 7 2 0 1
AIFM1 WILD-TYPE 70 35 128 118 86 27
'AIFM1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.322 (Fisher's exact test), Q value = 0.81

Table S662.  Gene #66: 'AIFM1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
AIFM1 MUTATED 0 5 2 1 3 1
AIFM1 WILD-TYPE 55 80 95 41 57 72
'AIFM1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.678 (Fisher's exact test), Q value = 1

Table S663.  Gene #66: 'AIFM1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
AIFM1 MUTATED 2 6 4
AIFM1 WILD-TYPE 94 216 90
'DOT1L MUTATION STATUS' versus 'CN_CNMF'

P value = 0.308 (Fisher's exact test), Q value = 0.79

Table S664.  Gene #67: 'DOT1L MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
DOT1L MUTATED 4 6 4 0
DOT1L WILD-TYPE 154 121 119 70
'DOT1L MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.237 (Fisher's exact test), Q value = 0.75

Table S665.  Gene #67: 'DOT1L MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
DOT1L MUTATED 5 7 1
DOT1L WILD-TYPE 141 160 116
'DOT1L MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.061 (Fisher's exact test), Q value = 0.47

Table S666.  Gene #67: 'DOT1L MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
DOT1L MUTATED 1 2 3 4 1
DOT1L WILD-TYPE 88 20 56 61 100
'DOT1L MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.227 (Fisher's exact test), Q value = 0.75

Table S667.  Gene #67: 'DOT1L MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
DOT1L MUTATED 5 6 0
DOT1L WILD-TYPE 151 115 59
'DOT1L MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.193 (Fisher's exact test), Q value = 0.71

Table S668.  Gene #67: 'DOT1L MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
DOT1L MUTATED 4 5 3 0 2
DOT1L WILD-TYPE 123 104 83 105 49
'DOT1L MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00744 (Fisher's exact test), Q value = 0.15

Table S669.  Gene #67: 'DOT1L MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
DOT1L MUTATED 0 4 0 4 0 3 3
DOT1L WILD-TYPE 72 105 90 40 49 43 65

Figure S103.  Get High-res Image Gene #67: 'DOT1L MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'DOT1L MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.78 (Fisher's exact test), Q value = 1

Table S670.  Gene #67: 'DOT1L MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
DOT1L MUTATED 6 5 3
DOT1L WILD-TYPE 166 200 96
'DOT1L MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0778 (Fisher's exact test), Q value = 0.52

Table S671.  Gene #67: 'DOT1L MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
DOT1L MUTATED 4 0 8 1 1 0
DOT1L WILD-TYPE 66 37 127 119 85 28
'DOT1L MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.41 (Fisher's exact test), Q value = 0.88

Table S672.  Gene #67: 'DOT1L MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
DOT1L MUTATED 3 1 5 0 1 3
DOT1L WILD-TYPE 52 84 92 42 59 70
'DOT1L MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.52 (Fisher's exact test), Q value = 0.98

Table S673.  Gene #67: 'DOT1L MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
DOT1L MUTATED 5 6 2
DOT1L WILD-TYPE 91 216 92
'MCM9 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0199 (Fisher's exact test), Q value = 0.3

Table S674.  Gene #68: 'MCM9 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
MCM9 MUTATED 0 0 1 2
MCM9 WILD-TYPE 158 127 122 68

Figure S104.  Get High-res Image Gene #68: 'MCM9 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'MCM9 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.918 (Fisher's exact test), Q value = 1

Table S675.  Gene #68: 'MCM9 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
MCM9 MUTATED 1 1 1 0 0
MCM9 WILD-TYPE 126 108 85 105 51
'MCM9 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.765 (Fisher's exact test), Q value = 1

Table S676.  Gene #68: 'MCM9 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
MCM9 MUTATED 0 1 1 1 0 0 0
MCM9 WILD-TYPE 72 108 89 43 49 46 68
'MCM9 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S677.  Gene #68: 'MCM9 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
MCM9 MUTATED 1 2 0
MCM9 WILD-TYPE 171 203 99
'MCM9 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.613 (Fisher's exact test), Q value = 1

Table S678.  Gene #68: 'MCM9 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
MCM9 MUTATED 1 0 2 0 0 0
MCM9 WILD-TYPE 69 37 133 120 86 28
'NCKAP1L MUTATION STATUS' versus 'CN_CNMF'

P value = 0.852 (Fisher's exact test), Q value = 1

Table S679.  Gene #69: 'NCKAP1L MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
NCKAP1L MUTATED 6 5 4 4
NCKAP1L WILD-TYPE 152 122 119 66
'NCKAP1L MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0962 (Fisher's exact test), Q value = 0.56

Table S680.  Gene #69: 'NCKAP1L MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
NCKAP1L MUTATED 8 7 1
NCKAP1L WILD-TYPE 138 160 116
'NCKAP1L MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S681.  Gene #69: 'NCKAP1L MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
NCKAP1L MUTATED 3 0 4 3 6
NCKAP1L WILD-TYPE 86 22 55 62 95
'NCKAP1L MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.621 (Fisher's exact test), Q value = 1

Table S682.  Gene #69: 'NCKAP1L MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
NCKAP1L MUTATED 6 6 4
NCKAP1L WILD-TYPE 150 115 55
'NCKAP1L MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.514 (Fisher's exact test), Q value = 0.97

Table S683.  Gene #69: 'NCKAP1L MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
NCKAP1L MUTATED 7 2 3 6 1
NCKAP1L WILD-TYPE 120 107 83 99 50
'NCKAP1L MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.213 (Fisher's exact test), Q value = 0.73

Table S684.  Gene #69: 'NCKAP1L MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
NCKAP1L MUTATED 0 3 6 3 3 2 2
NCKAP1L WILD-TYPE 72 106 84 41 46 44 66
'NCKAP1L MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0976 (Fisher's exact test), Q value = 0.56

Table S685.  Gene #69: 'NCKAP1L MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
NCKAP1L MUTATED 4 13 2
NCKAP1L WILD-TYPE 168 192 97
'NCKAP1L MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.191 (Fisher's exact test), Q value = 0.71

Table S686.  Gene #69: 'NCKAP1L MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
NCKAP1L MUTATED 2 0 7 2 7 1
NCKAP1L WILD-TYPE 68 37 128 118 79 27
'NCKAP1L MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.946 (Fisher's exact test), Q value = 1

Table S687.  Gene #69: 'NCKAP1L MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
NCKAP1L MUTATED 1 4 3 1 3 3
NCKAP1L WILD-TYPE 54 81 94 41 57 70
'NCKAP1L MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.403 (Fisher's exact test), Q value = 0.88

Table S688.  Gene #69: 'NCKAP1L MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
NCKAP1L MUTATED 2 11 2
NCKAP1L WILD-TYPE 94 211 92
'ESYT3 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.38 (Fisher's exact test), Q value = 0.87

Table S689.  Gene #70: 'ESYT3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
ESYT3 MUTATED 1 2 4 1
ESYT3 WILD-TYPE 157 125 119 69
'ESYT3 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S690.  Gene #70: 'ESYT3 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
ESYT3 MUTATED 2 3 2
ESYT3 WILD-TYPE 144 164 115
'ESYT3 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.23 (Fisher's exact test), Q value = 0.75

