Correlation between gene mutation status and molecular subtypes
Brain Lower Grade Glioma (Primary solid tumor)
21 August 2015  |  analyses__2015_08_21
Maintainer Information
Citation Information
doi:10.7908/C1M907XR
Maintained by TCGA GDAC Team (Broad Institute/MD Anderson Cancer Center/Harvard Medical School)
Cite as Broad Institute TCGA Genome Data Analysis Center (2015): Correlation between gene mutation status and molecular subtypes. Broad Institute of MIT and Harvard. doi:10.7908/C1M907XR
Overview
Introduction

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

Summary

Testing the association between mutation status of 84 genes and 12 molecular subtypes across 513 patients, 157 significant findings detected with P value < 0.05 and Q value < 0.25.

  • IDH1 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'.

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

  • ATRX mutation correlated to 'MRNA_CNMF',  'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • CIC mutation correlated to 'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • NOTCH1 mutation correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • IDH2 mutation correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.

  • PIK3R1 mutation correlated to 'CN_CNMF',  'METHLYATION_CNMF', and 'MRNASEQ_CHIERARCHICAL'.

  • FUBP1 mutation correlated to 'MRNA_CNMF',  'MRNA_CHIERARCHICAL',  'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • NF1 mutation correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'RPPA_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • ARID1A mutation correlated to 'MRNASEQ_CNMF' and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • PTEN 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'.

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

  • NUDT11 mutation correlated to 'MIRSEQ_CNMF'.

  • PIK3CA mutation correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • SMARCA4 mutation correlated to 'CN_CNMF'.

  • NIPBL mutation correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CNMF'.

  • CREBZF mutation correlated to 'METHLYATION_CNMF',  'RPPA_CHIERARCHICAL',  'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CHIERARCHICAL'.

  • FAM47C mutation correlated to 'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • MYST4 mutation correlated to 'CN_CNMF'.

  • HTRA2 mutation correlated to 'CN_CNMF'.

  • RB1 mutation correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • PDGFRA mutation correlated to 'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CNMF', and 'MIRSEQ_CHIERARCHICAL'.

  • ZMIZ1 mutation correlated to 'MIRSEQ_MATURE_CNMF'.

  • RBPJ mutation correlated to 'MRNASEQ_CHIERARCHICAL' and 'MIRSEQ_CHIERARCHICAL'.

  • CUL4B mutation correlated to 'MIRSEQ_CHIERARCHICAL'.

  • SLC6A3 mutation correlated to 'RPPA_CHIERARCHICAL'.

  • SETD2 mutation correlated to 'MRNASEQ_CNMF'.

  • MYT1 mutation correlated to 'CN_CNMF' and 'MRNASEQ_CHIERARCHICAL'.

  • ZBTB20 mutation correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • PTPN11 mutation correlated to 'METHLYATION_CNMF',  'MIRSEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • ANKRD36 mutation correlated to 'CN_CNMF'.

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

  • RBBP6 mutation correlated to 'MRNASEQ_CNMF' and 'MRNASEQ_CHIERARCHICAL'.

  • DDX5 mutation correlated to 'MIRSEQ_MATURE_CNMF'.

  • AGBL1 mutation correlated to 'MRNASEQ_CNMF',  'MIRSEQ_CHIERARCHICAL', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • WRN mutation correlated to 'MRNASEQ_CNMF' and 'MRNASEQ_CHIERARCHICAL'.

  • MAST2 mutation correlated to 'MIRSEQ_CNMF'.

  • KTELC1 mutation correlated to 'MIRSEQ_CHIERARCHICAL'.

  • CCDC135 mutation correlated to 'MRNASEQ_CHIERARCHICAL'.