Table S691.  Gene #70: 'ESYT3 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
ESYT3 MUTATED 0 0 0 1 4
ESYT3 WILD-TYPE 89 22 59 64 97
'ESYT3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.259 (Fisher's exact test), Q value = 0.76

Table S692.  Gene #70: 'ESYT3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
ESYT3 MUTATED 1 2 2
ESYT3 WILD-TYPE 155 119 57
'ESYT3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.671 (Fisher's exact test), Q value = 1

Table S693.  Gene #70: 'ESYT3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
ESYT3 MUTATED 2 2 3 1 0
ESYT3 WILD-TYPE 125 107 83 104 51
'ESYT3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.536 (Fisher's exact test), Q value = 0.99

Table S694.  Gene #70: 'ESYT3 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
ESYT3 MUTATED 1 3 1 1 0 2 0
ESYT3 WILD-TYPE 71 106 89 43 49 44 68
'ESYT3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.306 (Fisher's exact test), Q value = 0.79

Table S695.  Gene #70: 'ESYT3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
ESYT3 MUTATED 3 5 0
ESYT3 WILD-TYPE 169 200 99
'ESYT3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.307 (Fisher's exact test), Q value = 0.79

Table S696.  Gene #70: 'ESYT3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
ESYT3 MUTATED 0 0 5 3 0 0
ESYT3 WILD-TYPE 70 37 130 117 86 28
'ESYT3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.788 (Fisher's exact test), Q value = 1

Table S697.  Gene #70: 'ESYT3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
ESYT3 MUTATED 0 1 3 0 1 2
ESYT3 WILD-TYPE 55 84 94 42 59 71
'ESYT3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.408 (Fisher's exact test), Q value = 0.88

Table S698.  Gene #70: 'ESYT3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
ESYT3 MUTATED 0 5 2
ESYT3 WILD-TYPE 96 217 92
'MIA2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.344 (Fisher's exact test), Q value = 0.83

Table S699.  Gene #71: 'MIA2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
MIA2 MUTATED 6 3 1 3
MIA2 WILD-TYPE 152 124 122 67
'MIA2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.407 (Fisher's exact test), Q value = 0.88

Table S700.  Gene #71: 'MIA2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
MIA2 MUTATED 5 5 1
MIA2 WILD-TYPE 141 162 116
'MIA2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S701.  Gene #71: 'MIA2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
MIA2 MUTATED 3 0 2 2 2
MIA2 WILD-TYPE 86 22 57 63 99
'MIA2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.139 (Fisher's exact test), Q value = 0.62

Table S702.  Gene #71: 'MIA2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
MIA2 MUTATED 2 6 1
MIA2 WILD-TYPE 154 115 58
'MIA2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0536 (Fisher's exact test), Q value = 0.46

Table S703.  Gene #71: 'MIA2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
MIA2 MUTATED 3 3 0 7 0
MIA2 WILD-TYPE 124 106 86 98 51
'MIA2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.266 (Fisher's exact test), Q value = 0.76

Table S704.  Gene #71: 'MIA2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
MIA2 MUTATED 2 2 5 2 2 0 0
MIA2 WILD-TYPE 70 107 85 42 47 46 68
'MIA2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.585 (Fisher's exact test), Q value = 1

Table S705.  Gene #71: 'MIA2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
MIA2 MUTATED 5 7 1
MIA2 WILD-TYPE 167 198 98
'MIA2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.82 (Fisher's exact test), Q value = 1

Table S706.  Gene #71: 'MIA2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
MIA2 MUTATED 2 1 4 2 4 0
MIA2 WILD-TYPE 68 36 131 118 82 28
'MIA2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.444 (Fisher's exact test), Q value = 0.91

Table S707.  Gene #71: 'MIA2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
MIA2 MUTATED 0 4 4 0 2 1
MIA2 WILD-TYPE 55 81 93 42 58 72
'MIA2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.513 (Fisher's exact test), Q value = 0.97

Table S708.  Gene #71: 'MIA2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
MIA2 MUTATED 2 8 1
MIA2 WILD-TYPE 94 214 93
'TUBB4 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.654 (Fisher's exact test), Q value = 1

Table S709.  Gene #72: 'TUBB4 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
TUBB4 MUTATED 6 4 3 4
TUBB4 WILD-TYPE 152 123 120 66
'TUBB4 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.849 (Fisher's exact test), Q value = 1

Table S710.  Gene #72: 'TUBB4 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
TUBB4 MUTATED 6 6 3
TUBB4 WILD-TYPE 140 161 114
'TUBB4 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.666 (Fisher's exact test), Q value = 1

Table S711.  Gene #72: 'TUBB4 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
TUBB4 MUTATED 2 0 0 2 4
TUBB4 WILD-TYPE 87 22 59 63 97
'TUBB4 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.452 (Fisher's exact test), Q value = 0.92

Table S712.  Gene #72: 'TUBB4 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
TUBB4 MUTATED 2 4 2
TUBB4 WILD-TYPE 154 117 57
'TUBB4 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.674 (Fisher's exact test), Q value = 1

Table S713.  Gene #72: 'TUBB4 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
TUBB4 MUTATED 7 2 3 4 1
TUBB4 WILD-TYPE 120 107 83 101 50
'TUBB4 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.805 (Fisher's exact test), Q value = 1

Table S714.  Gene #72: 'TUBB4 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
TUBB4 MUTATED 1 3 4 2 3 1 3
TUBB4 WILD-TYPE 71 106 86 42 46 45 65
'TUBB4 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.529 (Fisher's exact test), Q value = 0.99

Table S715.  Gene #72: 'TUBB4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
TUBB4 MUTATED 4 9 4
TUBB4 WILD-TYPE 168 196 95
'TUBB4 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S716.  Gene #72: 'TUBB4 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
TUBB4 MUTATED 1 2 7 3 4 0
TUBB4 WILD-TYPE 69 35 128 117 82 28
'TUBB4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.395 (Fisher's exact test), Q value = 0.88

Table S717.  Gene #72: 'TUBB4 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
TUBB4 MUTATED 1 3 1 2 2 5
TUBB4 WILD-TYPE 54 82 96 40 58 68
'TUBB4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.2 (Fisher's exact test), Q value = 0.72

Table S718.  Gene #72: 'TUBB4 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
TUBB4 MUTATED 2 11 1
TUBB4 WILD-TYPE 94 211 93
'ABHD12B MUTATION STATUS' versus 'CN_CNMF'

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

Table S719.  Gene #73: 'ABHD12B MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
ABHD12B MUTATED 2 3 1 1
ABHD12B WILD-TYPE 156 124 122 69
'ABHD12B MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.25 (Fisher's exact test), Q value = 0.76

Table S720.  Gene #73: 'ABHD12B MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
ABHD12B MUTATED 2 4 0
ABHD12B WILD-TYPE 144 163 117
'ABHD12B MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.625 (Fisher's exact test), Q value = 1

Table S721.  Gene #73: 'ABHD12B MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
ABHD12B MUTATED 1 0 1 1 0
ABHD12B WILD-TYPE 88 22 58 64 101
'ABHD12B MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S722.  Gene #73: 'ABHD12B MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
ABHD12B MUTATED 2 1 0
ABHD12B WILD-TYPE 154 120 59
'ABHD12B MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.785 (Fisher's exact test), Q value = 1

Table S723.  Gene #73: 'ABHD12B MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
ABHD12B MUTATED 1 1 2 2 1
ABHD12B WILD-TYPE 126 108 84 103 50
'ABHD12B MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S724.  Gene #73: 'ABHD12B MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
ABHD12B MUTATED 1 1 2 1 1 1 0
ABHD12B WILD-TYPE 71 108 88 43 48 45 68
'ABHD12B MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0572 (Fisher's exact test), Q value = 0.47

Table S725.  Gene #73: 'ABHD12B MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
ABHD12B MUTATED 0 4 3
ABHD12B WILD-TYPE 172 201 96
'ABHD12B MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.294 (Fisher's exact test), Q value = 0.78

Table S726.  Gene #73: 'ABHD12B MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
ABHD12B MUTATED 0 2 1 2 2 0
ABHD12B WILD-TYPE 70 35 134 118 84 28
'ABHD12B MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.247 (Fisher's exact test), Q value = 0.76

Table S727.  Gene #73: 'ABHD12B MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
ABHD12B MUTATED 0 2 2 2 0 0
ABHD12B WILD-TYPE 55 83 95 40 60 73
'ABHD12B MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.488 (Fisher's exact test), Q value = 0.96

Table S728.  Gene #73: 'ABHD12B MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
ABHD12B MUTATED 0 4 2
ABHD12B WILD-TYPE 96 218 92
'ANTXR1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.332 (Fisher's exact test), Q value = 0.81

Table S729.  Gene #74: 'ANTXR1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
ANTXR1 MUTATED 3 6 7 3
ANTXR1 WILD-TYPE 155 121 116 67
'ANTXR1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.609 (Fisher's exact test), Q value = 1

Table S730.  Gene #74: 'ANTXR1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
ANTXR1 MUTATED 4 8 5
ANTXR1 WILD-TYPE 142 159 112
'ANTXR1 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S731.  Gene #74: 'ANTXR1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
ANTXR1 MUTATED 3 1 1 2 4
ANTXR1 WILD-TYPE 86 21 58 63 97
'ANTXR1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S732.  Gene #74: 'ANTXR1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
ANTXR1 MUTATED 6 4 1
ANTXR1 WILD-TYPE 150 117 58
'ANTXR1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.25 (Fisher's exact test), Q value = 0.76

Table S733.  Gene #74: 'ANTXR1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
ANTXR1 MUTATED 9 5 1 3 1
ANTXR1 WILD-TYPE 118 104 85 102 50
'ANTXR1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.72 (Fisher's exact test), Q value = 1

Table S734.  Gene #74: 'ANTXR1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
ANTXR1 MUTATED 5 5 2 1 1 1 4
ANTXR1 WILD-TYPE 67 104 88 43 48 45 64
'ANTXR1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.551 (Fisher's exact test), Q value = 1

Table S735.  Gene #74: 'ANTXR1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
ANTXR1 MUTATED 8 8 2
ANTXR1 WILD-TYPE 164 197 97
'ANTXR1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.765 (Fisher's exact test), Q value = 1

Table S736.  Gene #74: 'ANTXR1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
ANTXR1 MUTATED 4 0 6 5 2 1
ANTXR1 WILD-TYPE 66 37 129 115 84 27
'ANTXR1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.68 (Fisher's exact test), Q value = 1

Table S737.  Gene #74: 'ANTXR1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
ANTXR1 MUTATED 2 4 4 0 4 2
ANTXR1 WILD-TYPE 53 81 93 42 56 71
'ANTXR1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S738.  Gene #74: 'ANTXR1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
ANTXR1 MUTATED 4 7 5
ANTXR1 WILD-TYPE 92 215 89
'FLCN MUTATION STATUS' versus 'CN_CNMF'

P value = 0.934 (Fisher's exact test), Q value = 1

Table S739.  Gene #75: 'FLCN MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
FLCN MUTATED 4 2 2 1
FLCN WILD-TYPE 154 125 121 69
'FLCN MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.487 (Fisher's exact test), Q value = 0.96

Table S740.  Gene #75: 'FLCN MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
FLCN MUTATED 2 5 1
FLCN WILD-TYPE 144 162 116
'FLCN MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.232 (Fisher's exact test), Q value = 0.75

Table S741.  Gene #75: 'FLCN MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
FLCN MUTATED 0 0 3 1 2
FLCN WILD-TYPE 89 22 56 64 99
'FLCN MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.859 (Fisher's exact test), Q value = 1

Table S742.  Gene #75: 'FLCN MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
FLCN MUTATED 2 3 1
FLCN WILD-TYPE 154 118 58
'FLCN MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S743.  Gene #75: 'FLCN MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
FLCN MUTATED 2 3 3 1 0
FLCN WILD-TYPE 125 106 83 104 51
'FLCN MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.8 (Fisher's exact test), Q value = 1

Table S744.  Gene #75: 'FLCN MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
FLCN MUTATED 1 3 1 1 0 2 1
FLCN WILD-TYPE 71 106 89 43 49 44 67
'FLCN MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.563 (Fisher's exact test), Q value = 1

Table S745.  Gene #75: 'FLCN MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
FLCN MUTATED 5 3 1
FLCN WILD-TYPE 167 202 98
'FLCN MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.542 (Fisher's exact test), Q value = 1

Table S746.  Gene #75: 'FLCN MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
FLCN MUTATED 2 0 3 4 0 0
FLCN WILD-TYPE 68 37 132 116 86 28
'FLCN MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.849 (Fisher's exact test), Q value = 1

Table S747.  Gene #75: 'FLCN MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
FLCN MUTATED 0 1 3 1 1 2
FLCN WILD-TYPE 55 84 94 41 59 71
'FLCN MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S748.  Gene #75: 'FLCN MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
FLCN MUTATED 2 4 2
FLCN WILD-TYPE 94 218 92
'ZNF556 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.259 (Fisher's exact test), Q value = 0.76

Table S749.  Gene #76: 'ZNF556 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
ZNF556 MUTATED 3 5 1 3
ZNF556 WILD-TYPE 155 122 122 67
'ZNF556 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.268 (Fisher's exact test), Q value = 0.76

Table S750.  Gene #76: 'ZNF556 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
ZNF556 MUTATED 6 4 1
ZNF556 WILD-TYPE 140 163 116
'ZNF556 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S751.  Gene #76: 'ZNF556 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
ZNF556 MUTATED 3 0 0 1 3
ZNF556 WILD-TYPE 86 22 59 64 98
'ZNF556 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.881 (Fisher's exact test), Q value = 1

Table S752.  Gene #76: 'ZNF556 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
ZNF556 MUTATED 4 2 1
ZNF556 WILD-TYPE 152 119 58
'ZNF556 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0667 (Fisher's exact test), Q value = 0.49

Table S753.  Gene #76: 'ZNF556 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
ZNF556 MUTATED 8 1 1 2 0
ZNF556 WILD-TYPE 119 108 85 103 51
'ZNF556 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.185 (Fisher's exact test), Q value = 0.7

Table S754.  Gene #76: 'ZNF556 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
ZNF556 MUTATED 0 3 6 1 0 1 1
ZNF556 WILD-TYPE 72 106 84 43 49 45 67
'ZNF556 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.262 (Fisher's exact test), Q value = 0.76