Results
Overview of the results

Table 1.  Get Full Table Overview of the association between mutation status of 84 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, 157 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
IDH1 398 (78%) 115 0.224
(0.732) 		0.883
(1.00) 		1e-05
(0.00019) 		1e-05
(0.00019) 		0.00178
(0.0211) 		0.00061
(0.00842) 		1e-05
(0.00019) 		1e-05
(0.00019) 		2e-05
(0.000354) 		1e-05
(0.00019) 		1e-05
(0.00019) 		1e-05
(0.00019)
TP53 248 (48%) 265 0.096
(0.461) 		0.00628
(0.0615) 		1e-05
(0.00019) 		1e-05
(0.00019) 		0.00359
(0.0382) 		0.00338
(0.037) 		1e-05
(0.00019) 		1e-05
(0.00019) 		1e-05
(0.00019) 		2e-05
(0.000354) 		0.0531
(0.307) 		1e-05
(0.00019)
FUBP1 47 (9%) 466 0.0236
(0.177) 		0.00699
(0.0658) 		1e-05
(0.00019) 		1e-05
(0.00019) 		0.624
(1.00) 		0.682
(1.00) 		1e-05
(0.00019) 		1e-05
(0.00019) 		1e-05
(0.00019) 		0.00112
(0.0141) 		0.00829
(0.0753) 		1e-05
(0.00019)
PTEN 24 (5%) 489 1e-05
(0.00019) 		1e-05
(0.00019) 		0.0129
(0.107) 		0.00211
(0.0244) 		1e-05
(0.00019) 		1e-05
(0.00019) 		0.00354
(0.0382) 		1e-05
(0.00019) 		2e-05
(0.000354) 		1e-05
(0.00019)
ATRX 195 (38%) 318 0.0264
(0.193) 		0.118
(0.516) 		1e-05
(0.00019) 		1e-05
(0.00019) 		0.0903
(0.444) 		0.0386
(0.248) 		1e-05
(0.00019) 		1e-05
(0.00019) 		1e-05
(0.00019) 		3e-05
(0.000513) 		0.262
(0.791) 		1e-05
(0.00019)
CIC 108 (21%) 405 0.0503
(0.301) 		0.00313
(0.0351) 		1e-05
(0.00019) 		1e-05
(0.00019) 		0.0486
(0.293) 		0.375
(0.905) 		1e-05
(0.00019) 		1e-05
(0.00019) 		1e-05
(0.00019) 		1e-05
(0.00019) 		1e-05
(0.00019) 		1e-05
(0.00019)
NOTCH1 42 (8%) 471 0.615
(1.00) 		0.28
(0.806) 		0.0002
(0.00305) 		1e-05
(0.00019) 		0.608
(1.00) 		0.621
(1.00) 		1e-05
(0.00019) 		1e-05
(0.00019) 		0.0002
(0.00305) 		0.00479
(0.0491) 		0.00157
(0.0188) 		0.00013
(0.00208)
NF1 33 (6%) 480 0.00115
(0.0143) 		1e-05
(0.00019) 		0.0365
(0.24) 		0.185
(0.671) 		1e-05
(0.00019) 		1e-05
(0.00019) 		0.338
(0.843) 		0.00018
(0.00283) 		0.0053
(0.0529) 		1e-05
(0.00019)
EGFR 35 (7%) 478 1e-05
(0.00019) 		1e-05
(0.00019) 		0.304
(0.83) 		0.0557
(0.316) 		1e-05
(0.00019) 		1e-05
(0.00019) 		0.0105
(0.0917) 		1e-05
(0.00019) 		1e-05
(0.00019) 		1e-05
(0.00019)
IDH2 20 (4%) 493 0.00132
(0.0162) 		0.00036
(0.00526) 		0.246
(0.764) 		0.0891
(0.44) 		0.00784
(0.0718) 		0.00023
(0.00341) 		0.00965
(0.0859) 		0.00059
(0.00826) 		0.00297
(0.0336) 		0.0465
(0.284)
PIK3CA 44 (9%) 469 7e-05
(0.00116) 		2e-05
(0.000354) 		0.329
(0.832) 		0.566
(1.00) 		0.00111
(0.0141) 		3e-05
(0.000513) 		0.0103
(0.0903) 		0.0386
(0.248) 		0.329
(0.832) 		0.00091
(0.0119)
ZBTB20 21 (4%) 492 0.0126
(0.106) 		0.00062
(0.00845) 		0.837
(1.00) 		0.295
(0.83) 		0.0132
(0.109) 		0.0038
(0.0395) 		0.159
(0.631) 		0.0194
(0.149) 		0.0406
(0.257) 		0.0329
(0.22)
NIPBL 18 (4%) 495 0.0374
(0.243) 		0.00077
(0.0102) 		0.388
(0.914) 		0.229
(0.737) 		0.00373
(0.0392) 		0.00482
(0.0491) 		0.45
(0.964) 		0.172
(0.651) 		0.0108
(0.0927) 		0.0591
(0.331)
CREBZF 7 (1%) 506 0.0525
(0.307) 		0.00758
(0.0701) 		0.225
(0.732) 		0.0353
(0.234) 		0.281
(0.806) 		0.0226
(0.171) 		0.202
(0.713) 		0.0137
(0.112) 		0.116
(0.514) 		0.0535
(0.307)
RB1 6 (1%) 507 0.00022
(0.00331) 		0.00077
(0.0102) 		0.872
(1.00) 		0.846
(1.00) 		0.0166
(0.132) 		0.0968
(0.463) 		0.601
(1.00) 		0.0327
(0.22) 		0.781
(1.00) 		0.246
(0.764)
PDGFRA 10 (2%) 503 0.32
(0.832) 		0.063
(0.345) 		0.127
(0.54) 		0.227
(0.732) 		0.00654
(0.0622) 		0.00011
(0.00179) 		0.00056
(0.00795) 		0.00155
(0.0188) 		0.854
(1.00) 		0.184
(0.671)
PTPN11 7 (1%) 506 0.549
(1.00) 		0.0187
(0.147) 		0.5
(0.997) 		0.847
(1.00) 		0.0534
(0.307) 		0.226
(0.732) 		0.22
(0.73) 		0.00516
(0.052) 		0.0166
(0.132) 		0.00244
(0.0279)
PIK3R1 22 (4%) 491 0.614
(1.00) 		0.58
(1.00) 		0.0195
(0.149) 		0.00193
(0.0226) 		0.947
(1.00) 		0.831
(1.00) 		0.127
(0.54) 		0.0368
(0.241) 		0.0862
(0.428) 		0.587
(1.00) 		0.961
(1.00) 		0.629
(1.00)
FAM47C 18 (4%) 495 0.307
(0.83) 		0.818
(1.00) 		0.463
(0.965) 		0.252
(0.768) 		0.278
(0.804) 		0.0119
(0.101) 		0.618
(1.00) 		0.0926
(0.449) 		0.00851
(0.0766) 		0.00332
(0.0368)
AGBL1 5 (1%) 508 0.163
(0.641) 		0.117
(0.514) 		0.162
(0.641) 		0.0505
(0.301) 		0.0312
(0.215) 		0.0436
(0.273) 		0.208
(0.714) 		0.00646
(0.062) 		0.136
(0.574) 		0.0036
(0.0382)
ARID1A 20 (4%) 493 0.693
(1.00) 		0.08
(0.407) 		0.255
(0.772) 		0.635
(1.00) 		0.0324
(0.22) 		0.14
(0.584) 		0.315
(0.832) 		0.608
(1.00) 		0.0844
(0.423) 		0.0288
(0.203)
RBPJ 7 (1%) 506 1
(1.00) 		0.181
(0.667) 		0.108
(0.498) 		0.0514
(0.303) 		0.435
(0.96) 		7e-05
(0.00116) 		0.33
(0.832) 		0.0282
(0.201) 		0.114
(0.51) 		0.446
(0.964)
MYT1 6 (1%) 507 0.0152
(0.123) 		0.208
(0.714) 		0.448
(0.964) 		0.0324
(0.22) 		0.43
(0.954) 		0.757
(1.00) 		0.454
(0.964) 		0.941
(1.00)
PRX 10 (2%) 503 0.114
(0.51) 		0.033
(0.22) 		0.836
(1.00) 		0.837
(1.00) 		0.389
(0.914) 		0.06
(0.334) 		0.536
(1.00) 		0.00104
(0.0134) 		0.185
(0.672) 		0.0742
(0.387)
RBBP6 6 (1%) 507 0.583