Table S755.  Gene #76: 'ZNF556 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
ZNF556 MUTATED 2 6 4
ZNF556 WILD-TYPE 170 199 95
'ZNF556 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.306 (Fisher's exact test), Q value = 0.79

Table S756.  Gene #76: 'ZNF556 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
ZNF556 MUTATED 1 0 6 1 4 0
ZNF556 WILD-TYPE 69 37 129 119 82 28
'ZNF556 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.156 (Fisher's exact test), Q value = 0.66

Table S757.  Gene #76: 'ZNF556 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
ZNF556 MUTATED 0 3 2 1 0 5
ZNF556 WILD-TYPE 55 82 95 41 60 68
'ZNF556 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0334 (Fisher's exact test), Q value = 0.39

Table S758.  Gene #76: 'ZNF556 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
ZNF556 MUTATED 0 10 1
ZNF556 WILD-TYPE 96 212 93

Figure S105.  Get High-res Image Gene #76: 'ZNF556 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'ASCL3 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.586 (Fisher's exact test), Q value = 1

Table S759.  Gene #77: 'ASCL3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
ASCL3 MUTATED 3 3 1 0
ASCL3 WILD-TYPE 155 124 122 70
'ASCL3 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.451 (Fisher's exact test), Q value = 0.92

Table S760.  Gene #77: 'ASCL3 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
ASCL3 MUTATED 2 3 0
ASCL3 WILD-TYPE 144 164 117
'ASCL3 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.339 (Fisher's exact test), Q value = 0.82

Table S761.  Gene #77: 'ASCL3 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
ASCL3 MUTATED 1 1 0 0 2
ASCL3 WILD-TYPE 88 21 59 65 99
'ASCL3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.396 (Fisher's exact test), Q value = 0.88

Table S762.  Gene #77: 'ASCL3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
ASCL3 MUTATED 1 3 0
ASCL3 WILD-TYPE 155 118 59
'ASCL3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S763.  Gene #77: 'ASCL3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
ASCL3 MUTATED 4 1 1 1 0
ASCL3 WILD-TYPE 123 108 85 104 51
'ASCL3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.907 (Fisher's exact test), Q value = 1

Table S764.  Gene #77: 'ASCL3 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
ASCL3 MUTATED 1 2 2 0 1 1 0
ASCL3 WILD-TYPE 71 107 88 44 48 45 68
'ASCL3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.543 (Fisher's exact test), Q value = 1

Table S765.  Gene #77: 'ASCL3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
ASCL3 MUTATED 1 4 2
ASCL3 WILD-TYPE 171 201 97
'ASCL3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.178 (Fisher's exact test), Q value = 0.69

Table S766.  Gene #77: 'ASCL3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
ASCL3 MUTATED 0 0 4 0 3 0
ASCL3 WILD-TYPE 70 37 131 120 83 28
'ASCL3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S767.  Gene #77: 'ASCL3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
ASCL3 MUTATED 0 1 1 0 2 1
ASCL3 WILD-TYPE 55 84 96 42 58 72
'ASCL3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.832 (Fisher's exact test), Q value = 1

Table S768.  Gene #77: 'ASCL3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
ASCL3 MUTATED 2 2 1
ASCL3 WILD-TYPE 94 220 93
'DSG3 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.132 (Fisher's exact test), Q value = 0.6

Table S769.  Gene #78: 'DSG3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
DSG3 MUTATED 14 12 4 3
DSG3 WILD-TYPE 144 115 119 67
'DSG3 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.301 (Fisher's exact test), Q value = 0.79

Table S770.  Gene #78: 'DSG3 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
DSG3 MUTATED 9 15 5
DSG3 WILD-TYPE 137 152 112
'DSG3 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.201 (Fisher's exact test), Q value = 0.72

Table S771.  Gene #78: 'DSG3 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
DSG3 MUTATED 10 1 2 2 10
DSG3 WILD-TYPE 79 21 57 63 91
'DSG3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.855 (Fisher's exact test), Q value = 1

Table S772.  Gene #78: 'DSG3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
DSG3 MUTATED 12 8 5
DSG3 WILD-TYPE 144 113 54
'DSG3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.256 (Fisher's exact test), Q value = 0.76

Table S773.  Gene #78: 'DSG3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
DSG3 MUTATED 14 4 5 6 4
DSG3 WILD-TYPE 113 105 81 99 47
'DSG3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.708 (Fisher's exact test), Q value = 1

Table S774.  Gene #78: 'DSG3 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
DSG3 MUTATED 3 12 5 2 3 3 5
DSG3 WILD-TYPE 69 97 85 42 46 43 63
'DSG3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.495 (Fisher's exact test), Q value = 0.96

Table S775.  Gene #78: 'DSG3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
DSG3 MUTATED 9 17 6
DSG3 WILD-TYPE 163 188 93
'DSG3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.72 (Fisher's exact test), Q value = 1

Table S776.  Gene #78: 'DSG3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
DSG3 MUTATED 5 3 10 5 8 1
DSG3 WILD-TYPE 65 34 125 115 78 27
'DSG3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.579 (Fisher's exact test), Q value = 1

Table S777.  Gene #78: 'DSG3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
DSG3 MUTATED 1 8 8 3 3 5
DSG3 WILD-TYPE 54 77 89 39 57 68
'DSG3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.7 (Fisher's exact test), Q value = 1

Table S778.  Gene #78: 'DSG3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
DSG3 MUTATED 8 15 5
DSG3 WILD-TYPE 88 207 89
'C5AR1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.423 (Fisher's exact test), Q value = 0.9

Table S779.  Gene #79: 'C5AR1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
C5AR1 MUTATED 3 2 0 1
C5AR1 WILD-TYPE 155 125 123 69
'C5AR1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.337 (Fisher's exact test), Q value = 0.81

Table S780.  Gene #79: 'C5AR1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
C5AR1 MUTATED 3 3 0
C5AR1 WILD-TYPE 143 164 117
'C5AR1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.304 (Fisher's exact test), Q value = 0.79

Table S781.  Gene #79: 'C5AR1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
C5AR1 MUTATED 0 0 0 2 3
C5AR1 WILD-TYPE 89 22 59 63 98
'C5AR1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.851 (Fisher's exact test), Q value = 1

Table S782.  Gene #79: 'C5AR1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
C5AR1 MUTATED 3 2 0
C5AR1 WILD-TYPE 153 119 59
'C5AR1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.523 (Fisher's exact test), Q value = 0.98

Table S783.  Gene #79: 'C5AR1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
C5AR1 MUTATED 3 0 1 2 0
C5AR1 WILD-TYPE 124 109 85 103 51
'C5AR1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.59 (Fisher's exact test), Q value = 1

Table S784.  Gene #79: 'C5AR1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
C5AR1 MUTATED 0 3 1 0 1 1 0
C5AR1 WILD-TYPE 72 106 89 44 48 45 68
'C5AR1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.585 (Fisher's exact test), Q value = 1

Table S785.  Gene #79: 'C5AR1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
C5AR1 MUTATED 1 3 2
C5AR1 WILD-TYPE 171 202 97
'C5AR1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.197 (Fisher's exact test), Q value = 0.72