(1.00) 		0.321
(0.832) 		1
(1.00) 		0.0974
(0.463) 		0.0275
(0.198) 		0.00614
(0.0607) 		0.281
(0.806) 		0.0656
(0.354) 		0.0852
(0.425) 		0.179
(0.664)
WRN 5 (1%) 508 0.208
(0.714) 		0.0763
(0.393) 		0.907
(1.00) 		0.537
(1.00) 		0.0296
(0.207) 		0.016
(0.129) 		0.057
(0.321) 		1
(1.00) 		0.0434
(0.273) 		0.452
(0.964)
NUDT11 11 (2%) 502 1
(1.00) 		0.848
(1.00) 		0.456
(0.964) 		0.854
(1.00) 		0.203
(0.714) 		0.156
(0.628) 		0.0255
(0.189) 		0.919
(1.00) 		0.17
(0.65) 		0.296
(0.83)
SMARCA4 26 (5%) 487 0.0114
(0.0974) 		0.103
(0.484) 		0.187
(0.674) 		0.956
(1.00) 		0.327
(0.832) 		0.452
(0.964) 		0.305
(0.83) 		0.245
(0.764) 		0.873
(1.00) 		0.164
(0.644)
MYST4 11 (2%) 502 0.0244
(0.182) 		0.125
(0.538) 		0.128
(0.54) 		0.703
(1.00) 		0.268
(0.796) 		0.343
(0.853) 		0.201
(0.71) 		1
(1.00) 		0.0624
(0.344) 		0.611
(1.00)
HTRA2 5 (1%) 508 0.0298
(0.207) 		0.42
(0.946) 		1
(1.00) 		1
(1.00) 		0.953
(1.00) 		0.639
(1.00) 		0.348
(0.861) 		0.724
(1.00) 		0.559
(1.00) 		0.473
(0.973)
ZMIZ1 9 (2%) 504 0.0513
(0.303) 		0.329
(0.832) 		0.181
(0.667) 		0.242
(0.763) 		0.53
(1.00) 		0.298
(0.83) 		0.478
(0.973) 		0.678
(1.00) 		0.0188
(0.147) 		0.421
(0.946)
CUL4B 10 (2%) 503 0.296
(0.83) 		0.0464
(0.284) 		0.277
(0.804) 		0.368
(0.894) 		0.0915
(0.446) 		0.0708
(0.375) 		0.19
(0.684) 		0.00715
(0.0667) 		1
(1.00) 		0.379
(0.906)
SLC6A3 9 (2%) 504 0.7
(1.00) 		0.877
(1.00) 		0.323
(0.832) 		0.00972
(0.0859) 		0.74
(1.00) 		0.487
(0.977) 		0.173
(0.651) 		0.506
(1.00) 		0.706
(1.00) 		0.537
(1.00)
SETD2 10 (2%) 503 0.0394
(0.252) 		0.064
(0.349) 		1
(1.00) 		0.898
(1.00) 		0.00051
(0.00734) 		0.0531
(0.307) 		0.605
(1.00) 		0.0948
(0.457) 		0.853
(1.00) 		0.377
(0.905)
ANKRD36 7 (1%) 506 0.0261
(0.192) 		0.112
(0.507) 		0.441
(0.964) 		0.171
(0.651) 		0.601
(1.00) 		0.449
(0.964) 		0.739
(1.00) 		1
(1.00) 		0.895
(1.00) 		0.948
(1.00)
DDX5 5 (1%) 508 1
(1.00) 		1
(1.00) 		1
(1.00) 		0.613
(1.00) 		0.615
(1.00) 		0.485
(0.977) 		0.264
(0.791) 		0.439
(0.963) 		0.0283
(0.201) 		0.317
(0.832)
MAST2 5 (1%) 508 0.728
(1.00) 		0.463
(0.965) 		0.686
(1.00) 		0.282
(0.807) 		0.723
(1.00) 		0.215
(0.725) 		0.0191
(0.148) 		0.529
(1.00) 		0.87
(1.00) 		0.717
(1.00)
KTELC1 5 (1%) 508 1
(1.00) 		0.668
(1.00) 		0.312
(0.832) 		0.537
(1.00) 		0.953
(1.00) 		0.788
(1.00) 		0.116
(0.514) 		0.00637
(0.0617) 		1
(1.00) 		0.109
(0.498)
CCDC135 7 (1%) 506 0.701
(1.00) 		1
(1.00) 		0.397
(0.916) 		0.426
(0.95) 		0.487
(0.977) 		0.0272
(0.197) 		0.658
(1.00) 		1
(1.00) 		0.802
(1.00) 		0.733
(1.00)
GAGE2A 8 (2%) 505 0.815
(1.00) 		1
(1.00) 		0.962
(1.00) 		1
(1.00) 		0.724
(1.00) 		0.621
(1.00) 		0.655
(1.00) 		0.901
(1.00) 		0.821
(1.00) 		0.923
(1.00)
STK19 10 (2%) 503 0.422
(0.947) 		0.111
(0.505) 		0.396
(0.914) 		0.69
(1.00) 		0.299
(0.83) 		0.719
(1.00) 		0.169
(0.65) 		0.545
(1.00) 		0.922
(1.00) 		0.843
(1.00)
EMG1 6 (1%) 507 1
(1.00) 		0.856
(1.00) 		0.641
(1.00) 		0.424
(0.948) 		0.408
(0.934) 		0.285
(0.811) 		0.409
(0.935) 		0.431
(0.954) 		0.53
(1.00) 		0.723
(1.00)
TCF12 15 (3%) 498 0.671
(1.00) 		0.579
(1.00) 		0.761
(1.00) 		0.508
(1.00) 		0.817
(1.00) 		0.477
(0.973) 		0.698
(1.00) 		0.517
(1.00) 		1
(1.00) 		0.516
(1.00)
DNMT3A 10 (2%) 503 0.662
(1.00) 		0.646
(1.00) 		0.524
(1.00) 		0.476
(0.973) 		0.631
(1.00) 		0.942
(1.00) 		0.48
(0.976) 		0.0442
(0.273) 		0.922
(1.00) 		0.972
(1.00)
TRERF1 6 (1%) 507 0.243
(0.764) 		0.123
(0.531) 		0.56
(1.00) 		0.351
(0.866) 		0.392
(0.914) 		0.575
(1.00) 		0.39
(0.914) 		0.757
(1.00) 		0.101
(0.476) 		0.354
(0.867)
MED9 3 (1%) 510 0.175
(0.653) 		0.368
(0.894) 		0.336
(0.84) 		0.229
(0.737) 		0.218
(0.728) 		0.85
(1.00) 		0.877
(1.00) 		0.794
(1.00) 		0.65
(1.00) 		0.511
(1.00)
IRS4 7 (1%) 506 0.0824
(0.417) 		0.377
(0.905) 		0.672
(1.00) 		0.579
(1.00) 		0.603
(1.00) 		0.137
(0.575) 		0.415
(0.941) 		0.692
(1.00) 		0.269
(0.796) 		1
(1.00)
NRAS 4 (1%) 509 0.565
(1.00) 		0.508
(1.00) 		1
(1.00) 		0.325
(0.832) 		0.418
(0.945) 		0.107
(0.496) 		0.305
(0.83) 		0.683
(1.00) 		0.334
(0.839) 		0.759
(1.00)
TNRC18 9 (2%) 504 0.908
(1.00) 		0.232
(0.741) 		0.444
(0.964) 		0.542
(1.00) 		0.191
(0.684) 		0.577
(1.00) 		0.68
(1.00) 		0.373
(0.903) 		0.822
(1.00) 		0.578
(1.00)
ZNF709 4 (1%) 509 0.69
(1.00) 		1
(1.00) 		1
(1.00) 		0.678
(1.00) 		0.219
(0.728) 		0.23
(0.737) 		1
(1.00) 		0.682
(1.00) 		0.272
(0.796) 		1
(1.00)
PLXNA3 9 (2%) 504 0.211
(0.716) 		0.272
(0.796) 		0.158
(0.629) 		0.217
(0.728) 		0.199
(0.705) 		0.31
(0.832) 		0.353
(0.867) 		0.227
(0.732) 		0.482
(0.977) 		0.877
(1.00)
ROBO3 5 (1%) 508 0.622
(1.00) 		0.904
(1.00) 		0.847
(1.00) 		0.538
(1.00) 		0.828
(1.00) 		0.706
(1.00) 		0.403
(0.929) 		0.287
(0.815) 		1
(1.00) 		0.926
(1.00)
SRPX 4 (1%) 509 0.224
(0.732) 		0.105
(0.49) 		0.675
(1.00) 		0.251
(0.768) 		0.206
(0.714) 		0.144
(0.596) 		0.276
(0.803) 		0.198
(0.705) 		0.395
(0.914) 		0.0625
(0.344)
ZNF512B 5 (1%) 508 0.453
(0.964) 		0.817
(1.00) 		0.932
(1.00) 		0.429
(0.954) 		1
(1.00) 		0.851
(1.00) 		1
(1.00) 		1
(1.00) 		0.456
(0.964) 		0.248
(0.766)
TMEM216 3 (1%) 510 0.251
(0.768) 		1
(1.00) 		0.708
(1.00) 		0.597
(1.00) 		1
(1.00) 		0.443
(0.964) 		0.52
(1.00) 		0.604
(1.00) 		0.3
(0.83) 		0.667
(1.00)
ARID2 11 (2%) 502 0.859
(1.00) 		0.264
(0.791) 		0.783
(1.00) 		0.644
(1.00) 		0.463
(0.965) 		0.651
(1.00) 		0.603
(1.00) 		0.348
(0.861) 		0.484
(0.977) 		0.458
(0.964)
KRT3 4 (1%) 509 0.82
(1.00) 		0.88
(1.00) 		0.792
(1.00) 		0.307
(0.83) 		0.642
(1.00) 		0.738
(1.00) 		0.274
(0.8) 		0.196
(0.702) 		0.395
(0.914) 		0.211
(0.716)
SMOC1 3 (1%) 510 1
(1.00) 		1
(1.00) 		1
(1.00) 		0.818
(1.00) 		0.598
(1.00) 		1
(1.00) 		0.652
(1.00) 		0.183
(0.671)
PPL 6 (1%) 507 0.77
(1.00) 		1
(1.00) 		0.211
(0.716) 		0.576
(1.00) 		0.843
(1.00) 		0.249
(0.767) 		0.146
(0.602) 		0.758
(1.00) 		0.329
(0.832) 		0.726
(1.00)
RET 7 (1%) 506 0.551
(1.00) 		0.319
(0.832) 		0.623
(1.00) 		0.836
(1.00) 		0.373
(0.903) 		0.446
(0.964) 		0.707
(1.00) 		0.152
(0.615) 		0.15
(0.612) 		0.254
(0.771)
NEU2 5 (1%) 508 0.529
(1.00) 		0.816
(1.00) 		0.87
(1.00) 		1
(1.00) 		0.0781
(0.4) 		0.869
(1.00) 		0.303
(0.83) 		1
(1.00) 		0.459
(0.964) 		0.713
(1.00)
CIB1 4 (1%) 509 0.822
(1.00) 		1
(1.00) 		0.623
(1.00) 		0.539
(1.00) 		0.608
(1.00) 		0.173
(0.651) 		0.219
(0.728) 		0.0439
(0.273) 		0.12
(0.525) 		0.32
(0.832)
NAP1L2 4 (1%) 509 0.689
(1.00) 		1
(1.00) 		0.894
(1.00) 		0.048
(0.291) 		0.381
(0.908) 		0.0684
(0.365) 		1
(1.00) 		0.83
(1.00) 		1
(1.00) 		1
(1.00)
SCN4A 6 (1%) 507 0.113
(0.508) 		0.347
(0.861) 		0.567
(1.00) 		0.867
(1.00) 		0.487
(0.977) 		0.111
(0.504) 		0.571
(1.00) 		0.866
(1.00) 		0.068
(0.365) 		0.415
(0.941)
TPX2 5 (1%) 508 1
(1.00) 		0.819
(1.00) 		1
(1.00) 		1
(1.00) 		0.829
(1.00) 		0.388
(0.914) 		0.488
(0.977) 		0.0744
(0.387) 		0.166
(0.648) 		0.32
(0.832)
KRT15 6 (1%) 507 0.33
(0.832) 		1
(1.00) 		1
(1.00) 		0.787
(1.00) 		0.489
(0.978) 		0.466
(0.966) 		0.518
(1.00) 		0.868
(1.00) 		1
(1.00) 		1
(1.00)
HTR3A 7 (1%) 506 0.62
(1.00) 		0.152
(0.615) 		0.846
(1.00) 		1
(1.00) 		0.661
(1.00) 		0.383
(0.908) 		0.169
(0.65) 		0.245
(0.764) 		0.572
(1.00) 		0.872
(1.00)
C14ORF4 3 (1%) 510 0.467
(0.966) 		0.677
(1.00) 		1
(1.00) 		0.85
(1.00) 		1
(1.00) 		0.793
(1.00) 		0.649
(1.00) 		0.44
(0.963)
R3HDM1 7 (1%) 506 1
(1.00) 		0.826
(1.00) 		0.27
(0.796) 		0.73
(1.00) 		0.856
(1.00) 		0.625
(1.00) 		0.738
(1.00) 		0.784
(1.00) 		0.0745
(0.387) 		0.948
(1.00)
G6PC 6 (1%) 507 0.329
(0.832) 		0.146
(0.602) 		0.9
(1.00) 		1
(1.00) 		0.608
(1.00) 		0.0832
(0.419) 		0.432
(0.956) 		0.149
(0.609) 		0.297
(0.83) 		0.765
(1.00)
DLC1 6 (1%) 507 0.0723
(0.381) 		0.236
(0.745) 		0.671
(1.00) 		0.837
(1.00) 		0.448
(0.964) 		0.527
(1.00) 		0.889
(1.00) 		0.15
(0.612) 		0.783
(1.00) 		0.139
(0.583)
SLC12A7 7 (1%) 506 0.167
(0.65) 		0.405
(0.93) 		0.383
(0.908) 		0.321
(0.832) 		0.922
(1.00) 		0.863
(1.00) 		0.871
(1.00) 		0.786
(1.00) 		0.896
(1.00) 		1
(1.00)
SMARCB1 4 (1%) 509 0.822
(1.00) 		0.88
(1.00) 		0.0645
(0.349) 		0.31
(0.832) 		0.925
(1.00) 		0.592
(1.00) 		0.439
(0.963) 		0.681
(1.00) 		0.076
(0.393) 		0.395
(0.914)
LAMA4 4 (1%) 509 0.452
(0.964) 		0.304
(0.83) 		1
(1.00) 		0.324
(0.832) 		0.104
(0.488) 		0.519
(1.00) 		0.7
(1.00) 		1
(1.00) 		0.476
(0.973) 		0.839
(1.00)
ZMYM2 7 (1%) 506 0.621
(1.00) 		0.665
(1.00) 		0.587
(1.00) 		0.282
(0.806) 		0.626
(1.00) 		0.321
(0.832) 		0.123
(0.531) 		0.208
(0.714) 		0.271
(0.796) 		0.365
(0.892)
SLFN11 4 (1%) 509 0.824
(1.00) 		0.88
(1.00) 		1
(1.00) 		0.415
(0.941) 		0.311
(0.832) 		0.713
(1.00) 		0.591
(1.00) 		0.265
(0.791) 		0.475
(0.973) 		0.759
(1.00)
C4BPA 6 (1%) 507 0.329
(0.832) 		0.297
(0.83) 		0.313
(0.832) 		0.536
(1.00) 		0.901
(1.00) 		0.382
(0.908) 		0.73
(1.00) 		0.505
(1.00) 		1
(1.00) 		1
(1.00)
TMEM184A 3 (1%) 510 0.468
(0.966) 		0.3
(0.83) 		0.893
(1.00) 		1
(1.00) 		0.584
(1.00) 		0.174
(0.651) 		0.878
(1.00) 		0.234
(0.742) 		0.414
(0.941) 		0.51
(1.00)
ASXL2 3 (1%) 510 0.465
(0.966) 		0.301
(0.83) 		0.629
(1.00) 		0.597
(1.00) 		0.829
(1.00) 		0.317
(0.832) 		0.524
(1.00) 		0.795
(1.00) 		0.206
(0.714) 		1
(1.00)
SLC25A5 4 (1%) 509 0.456
(0.964) 		0.226
(0.732) 		0.926
(1.00) 		0.423
(0.948) 		0.832
(1.00) 		0.681
(1.00) 		0.474
(0.973) 		0.52
(1.00)
ABCA7 9 (2%) 504 0.702
(1.00) 		0.388
(0.914) 		0.225
(0.732) 		0.171
(0.651) 		0.265
(0.791) 		0.213
(0.719) 		1
(1.00) 		0.0553
(0.315) 		0.0989
(0.468) 		0.252
(0.768)
NKD2 4 (1%) 509 1
(1.00) 		0.878
(1.00) 		0.642
(1.00) 		0.463
(0.965) 		0.368
(0.894) 		1
(1.00) 		1
(1.00) 		0.839
(1.00)
MAX 4 (1%) 509 0.123
(0.531) 		0.0907
(0.444) 		0.233
(0.742) 		0.537
(1.00) 		0.184
(0.671) 		0.157
(0.629) 		0.306
(0.83) 		0.83
(1.00) 		0.335
(0.839) 		0.761
(1.00)
VSIG4 6 (1%) 507 0.207
(0.714) 		0.169
(0.65) 		0.459
(0.964) 		0.749
(1.00) 		0.769
(1.00) 		0.501
(0.997) 		0.764
(1.00) 		0.583
(1.00) 		0.694
(1.00) 		0.392
(0.914)
'IDH1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.224 (Fisher's exact test), Q value = 0.73