Table S786.  Gene #79: 'C5AR1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
C5AR1 MUTATED 0 1 2 0 2 1
C5AR1 WILD-TYPE 70 36 133 120 84 27
'C5AR1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.41 (Fisher's exact test), Q value = 0.88

Table S787.  Gene #79: 'C5AR1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
C5AR1 MUTATED 0 2 3 1 0 0
C5AR1 WILD-TYPE 55 83 94 41 60 73
'C5AR1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.16 (Fisher's exact test), Q value = 0.66

Table S788.  Gene #79: 'C5AR1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
C5AR1 MUTATED 0 3 3
C5AR1 WILD-TYPE 96 219 91
'ASXL2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.273 (Fisher's exact test), Q value = 0.76

Table S789.  Gene #80: 'ASXL2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
ASXL2 MUTATED 3 5 4 5
ASXL2 WILD-TYPE 155 122 119 65
'ASXL2 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S790.  Gene #80: 'ASXL2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
ASXL2 MUTATED 7 6 3
ASXL2 WILD-TYPE 139 161 114
'ASXL2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.531 (Fisher's exact test), Q value = 0.99

Table S791.  Gene #80: 'ASXL2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
ASXL2 MUTATED 1 1 2 3 5
ASXL2 WILD-TYPE 88 21 57 62 96
'ASXL2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0754 (Fisher's exact test), Q value = 0.51

Table S792.  Gene #80: 'ASXL2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
ASXL2 MUTATED 2 7 3
ASXL2 WILD-TYPE 154 114 56
'ASXL2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.357 (Fisher's exact test), Q value = 0.84

Table S793.  Gene #80: 'ASXL2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
ASXL2 MUTATED 3 2 4 7 2
ASXL2 WILD-TYPE 124 107 82 98 49
'ASXL2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S794.  Gene #80: 'ASXL2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
ASXL2 MUTATED 1 5 3 3 3 1 2
ASXL2 WILD-TYPE 71 104 87 41 46 45 66
'ASXL2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.426 (Fisher's exact test), Q value = 0.9

Table S795.  Gene #80: 'ASXL2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
ASXL2 MUTATED 4 9 5
ASXL2 WILD-TYPE 168 196 94
'ASXL2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.51 (Fisher's exact test), Q value = 0.97

Table S796.  Gene #80: 'ASXL2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
ASXL2 MUTATED 2 0 6 3 6 1
ASXL2 WILD-TYPE 68 37 129 117 80 27
'ASXL2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0749 (Fisher's exact test), Q value = 0.51

Table S797.  Gene #80: 'ASXL2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
ASXL2 MUTATED 0 7 1 2 2 4
ASXL2 WILD-TYPE 55 78 96 40 58 69
'ASXL2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.521 (Fisher's exact test), Q value = 0.98

Table S798.  Gene #80: 'ASXL2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
ASXL2 MUTATED 3 11 2
ASXL2 WILD-TYPE 93 211 92
'DLX5 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.314 (Fisher's exact test), Q value = 0.8

Table S799.  Gene #81: 'DLX5 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
DLX5 MUTATED 5 2 2 4
DLX5 WILD-TYPE 153 125 121 66
'DLX5 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.873 (Fisher's exact test), Q value = 1

Table S800.  Gene #81: 'DLX5 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
DLX5 MUTATED 5 4 3
DLX5 WILD-TYPE 141 163 114
'DLX5 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0894 (Fisher's exact test), Q value = 0.55

Table S801.  Gene #81: 'DLX5 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
DLX5 MUTATED 3 2 0 3 1
DLX5 WILD-TYPE 86 20 59 62 100
'DLX5 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.32 (Fisher's exact test), Q value = 0.81

Table S802.  Gene #81: 'DLX5 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
DLX5 MUTATED 4 5 0
DLX5 WILD-TYPE 152 116 59
'DLX5 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.503 (Fisher's exact test), Q value = 0.96

Table S803.  Gene #81: 'DLX5 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
DLX5 MUTATED 3 1 4 3 2
DLX5 WILD-TYPE 124 108 82 102 49
'DLX5 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.721 (Fisher's exact test), Q value = 1

Table S804.  Gene #81: 'DLX5 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
DLX5 MUTATED 1 3 4 0 2 2 1
DLX5 WILD-TYPE 71 106 86 44 47 44 67
'DLX5 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.00423 (Fisher's exact test), Q value = 0.093

Table S805.  Gene #81: 'DLX5 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
DLX5 MUTATED 0 10 3
DLX5 WILD-TYPE 172 195 96

Figure S106.  Get High-res Image Gene #81: 'DLX5 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'DLX5 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.337 (Fisher's exact test), Q value = 0.81

Table S806.  Gene #81: 'DLX5 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
DLX5 MUTATED 0 1 6 2 4 0
DLX5 WILD-TYPE 70 36 129 118 82 28
'DLX5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.286 (Fisher's exact test), Q value = 0.78

Table S807.  Gene #81: 'DLX5 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
DLX5 MUTATED 0 3 2 0 4 3
DLX5 WILD-TYPE 55 82 95 42 56 70
'DLX5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.174 (Fisher's exact test), Q value = 0.69

Table S808.  Gene #81: 'DLX5 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
DLX5 MUTATED 1 10 1
DLX5 WILD-TYPE 95 212 93
'ATAD2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.87 (Fisher's exact test), Q value = 1

Table S809.  Gene #82: 'ATAD2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
ATAD2 MUTATED 4 4 3 3
ATAD2 WILD-TYPE 154 123 120 67
'ATAD2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0539 (Fisher's exact test), Q value = 0.46

Table S810.  Gene #82: 'ATAD2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
ATAD2 MUTATED 6 7 0
ATAD2 WILD-TYPE 140 160 117
'ATAD2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0972 (Fisher's exact test), Q value = 0.56

Table S811.  Gene #82: 'ATAD2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
ATAD2 MUTATED 1 0 2 5 1
ATAD2 WILD-TYPE 88 22 57 60 100
'ATAD2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.491 (Fisher's exact test), Q value = 0.96

Table S812.  Gene #82: 'ATAD2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
ATAD2 MUTATED 5 4 0
ATAD2 WILD-TYPE 151 117 59
'ATAD2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.371 (Fisher's exact test), Q value = 0.86

Table S813.  Gene #82: 'ATAD2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
ATAD2 MUTATED 7 2 1 2 1
ATAD2 WILD-TYPE 120 107 85 103 50
'ATAD2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.276 (Fisher's exact test), Q value = 0.77

Table S814.  Gene #82: 'ATAD2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
ATAD2 MUTATED 0 4 5 2 1 0 1
ATAD2 WILD-TYPE 72 105 85 42 48 46 67
'ATAD2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.442 (Fisher's exact test), Q value = 0.91

Table S815.  Gene #82: 'ATAD2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
ATAD2 MUTATED 3 7 4
ATAD2 WILD-TYPE 169 198 95
'ATAD2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0445 (Fisher's exact test), Q value = 0.43

Table S816.  Gene #82: 'ATAD2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
ATAD2 MUTATED 2 0 7 0 5 0
ATAD2 WILD-TYPE 68 37 128 120 81 28

Figure S107.  Get High-res Image Gene #82: 'ATAD2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'ATAD2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.84 (Fisher's exact test), Q value = 1