Table S1.  Gene #1: 'IDH1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 9 10 8
IDH1 MUTATED 9 7 7
IDH1 WILD-TYPE 0 3 1
'IDH1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.883 (Fisher's exact test), Q value = 1

Table S2.  Gene #1: 'IDH1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 7 7 7 6
IDH1 MUTATED 6 6 5 6
IDH1 WILD-TYPE 1 1 2 0
'IDH1 MUTATION STATUS' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S3.  Gene #1: 'IDH1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
IDH1 MUTATED 158 45 193
IDH1 WILD-TYPE 11 75 28

Figure S1.  Get High-res Image Gene #1: 'IDH1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'IDH1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S4.  Gene #1: 'IDH1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
IDH1 MUTATED 218 6 155 19
IDH1 WILD-TYPE 4 75 13 23

Figure S2.  Get High-res Image Gene #1: 'IDH1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'IDH1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.00178 (Fisher's exact test), Q value = 0.021

Table S5.  Gene #1: 'IDH1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
IDH1 MUTATED 75 63 109 87
IDH1 WILD-TYPE 16 32 16 28

Figure S3.  Get High-res Image Gene #1: 'IDH1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

'IDH1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.00061 (Fisher's exact test), Q value = 0.0084

Table S6.  Gene #1: 'IDH1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
IDH1 MUTATED 75 127 132
IDH1 WILD-TYPE 7 32 53

Figure S4.  Get High-res Image Gene #1: 'IDH1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'IDH1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S7.  Gene #1: 'IDH1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
IDH1 MUTATED 130 34 101 109 24
IDH1 WILD-TYPE 2 75 8 24 6

Figure S5.  Get High-res Image Gene #1: 'IDH1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'IDH1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S8.  Gene #1: 'IDH1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
IDH1 MUTATED 132 2 32 50 84 37 61
IDH1 WILD-TYPE 2 69 4 16 7 4 13

Figure S6.  Get High-res Image Gene #1: 'IDH1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'IDH1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.00035

Table S9.  Gene #1: 'IDH1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
IDH1 MUTATED 97 73 146 78
IDH1 WILD-TYPE 39 34 37 5

Figure S7.  Get High-res Image Gene #1: 'IDH1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'IDH1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S10.  Gene #1: 'IDH1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
IDH1 MUTATED 207 152 35
IDH1 WILD-TYPE 15 32 68

Figure S8.  Get High-res Image Gene #1: 'IDH1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'IDH1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S11.  Gene #1: 'IDH1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
IDH1 MUTATED 114 153 124
IDH1 WILD-TYPE 70 9 35

Figure S9.  Get High-res Image Gene #1: 'IDH1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'IDH1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S12.  Gene #1: 'IDH1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
IDH1 MUTATED 84 129 161 17
IDH1 WILD-TYPE 6 9 27 72

Figure S10.  Get High-res Image Gene #1: 'IDH1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'TP53 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.096 (Fisher's exact test), Q value = 0.46

Table S13.  Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 9 10 8
TP53 MUTATED 8 4 4
TP53 WILD-TYPE 1 6 4
'TP53 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.00628 (Fisher's exact test), Q value = 0.061

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 7 7 7 6
TP53 MUTATED 5 7 1 3
TP53 WILD-TYPE 2 0 6 3

Figure S11.  Get High-res Image Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'TP53 MUTATION STATUS' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S15.  Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
TP53 MUTATED 156 47 45
TP53 WILD-TYPE 13 73 176

Figure S12.  Get High-res Image Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'TP53 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S16.  Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
TP53 MUTATED 213 15 7 13
TP53 WILD-TYPE 9 66 161 29

Figure S13.  Get High-res Image Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'TP53 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.00359 (Fisher's exact test), Q value = 0.038

Table S17.  Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
TP53 MUTATED 49 45 68 38
TP53 WILD-TYPE 42 50 57 77

Figure S14.  Get High-res Image Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

'TP53 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.00338 (Fisher's exact test), Q value = 0.037

Table S18.  Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
TP53 MUTATED 48 59 93
TP53 WILD-TYPE 34 100 92

Figure S15.  Get High-res Image Gene #2: '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 = 0.00019

Table S19.  Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
TP53 MUTATED 129 40 7 58 14
TP53 WILD-TYPE 3 69 102 75 16

Figure S16.  Get High-res Image Gene #2: '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 = 0.00019

Table S20.  Gene #2: '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 134 71 36 66 91 41 74
TP53 MUTATED 129 8 1 48 4 38 20
TP53 WILD-TYPE 5 63 35 18 87 3 54

Figure S17.  Get High-res Image Gene #2: '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 = 0.00019

Table S21.  Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
TP53 MUTATED 82 70 74 18
TP53 WILD-TYPE 54 37 109 65

Figure S18.  Get High-res Image Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'TP53 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 0.00035

Table S22.  Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
TP53 MUTATED 133 71 40
TP53 WILD-TYPE 89 113 63

Figure S19.  Get High-res Image Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'TP53 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0531 (Fisher's exact test), Q value = 0.31

Table S23.  Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
TP53 MUTATED 98 79 64
TP53 WILD-TYPE 86 83 95
'TP53 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S24.  Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
TP53 MUTATED 79 56 85 21
TP53 WILD-TYPE 11 82 103 68

Figure S20.  Get High-res Image Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'ATRX MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.0264 (Fisher's exact test), Q value = 0.19

Table S25.  Gene #3: 'ATRX MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 9 10 8
ATRX MUTATED 8 3 3
ATRX WILD-TYPE 1 7 5

Figure S21.  Get High-res Image Gene #3: 'ATRX MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

'ATRX MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.118 (Fisher's exact test), Q value = 0.52

Table S26.  Gene #3: 'ATRX MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 7 7 7 6
ATRX MUTATED 5 5 1 3
ATRX WILD-TYPE 2 2 6 3
'ATRX MUTATION STATUS' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S27.  Gene #3: 'ATRX MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
ATRX MUTATED 129 34 32
ATRX WILD-TYPE 40 86 189

Figure S22.  Get High-res Image Gene #3: 'ATRX MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'ATRX MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S28.  Gene #3: 'ATRX MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
ATRX MUTATED 171 8 3 13
ATRX WILD-TYPE 51 73 165 29