Table S817.  Gene #82: 'ATAD2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
ATAD2 MUTATED 1 2 4 1 1 4
ATAD2 WILD-TYPE 54 83 93 41 59 69
'ATAD2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.283 (Fisher's exact test), Q value = 0.78

Table S818.  Gene #82: 'ATAD2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
ATAD2 MUTATED 2 10 1
ATAD2 WILD-TYPE 94 212 93
'RAF1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.424 (Fisher's exact test), Q value = 0.9

Table S819.  Gene #83: 'RAF1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
RAF1 MUTATED 3 2 0 1
RAF1 WILD-TYPE 155 125 123 69
'RAF1 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S820.  Gene #83: 'RAF1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
RAF1 MUTATED 2 2 2
RAF1 WILD-TYPE 144 165 115
'RAF1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.181 (Fisher's exact test), Q value = 0.69

Table S821.  Gene #83: 'RAF1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
RAF1 MUTATED 0 1 0 1 3
RAF1 WILD-TYPE 89 21 59 64 98
'RAF1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0721 (Fisher's exact test), Q value = 0.51

Table S822.  Gene #83: 'RAF1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
RAF1 MUTATED 1 1 3
RAF1 WILD-TYPE 155 120 56
'RAF1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.442 (Fisher's exact test), Q value = 0.91

Table S823.  Gene #83: 'RAF1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
RAF1 MUTATED 3 1 2 0 0
RAF1 WILD-TYPE 124 108 84 105 51
'RAF1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.554 (Fisher's exact test), Q value = 1

Table S824.  Gene #83: 'RAF1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
RAF1 MUTATED 1 2 1 0 0 2 0
RAF1 WILD-TYPE 71 107 89 44 49 44 68
'RAF1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.867 (Fisher's exact test), Q value = 1

Table S825.  Gene #83: 'RAF1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
RAF1 MUTATED 3 2 1
RAF1 WILD-TYPE 169 203 98
'RAF1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.12 (Fisher's exact test), Q value = 0.58

Table S826.  Gene #83: 'RAF1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
RAF1 MUTATED 1 0 0 1 3 1
RAF1 WILD-TYPE 69 37 135 119 83 27
'RAF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0894 (Fisher's exact test), Q value = 0.55

Table S827.  Gene #83: 'RAF1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
RAF1 MUTATED 1 0 3 2 0 0
RAF1 WILD-TYPE 54 85 94 40 60 73
'RAF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0458 (Fisher's exact test), Q value = 0.43

Table S828.  Gene #83: 'RAF1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
RAF1 MUTATED 0 2 4
RAF1 WILD-TYPE 96 220 90

Figure S108.  Get High-res Image Gene #83: 'RAF1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'A2M MUTATION STATUS' versus 'CN_CNMF'

P value = 0.121 (Fisher's exact test), Q value = 0.58

Table S829.  Gene #84: 'A2M MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
A2M MUTATED 8 7 1 4
A2M WILD-TYPE 150 120 122 66
'A2M MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.409 (Fisher's exact test), Q value = 0.88

Table S830.  Gene #84: 'A2M MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
A2M MUTATED 6 8 2
A2M WILD-TYPE 140 159 115
'A2M MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.203 (Fisher's exact test), Q value = 0.72

Table S831.  Gene #84: 'A2M MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
A2M MUTATED 4 1 0 5 3
A2M WILD-TYPE 85 21 59 60 98
'A2M MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.388 (Fisher's exact test), Q value = 0.88

Table S832.  Gene #84: 'A2M MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
A2M MUTATED 4 7 2
A2M WILD-TYPE 152 114 57
'A2M MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0153 (Fisher's exact test), Q value = 0.25

Table S833.  Gene #84: 'A2M MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
A2M MUTATED 10 0 3 6 1
A2M WILD-TYPE 117 109 83 99 50

Figure S109.  Get High-res Image Gene #84: 'A2M MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'A2M MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0532 (Fisher's exact test), Q value = 0.46

Table S834.  Gene #84: 'A2M MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
A2M MUTATED 0 6 6 0 4 3 1
A2M WILD-TYPE 72 103 84 44 45 43 67
'A2M MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 3e-04 (Fisher's exact test), Q value = 0.01

Table S835.  Gene #84: 'A2M MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
A2M MUTATED 0 13 6
A2M WILD-TYPE 172 192 93

Figure S110.  Get High-res Image Gene #84: 'A2M MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'A2M MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0358 (Fisher's exact test), Q value = 0.39

Table S836.  Gene #84: 'A2M MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
A2M MUTATED 1 3 10 1 4 0
A2M WILD-TYPE 69 34 125 119 82 28

Figure S111.  Get High-res Image Gene #84: 'A2M MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'A2M MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S837.  Gene #84: 'A2M MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
A2M MUTATED 1 6 3 2 1 3
A2M WILD-TYPE 54 79 94 40 59 70
'A2M MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.191 (Fisher's exact test), Q value = 0.71

Table S838.  Gene #84: 'A2M MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
A2M MUTATED 1 12 3
A2M WILD-TYPE 95 210 91
'SND1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.203 (Fisher's exact test), Q value = 0.72

Table S839.  Gene #85: 'SND1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
SND1 MUTATED 8 4 1 3
SND1 WILD-TYPE 150 123 122 67
'SND1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.122 (Fisher's exact test), Q value = 0.58

Table S840.  Gene #85: 'SND1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
SND1 MUTATED 8 6 1
SND1 WILD-TYPE 138 161 116
'SND1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.853 (Fisher's exact test), Q value = 1

Table S841.  Gene #85: 'SND1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
SND1 MUTATED 3 1 1 3 5
SND1 WILD-TYPE 86 21 58 62 96
'SND1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0198 (Fisher's exact test), Q value = 0.3

Table S842.  Gene #85: 'SND1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
SND1 MUTATED 2 6 5
SND1 WILD-TYPE 154 115 54

Figure S112.  Get High-res Image Gene #85: 'SND1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'SND1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0599 (Fisher's exact test), Q value = 0.47

Table S843.  Gene #85: 'SND1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
SND1 MUTATED 5 0 3 7 1
SND1 WILD-TYPE 122 109 83 98 50
'SND1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.023 (Fisher's exact test), Q value = 0.31

Table S844.  Gene #85: 'SND1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
SND1 MUTATED 0 4 7 0 3 2 0
SND1 WILD-TYPE 72 105 83 44 46 44 68

Figure S113.  Get High-res Image Gene #85: 'SND1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'SND1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0349 (Fisher's exact test), Q value = 0.39

Table S845.  Gene #85: 'SND1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
SND1 MUTATED 2 12 2
SND1 WILD-TYPE 170 193 97

Figure S114.  Get High-res Image Gene #85: 'SND1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'SND1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.147 (Fisher's exact test), Q value = 0.64

Table S846.  Gene #85: 'SND1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
SND1 MUTATED 1 2 8 1 4 0
SND1 WILD-TYPE 69 35 127 119 82 28
'SND1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.108 (Fisher's exact test), Q value = 0.58

Table S847.  Gene #85: 'SND1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
SND1 MUTATED 0 7 4 0 1 2
SND1 WILD-TYPE 55 78 93 42 59 71
'SND1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00776 (Fisher's exact test), Q value = 0.15

Table S848.  Gene #85: 'SND1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
SND1 MUTATED 0 13 1
SND1 WILD-TYPE 96 209 93