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

'ATRX MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0903 (Fisher's exact test), Q value = 0.44

Table S29.  Gene #3: 'ATRX MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
ATRX MUTATED 43 34 53 36
ATRX WILD-TYPE 48 61 72 79
'ATRX MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0386 (Fisher's exact test), Q value = 0.25

Table S30.  Gene #3: 'ATRX MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
ATRX MUTATED 42 55 69
ATRX WILD-TYPE 40 104 116

Figure S24.  Get High-res Image Gene #3: 'ATRX MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'ATRX MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S31.  Gene #3: 'ATRX MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
ATRX MUTATED 107 27 2 48 11
ATRX WILD-TYPE 25 82 107 85 19

Figure S25.  Get High-res Image Gene #3: 'ATRX MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'ATRX MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S32.  Gene #3: 'ATRX MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
ATRX MUTATED 108 4 1 38 1 26 17
ATRX WILD-TYPE 26 67 35 28 90 15 57

Figure S26.  Get High-res Image Gene #3: 'ATRX MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'ATRX MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S33.  Gene #3: 'ATRX MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
ATRX MUTATED 60 60 59 12
ATRX WILD-TYPE 76 47 124 71

Figure S27.  Get High-res Image Gene #3: 'ATRX MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'ATRX MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 3e-05 (Fisher's exact test), Q value = 0.00051

Table S34.  Gene #3: 'ATRX MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
ATRX MUTATED 108 58 25
ATRX WILD-TYPE 114 126 78

Figure S28.  Get High-res Image Gene #3: 'ATRX MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'ATRX MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.262 (Fisher's exact test), Q value = 0.79

Table S35.  Gene #3: 'ATRX MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
ATRX MUTATED 76 60 52
ATRX WILD-TYPE 108 102 107
'ATRX MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S36.  Gene #3: 'ATRX MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
ATRX MUTATED 62 43 69 14
ATRX WILD-TYPE 28 95 119 75

Figure S29.  Get High-res Image Gene #3: 'ATRX MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'CIC MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.0503 (Fisher's exact test), Q value = 0.3

Table S37.  Gene #4: 'CIC MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 9 10 8
CIC MUTATED 0 5 2
CIC WILD-TYPE 9 5 6
'CIC MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.00313 (Fisher's exact test), Q value = 0.035

Table S38.  Gene #4: 'CIC MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 7 7 7 6
CIC MUTATED 0 0 5 2
CIC WILD-TYPE 7 7 2 4

Figure S30.  Get High-res Image Gene #4: 'CIC MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'CIC MUTATION STATUS' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S39.  Gene #4: 'CIC MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
CIC MUTATED 1 5 102
CIC WILD-TYPE 168 115 119

Figure S31.  Get High-res Image Gene #4: 'CIC MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'CIC MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S40.  Gene #4: 'CIC MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
CIC MUTATED 0 1 104 3
CIC WILD-TYPE 222 80 64 39

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

'CIC MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0486 (Fisher's exact test), Q value = 0.29

Table S41.  Gene #4: 'CIC MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
CIC MUTATED 13 17 35 30
CIC WILD-TYPE 78 78 90 85

Figure S33.  Get High-res Image Gene #4: 'CIC MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

'CIC MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.375 (Fisher's exact test), Q value = 0.9

Table S42.  Gene #4: 'CIC MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
CIC MUTATED 15 41 39
CIC WILD-TYPE 67 118 146
'CIC MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S43.  Gene #4: 'CIC MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
CIC MUTATED 0 1 74 28 5
CIC WILD-TYPE 132 108 35 105 25

Figure S34.  Get High-res Image Gene #4: 'CIC MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'CIC MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S44.  Gene #4: 'CIC MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
CIC MUTATED 0 0 23 0 60 1 24
CIC WILD-TYPE 134 71 13 66 31 40 50

Figure S35.  Get High-res Image Gene #4: 'CIC MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'CIC MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S45.  Gene #4: 'CIC MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
CIC MUTATED 15 4 43 46
CIC WILD-TYPE 121 103 140 37

Figure S36.  Get High-res Image Gene #4: 'CIC MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'CIC MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S46.  Gene #4: 'CIC MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
CIC MUTATED 55 51 2
CIC WILD-TYPE 167 133 101

Figure S37.  Get High-res Image Gene #4: 'CIC MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'CIC MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S47.  Gene #4: 'CIC MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
CIC MUTATED 11 61 36
CIC WILD-TYPE 173 101 123

Figure S38.  Get High-res Image Gene #4: 'CIC MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'CIC MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S48.  Gene #4: 'CIC MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
CIC MUTATED 2 62 43 1
CIC WILD-TYPE 88 76 145 88

Figure S39.  Get High-res Image Gene #4: 'CIC MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'NOTCH1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.615 (Fisher's exact test), Q value = 1

Table S49.  Gene #5: 'NOTCH1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 9 10 8
NOTCH1 MUTATED 0 2 1
NOTCH1 WILD-TYPE 9 8 7
'NOTCH1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.28 (Fisher's exact test), Q value = 0.81

Table S50.  Gene #5: 'NOTCH1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 7 7 7 6
NOTCH1 MUTATED 0 0 2 1
NOTCH1 WILD-TYPE 7 7 5 5
'NOTCH1 MUTATION STATUS' versus 'CN_CNMF'

P value = 2e-04 (Fisher's exact test), Q value = 0.0031

Table S51.  Gene #5: 'NOTCH1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
NOTCH1 MUTATED 6 5 31
NOTCH1 WILD-TYPE 163 115 190

Figure S40.  Get High-res Image Gene #5: 'NOTCH1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'NOTCH1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S52.  Gene #5: 'NOTCH1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
NOTCH1 MUTATED 9 1 32 0
NOTCH1 WILD-TYPE 213 80 136 42

Figure S41.  Get High-res Image Gene #5: 'NOTCH1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'NOTCH1 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S53.  Gene #5: 'NOTCH1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
NOTCH1 MUTATED 6 8 15 10
NOTCH1 WILD-TYPE 85 87 110 105
'NOTCH1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.621 (Fisher's exact test), Q value = 1

Table S54.  Gene #5: 'NOTCH1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
NOTCH1 MUTATED 5 16 18
NOTCH1 WILD-TYPE 77 143 167
'NOTCH1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S55.  Gene #5: 'NOTCH1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
NOTCH1 MUTATED 3 3 21 15 0
NOTCH1 WILD-TYPE 129 106 88 118 30

Figure S42.  Get High-res Image Gene #5: 'NOTCH1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'NOTCH1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S56.  Gene #5: 'NOTCH1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
NOTCH1 MUTATED 3 0 13 1 9 3 13
NOTCH1 WILD-TYPE 131 71 23 65 82 38 61

Figure S43.  Get High-res Image Gene #5: 'NOTCH1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'NOTCH1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 2e-04 (Fisher's exact test), Q value = 0.0031

Table S57.  Gene #5: 'NOTCH1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
NOTCH1 MUTATED 4 3 21 13
NOTCH1 WILD-TYPE 132 104 162 70

Figure S44.  Get High-res Image Gene #5: 'NOTCH1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'NOTCH1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00479 (Fisher's exact test), Q value = 0.049

Table S58.  Gene #5: 'NOTCH1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
NOTCH1 MUTATED 16 23 2
NOTCH1 WILD-TYPE 206 161 101

Figure S45.  Get High-res Image Gene #5: 'NOTCH1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'NOTCH1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00157 (Fisher's exact test), Q value = 0.019

Table S59.  Gene #5: 'NOTCH1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
NOTCH1 MUTATED 6 13 22
NOTCH1 WILD-TYPE 178 149 137

Figure S46.  Get High-res Image Gene #5: 'NOTCH1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'NOTCH1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00013 (Fisher's exact test), Q value = 0.0021

Table S60.  Gene #5: 'NOTCH1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
NOTCH1 MUTATED 3 14 24 0
NOTCH1 WILD-TYPE 87 124 164 89

Figure S47.  Get High-res Image Gene #5: 'NOTCH1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'IDH2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.00132 (Fisher's exact test), Q value = 0.016

Table S61.  Gene #6: 'IDH2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
IDH2 MUTATED 1 3 16
IDH2 WILD-TYPE 168 117 205

Figure S48.  Get High-res Image Gene #6: 'IDH2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'IDH2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.00036 (Fisher's exact test), Q value = 0.0053

Table S62.  Gene #6: 'IDH2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
IDH2 MUTATED 3 0 13 4
IDH2 WILD-TYPE 219 81 155 38

Figure S49.  Get High-res Image Gene #6: 'IDH2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'IDH2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.246 (Fisher's exact test), Q value = 0.76

Table S63.  Gene #6: 'IDH2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
IDH2 MUTATED 1 5 4 7
IDH2 WILD-TYPE 90 90 121 108
'IDH2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0891 (Fisher's exact test), Q value = 0.44

Table S64.  Gene #6: 'IDH2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
IDH2 MUTATED 0 8 9
IDH2 WILD-TYPE 82 151 176
'IDH2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.00784 (Fisher's exact test), Q value = 0.072

Table S65.  Gene #6: 'IDH2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
IDH2 MUTATED 1 1 8 9 1
IDH2 WILD-TYPE 131 108 101 124 29

Figure S50.  Get High-res Image Gene #6: 'IDH2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'IDH2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00023 (Fisher's exact test), Q value = 0.0034

Table S66.  Gene #6: 'IDH2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
IDH2 MUTATED 1 0 4 1 6 0 8
IDH2 WILD-TYPE 133 71 32 65 85 41 66

Figure S51.  Get High-res Image Gene #6: 'IDH2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'IDH2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.00965 (Fisher's exact test), Q value = 0.086

Table S67.  Gene #6: 'IDH2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
IDH2 MUTATED 3 0 12 5
IDH2 WILD-TYPE 133 107 171 78

Figure S52.  Get High-res Image Gene #6: 'IDH2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'IDH2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00059 (Fisher's exact test), Q value = 0.0083

Table S68.  Gene #6: 'IDH2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
IDH2 MUTATED 5 15 0
IDH2 WILD-TYPE 217 169 103

Figure S53.  Get High-res Image Gene #6: 'IDH2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'IDH2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00297 (Fisher's exact test), Q value = 0.034

Table S69.  Gene #6: 'IDH2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
IDH2 MUTATED 1 8 11
IDH2 WILD-TYPE 183 154 148

Figure S54.  Get High-res Image Gene #6: 'IDH2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'IDH2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0465 (Fisher's exact test), Q value = 0.28

Table S70.  Gene #6: 'IDH2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
IDH2 MUTATED 2 6 12 0
IDH2 WILD-TYPE 88 132 176 89

Figure S55.  Get High-res Image Gene #6: 'IDH2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'PIK3R1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.614 (Fisher's exact test), Q value = 1

Table S71.  Gene #7: 'PIK3R1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 9 10 8
PIK3R1 MUTATED 2 1 0
PIK3R1 WILD-TYPE 7 9 8
'PIK3R1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

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

Table S72.  Gene #7: 'PIK3R1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 7 7 7 6
PIK3R1 MUTATED 2 0 1 0
PIK3R1 WILD-TYPE 5 7 6 6
'PIK3R1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0195 (Fisher's exact test), Q value = 0.15

Table S73.  Gene #7: 'PIK3R1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
PIK3R1 MUTATED 2 5 15
PIK3R1 WILD-TYPE 167 115 206

Figure S56.  Get High-res Image Gene #7: 'PIK3R1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'PIK3R1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.00193 (Fisher's exact test), Q value = 0.023

Table S74.  Gene #7: 'PIK3R1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
PIK3R1 MUTATED 3 5 14 0
PIK3R1 WILD-TYPE 219 76 154 42

Figure S57.  Get High-res Image Gene #7: 'PIK3R1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'PIK3R1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.947 (Fisher's exact test), Q value = 1

Table S75.  Gene #7: 'PIK3R1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
PIK3R1 MUTATED 5 4 5 6
PIK3R1 WILD-TYPE 86 91 120 109
'PIK3R1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.831 (Fisher's exact test), Q value = 1

Table S76.  Gene #7: 'PIK3R1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
PIK3R1 MUTATED 3 9 8
PIK3R1 WILD-TYPE 79 150 177
'PIK3R1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.127 (Fisher's exact test), Q value = 0.54

Table S77.  Gene #7: 'PIK3R1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
PIK3R1 MUTATED 2 6 8 4 2
PIK3R1 WILD-TYPE 130 103 101 129 28
'PIK3R1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0368 (Fisher's exact test), Q value = 0.24

Table S78.  Gene #7: 'PIK3R1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
PIK3R1 MUTATED 3 2 1 0 9 3 4
PIK3R1 WILD-TYPE 131 69 35 66 82 38 70

Figure S58.  Get High-res Image Gene #7: 'PIK3R1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'PIK3R1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0862 (Fisher's exact test), Q value = 0.43

Table S79.  Gene #7: 'PIK3R1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
PIK3R1 MUTATED 6 3 5 8
PIK3R1 WILD-TYPE 130 104 178 75
'PIK3R1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S80.  Gene #7: 'PIK3R1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
PIK3R1 MUTATED 12 7 3
PIK3R1 WILD-TYPE 210 177 100
'PIK3R1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.961 (Fisher's exact test), Q value = 1

Table S81.  Gene #7: 'PIK3R1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
PIK3R1 MUTATED 9 7 6
PIK3R1 WILD-TYPE 175 155 153
'PIK3R1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S82.  Gene #7: 'PIK3R1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
PIK3R1 MUTATED 3 8 9 2
PIK3R1 WILD-TYPE 87 130 179 87
'FUBP1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.0236 (Fisher's exact test), Q value = 0.18

Table S83.  Gene #8: 'FUBP1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 9 10 8
FUBP1 MUTATED 0 4 0
FUBP1 WILD-TYPE 9 6 8

Figure S59.  Get High-res Image Gene #8: 'FUBP1 MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

'FUBP1 MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.00699 (Fisher's exact test), Q value = 0.066

Table S84.  Gene #8: 'FUBP1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 7 7 7 6
FUBP1 MUTATED 0 0 4 0
FUBP1 WILD-TYPE 7 7 3 6