Figure S115.  Get High-res Image Gene #85: 'SND1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'C7ORF36 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.623 (Fisher's exact test), Q value = 1

Table S849.  Gene #86: 'C7ORF36 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
C7ORF36 MUTATED 2 1 1 2
C7ORF36 WILD-TYPE 156 126 122 68
'C7ORF36 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.568 (Fisher's exact test), Q value = 1

Table S850.  Gene #86: 'C7ORF36 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
C7ORF36 MUTATED 2 2 0
C7ORF36 WILD-TYPE 144 165 117
'C7ORF36 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.442 (Fisher's exact test), Q value = 0.91

Table S851.  Gene #86: 'C7ORF36 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
C7ORF36 MUTATED 0 0 2 1 2
C7ORF36 WILD-TYPE 89 22 57 64 99
'C7ORF36 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.852 (Fisher's exact test), Q value = 1

Table S852.  Gene #86: 'C7ORF36 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
C7ORF36 MUTATED 3 2 0
C7ORF36 WILD-TYPE 153 119 59
'C7ORF36 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S853.  Gene #86: 'C7ORF36 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
C7ORF36 MUTATED 3 1 0 2 0
C7ORF36 WILD-TYPE 124 108 86 103 51
'C7ORF36 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.354 (Fisher's exact test), Q value = 0.84

Table S854.  Gene #86: 'C7ORF36 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
C7ORF36 MUTATED 0 2 1 2 1 0 0
C7ORF36 WILD-TYPE 72 107 89 42 48 46 68
'C7ORF36 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S855.  Gene #86: 'C7ORF36 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
C7ORF36 MUTATED 2 3 1
C7ORF36 WILD-TYPE 170 202 98
'C7ORF36 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.289 (Fisher's exact test), Q value = 0.78

Table S856.  Gene #86: 'C7ORF36 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
C7ORF36 MUTATED 2 0 2 0 1 1
C7ORF36 WILD-TYPE 68 37 133 120 85 27
'C7ORF36 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0747 (Fisher's exact test), Q value = 0.51

Table S857.  Gene #86: 'C7ORF36 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
C7ORF36 MUTATED 0 3 0 1 0 0
C7ORF36 WILD-TYPE 55 82 97 41 60 73
'C7ORF36 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S858.  Gene #86: 'C7ORF36 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
C7ORF36 MUTATED 1 2 1
C7ORF36 WILD-TYPE 95 220 93
'HTRA1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.866 (Fisher's exact test), Q value = 1

Table S859.  Gene #87: 'HTRA1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
HTRA1 MUTATED 4 2 2 2
HTRA1 WILD-TYPE 154 125 121 68
'HTRA1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.613 (Fisher's exact test), Q value = 1

Table S860.  Gene #87: 'HTRA1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
HTRA1 MUTATED 5 3 2
HTRA1 WILD-TYPE 141 164 115
'HTRA1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.502 (Fisher's exact test), Q value = 0.96

Table S861.  Gene #87: 'HTRA1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
HTRA1 MUTATED 2 0 3 1 1
HTRA1 WILD-TYPE 87 22 56 64 100
'HTRA1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.687 (Fisher's exact test), Q value = 1

Table S862.  Gene #87: 'HTRA1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
HTRA1 MUTATED 4 3 0
HTRA1 WILD-TYPE 152 118 59
'HTRA1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.918 (Fisher's exact test), Q value = 1

Table S863.  Gene #87: 'HTRA1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
HTRA1 MUTATED 3 3 2 1 1
HTRA1 WILD-TYPE 124 106 84 104 50
'HTRA1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.761 (Fisher's exact test), Q value = 1

Table S864.  Gene #87: 'HTRA1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
HTRA1 MUTATED 1 1 3 2 1 1 1
HTRA1 WILD-TYPE 71 108 87 42 48 45 67
'HTRA1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.843 (Fisher's exact test), Q value = 1

Table S865.  Gene #87: 'HTRA1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
HTRA1 MUTATED 4 5 1
HTRA1 WILD-TYPE 168 200 98
'HTRA1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.531 (Fisher's exact test), Q value = 0.99

Table S866.  Gene #87: 'HTRA1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
HTRA1 MUTATED 3 0 3 1 3 0
HTRA1 WILD-TYPE 67 37 132 119 83 28
'HTRA1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S867.  Gene #87: 'HTRA1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
HTRA1 MUTATED 2 1 2 1 3 1
HTRA1 WILD-TYPE 53 84 95 41 57 72
'HTRA1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.76 (Fisher's exact test), Q value = 1

Table S868.  Gene #87: 'HTRA1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
HTRA1 MUTATED 3 6 1
HTRA1 WILD-TYPE 93 216 93
'ADAMTS2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.103 (Fisher's exact test), Q value = 0.57

Table S869.  Gene #88: 'ADAMTS2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
ADAMTS2 MUTATED 14 12 4 8
ADAMTS2 WILD-TYPE 144 115 119 62
'ADAMTS2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.00125 (Fisher's exact test), Q value = 0.036

Table S870.  Gene #88: 'ADAMTS2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
ADAMTS2 MUTATED 11 22 2
ADAMTS2 WILD-TYPE 135 145 115

Figure S116.  Get High-res Image Gene #88: 'ADAMTS2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'ADAMTS2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.898 (Fisher's exact test), Q value = 1

Table S871.  Gene #88: 'ADAMTS2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
ADAMTS2 MUTATED 5 2 5 4 6
ADAMTS2 WILD-TYPE 84 20 54 61 95
'ADAMTS2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.188 (Fisher's exact test), Q value = 0.7

Table S872.  Gene #88: 'ADAMTS2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
ADAMTS2 MUTATED 8 12 2
ADAMTS2 WILD-TYPE 148 109 57
'ADAMTS2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.254 (Fisher's exact test), Q value = 0.76

Table S873.  Gene #88: 'ADAMTS2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
ADAMTS2 MUTATED 13 9 3 11 2
ADAMTS2 WILD-TYPE 114 100 83 94 49
'ADAMTS2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.816 (Fisher's exact test), Q value = 1

Table S874.  Gene #88: 'ADAMTS2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
ADAMTS2 MUTATED 5 10 7 4 6 3 3
ADAMTS2 WILD-TYPE 67 99 83 40 43 43 65
'ADAMTS2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.112 (Fisher's exact test), Q value = 0.58

Table S875.  Gene #88: 'ADAMTS2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
ADAMTS2 MUTATED 11 23 5
ADAMTS2 WILD-TYPE 161 182 94
'ADAMTS2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0129 (Fisher's exact test), Q value = 0.22

Table S876.  Gene #88: 'ADAMTS2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
ADAMTS2 MUTATED 8 3 19 3 5 1
ADAMTS2 WILD-TYPE 62 34 116 117 81 27

Figure S117.  Get High-res Image Gene #88: 'ADAMTS2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'ADAMTS2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.648 (Fisher's exact test), Q value = 1

Table S877.  Gene #88: 'ADAMTS2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
ADAMTS2 MUTATED 3 8 5 2 7 6
ADAMTS2 WILD-TYPE 52 77 92 40 53 67
'ADAMTS2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S878.  Gene #88: 'ADAMTS2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
ADAMTS2 MUTATED 8 16 7
ADAMTS2 WILD-TYPE 88 206 87
'TAF1L MUTATION STATUS' versus 'MRNA_CNMF'

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

Table S879.  Gene #89: 'TAF1L MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 8 8 4
TAF1L MUTATED 2 1 1
TAF1L WILD-TYPE 6 7 3
'TAF1L MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.792 (Fisher's exact test), Q value = 1

Table S880.  Gene #89: 'TAF1L MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 7 9 4
TAF1L MUTATED 2 1 1
TAF1L WILD-TYPE 5 8 3
'TAF1L MUTATION STATUS' versus 'CN_CNMF'

P value = 0.567 (Fisher's exact test), Q value = 1

Table S881.  Gene #89: 'TAF1L MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
TAF1L MUTATED 18 14 9 9
TAF1L WILD-TYPE 140 113 114 61
'TAF1L MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.189 (Fisher's exact test), Q value = 0.7

Table S882.  Gene #89: 'TAF1L MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
TAF1L MUTATED 20 19 8
TAF1L WILD-TYPE 126 148 109
'TAF1L MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.442 (Fisher's exact test), Q value = 0.91

Table S883.  Gene #89: 'TAF1L MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
TAF1L MUTATED 8 2 6 12 10
TAF1L WILD-TYPE 81 20 53 53 91
'TAF1L MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.504 (Fisher's exact test), Q value = 0.96

Table S884.  Gene #89: 'TAF1L MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
TAF1L MUTATED 15 17 6
TAF1L WILD-TYPE 141 104 53
'TAF1L MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0668 (Fisher's exact test), Q value = 0.49

Table S885.  Gene #89: 'TAF1L MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
TAF1L MUTATED 15 7 5 18 5
TAF1L WILD-TYPE 112 102 81 87 46
'TAF1L MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.284 (Fisher's exact test), Q value = 0.78

Table S886.  Gene #89: 'TAF1L MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
TAF1L MUTATED 3 12 12 7 7 3 6
TAF1L WILD-TYPE 69 97 78 37 42 43 62
'TAF1L MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0429 (Fisher's exact test), Q value = 0.43

Table S887.  Gene #89: 'TAF1L MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
TAF1L MUTATED 16 29 5
TAF1L WILD-TYPE 156 176 94

Figure S118.  Get High-res Image Gene #89: 'TAF1L MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'TAF1L MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.398 (Fisher's exact test), Q value = 0.88

Table S888.  Gene #89: 'TAF1L MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
TAF1L MUTATED 8 4 18 11 9 0
TAF1L WILD-TYPE 62 33 117 109 77 28
'TAF1L MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S889.  Gene #89: 'TAF1L MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
TAF1L MUTATED 3 12 13 3 6 7
TAF1L WILD-TYPE 52 73 84 39 54 66
'TAF1L MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.269 (Fisher's exact test), Q value = 0.76

Table S890.  Gene #89: 'TAF1L MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
TAF1L MUTATED 10 28 6
TAF1L WILD-TYPE 86 194 88
'PLEKHB2 MUTATION STATUS' versus 'CN_CNMF'

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

Table S891.  Gene #90: 'PLEKHB2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 158 127 123 70
PLEKHB2 MUTATED 2 2 1 1
PLEKHB2 WILD-TYPE 156 125 122 69
'PLEKHB2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.337 (Fisher's exact test), Q value = 0.81

Table S892.  Gene #90: 'PLEKHB2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 146 167 117
PLEKHB2 MUTATED 3 3 0
PLEKHB2 WILD-TYPE 143 164 117
'PLEKHB2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.696 (Fisher's exact test), Q value = 1

Table S893.  Gene #90: 'PLEKHB2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 89 22 59 65 101
PLEKHB2 MUTATED 2 0 0 2 1
PLEKHB2 WILD-TYPE 87 22 59 63 100
'PLEKHB2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.408 (Fisher's exact test), Q value = 0.88

Table S894.  Gene #90: 'PLEKHB2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 156 121 59
PLEKHB2 MUTATED 1 3 1
PLEKHB2 WILD-TYPE 155 118 58
'PLEKHB2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.142 (Fisher's exact test), Q value = 0.63

Table S895.  Gene #90: 'PLEKHB2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 127 109 86 105 51
PLEKHB2 MUTATED 4 0 0 2 0
PLEKHB2 WILD-TYPE 123 109 86 103 51
'PLEKHB2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.356 (Fisher's exact test), Q value = 0.84

Table S896.  Gene #90: 'PLEKHB2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 72 109 90 44 49 46 68
PLEKHB2 MUTATED 0 3 3 0 0 0 0
PLEKHB2 WILD-TYPE 72 106 87 44 49 46 68
'PLEKHB2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.662 (Fisher's exact test), Q value = 1

Table S897.  Gene #90: 'PLEKHB2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 172 205 99
PLEKHB2 MUTATED 1 4 1
PLEKHB2 WILD-TYPE 171 201 98
'PLEKHB2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.235 (Fisher's exact test), Q value = 0.75

Table S898.  Gene #90: 'PLEKHB2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 70 37 135 120 86 28
PLEKHB2 MUTATED 0 0 3 0 3 0
PLEKHB2 WILD-TYPE 70 37 132 120 83 28
'PLEKHB2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.412 (Fisher's exact test), Q value = 0.88

Table S899.  Gene #90: 'PLEKHB2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 55 85 97 42 60 73
PLEKHB2 MUTATED 0 1 3 0 2 0
PLEKHB2 WILD-TYPE 55 84 94 42 58 73
'PLEKHB2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.49 (Fisher's exact test), Q value = 0.96

Table S900.  Gene #90: 'PLEKHB2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 96 222 94
PLEKHB2 MUTATED 0 4 2
PLEKHB2 WILD-TYPE 96 218 92
Methods & Data
Input
  • Mutation data file = sample_sig_gene_table.txt from Mutsig_2CV pipeline

  • Processed Mutation data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/LUAD-TP/22815335/transformed.cor.cli.txt

  • Molecular subtypes file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/LUAD-TP/22552673/LUAD-TP.transferedmergedcluster.txt

  • Number of patients = 481

  • Number of significantly mutated genes = 90

  • Number of Molecular subtypes = 12

  • Exclude genes that fewer than K tumors have mutations, K = 3

Fisher's exact test

For binary or multi-class clinical features (nominal or ordinal), two-tailed Fisher's exact tests (Fisher 1922) were used to estimate the P values using the 'fisher.test' function in R

Q value calculation

For multiple hypothesis correction, Q value is the False Discovery Rate (FDR) analogue of the P value (Benjamini and Hochberg 1995), defined as the minimum FDR at which the test may be called significant. We used the 'Benjamini and Hochberg' method of 'p.adjust' function in R to convert P values into Q values.

Download Results

In addition to the links below, the full results of the analysis summarized in this report can also be downloaded programmatically using firehose_get, or interactively from either the Broad GDAC website or TCGA Data Coordination Center Portal.

References
[1] Fisher, R.A., On the interpretation of chi-square from contingency tables, and the calculation of P, Journal of the Royal Statistical Society 85(1):87-94 (1922)
[2] Benjamini and Hochberg, Controlling the false discovery rate: a practical and powerful approach to multiple testing, Journal of the Royal Statistical Society Series B 59:289-300 (1995)