Figure S60.  Get High-res Image Gene #8: 'FUBP1 MUTATION STATUS' versus Molecular Subtype #2: 'MRNA_CHIERARCHICAL'

'FUBP1 MUTATION STATUS' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S85.  Gene #8: 'FUBP1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
FUBP1 MUTATED 0 1 46
FUBP1 WILD-TYPE 169 119 175

Figure S61.  Get High-res Image Gene #8: 'FUBP1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'FUBP1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S86.  Gene #8: 'FUBP1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
FUBP1 MUTATED 0 1 46 0
FUBP1 WILD-TYPE 222 80 122 42

Figure S62.  Get High-res Image Gene #8: 'FUBP1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'FUBP1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.624 (Fisher's exact test), Q value = 1

Table S87.  Gene #8: 'FUBP1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
FUBP1 MUTATED 7 7 13 14
FUBP1 WILD-TYPE 84 88 112 101
'FUBP1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.682 (Fisher's exact test), Q value = 1

Table S88.  Gene #8: 'FUBP1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
FUBP1 MUTATED 7 18 16
FUBP1 WILD-TYPE 75 141 169
'FUBP1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S89.  Gene #8: 'FUBP1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
FUBP1 MUTATED 0 1 32 11 3
FUBP1 WILD-TYPE 132 108 77 122 27

Figure S63.  Get High-res Image Gene #8: 'FUBP1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'FUBP1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S90.  Gene #8: 'FUBP1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
FUBP1 MUTATED 0 0 12 0 22 1 12
FUBP1 WILD-TYPE 134 71 24 66 69 40 62

Figure S64.  Get High-res Image Gene #8: 'FUBP1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'FUBP1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S91.  Gene #8: 'FUBP1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
FUBP1 MUTATED 6 1 22 18
FUBP1 WILD-TYPE 130 106 161 65

Figure S65.  Get High-res Image Gene #8: 'FUBP1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'FUBP1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00112 (Fisher's exact test), Q value = 0.014

Table S92.  Gene #8: 'FUBP1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
FUBP1 MUTATED 24 22 1
FUBP1 WILD-TYPE 198 162 102

Figure S66.  Get High-res Image Gene #8: 'FUBP1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'FUBP1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00829 (Fisher's exact test), Q value = 0.075

Table S93.  Gene #8: 'FUBP1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
FUBP1 MUTATED 8 22 17
FUBP1 WILD-TYPE 176 140 142

Figure S67.  Get High-res Image Gene #8: 'FUBP1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'FUBP1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S94.  Gene #8: 'FUBP1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
FUBP1 MUTATED 0 23 24 0
FUBP1 WILD-TYPE 90 115 164 89

Figure S68.  Get High-res Image Gene #8: 'FUBP1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'NF1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.00115 (Fisher's exact test), Q value = 0.014

Table S95.  Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
NF1 MUTATED 6 17 10
NF1 WILD-TYPE 163 103 211

Figure S69.  Get High-res Image Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'NF1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S96.  Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
NF1 MUTATED 1 19 8 5
NF1 WILD-TYPE 221 62 160 37

Figure S70.  Get High-res Image Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'NF1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0365 (Fisher's exact test), Q value = 0.24

Table S97.  Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
NF1 MUTATED 1 10 6 8
NF1 WILD-TYPE 90 85 119 107

Figure S71.  Get High-res Image Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

'NF1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.185 (Fisher's exact test), Q value = 0.67

Table S98.  Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
NF1 MUTATED 2 8 15
NF1 WILD-TYPE 80 151 170
'NF1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S99.  Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
NF1 MUTATED 1 20 6 4 2
NF1 WILD-TYPE 131 89 103 129 28

Figure S72.  Get High-res Image Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'NF1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S100.  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 134 71 36 66 91 41 74
NF1 MUTATED 1 16 1 3 6 4 2
NF1 WILD-TYPE 133 55 35 63 85 37 72

Figure S73.  Get High-res Image Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'NF1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.338 (Fisher's exact test), Q value = 0.84

Table S101.  Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
NF1 MUTATED 9 11 9 4
NF1 WILD-TYPE 127 96 174 79
'NF1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00018 (Fisher's exact test), Q value = 0.0028

Table S102.  Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
NF1 MUTATED 10 6 17
NF1 WILD-TYPE 212 178 86

Figure S74.  Get High-res Image Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'NF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0053 (Fisher's exact test), Q value = 0.053

Table S103.  Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
NF1 MUTATED 21 6 6
NF1 WILD-TYPE 163 156 153

Figure S75.  Get High-res Image Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'NF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S104.  Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
NF1 MUTATED 1 6 7 19
NF1 WILD-TYPE 89 132 181 70

Figure S76.  Get High-res Image Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'ARID1A MUTATION STATUS' versus 'CN_CNMF'

P value = 0.693 (Fisher's exact test), Q value = 1

Table S105.  Gene #10: 'ARID1A MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
ARID1A MUTATED 6 3 10
ARID1A WILD-TYPE 163 117 211
'ARID1A MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.08 (Fisher's exact test), Q value = 0.41

Table S106.  Gene #10: 'ARID1A MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
ARID1A MUTATED 6 2 12 0
ARID1A WILD-TYPE 216 79 156 42
'ARID1A MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.255 (Fisher's exact test), Q value = 0.77

Table S107.  Gene #10: 'ARID1A MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
ARID1A MUTATED 4 1 8 5
ARID1A WILD-TYPE 87 94 117 110
'ARID1A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S108.  Gene #10: 'ARID1A MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
ARID1A MUTATED 5 6 7
ARID1A WILD-TYPE 77 153 178
'ARID1A MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0324 (Fisher's exact test), Q value = 0.22

Table S109.  Gene #10: 'ARID1A MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
ARID1A MUTATED 4 1 10 5 0
ARID1A WILD-TYPE 128 108 99 128 30

Figure S77.  Get High-res Image Gene #10: 'ARID1A MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'ARID1A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.14 (Fisher's exact test), Q value = 0.58

Table S110.  Gene #10: '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 134 71 36 66 91 41 74
ARID1A MUTATED 4 0 3 2 7 1 3
ARID1A WILD-TYPE 130 71 33 64 84 40 71
'ARID1A MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.315 (Fisher's exact test), Q value = 0.83

Table S111.  Gene #10: 'ARID1A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
ARID1A MUTATED 5 2 7 6
ARID1A WILD-TYPE 131 105 176 77
'ARID1A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S112.  Gene #10: 'ARID1A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
ARID1A MUTATED 10 8 2
ARID1A WILD-TYPE 212 176 101
'ARID1A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0844 (Fisher's exact test), Q value = 0.42

Table S113.  Gene #10: 'ARID1A MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
ARID1A MUTATED 3 10 7
ARID1A WILD-TYPE 181 152 152
'ARID1A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0288 (Fisher's exact test), Q value = 0.2

Table S114.  Gene #10: 'ARID1A MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
ARID1A MUTATED 1 11 7 1
ARID1A WILD-TYPE 89 127 181 88

Figure S78.  Get High-res Image Gene #10: 'ARID1A MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'PTEN MUTATION STATUS' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S115.  Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
PTEN MUTATED 3 20 1
PTEN WILD-TYPE 166 100 220

Figure S79.  Get High-res Image Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'PTEN MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S116.  Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
PTEN MUTATED 3 18 1 2
PTEN WILD-TYPE 219 63 167 40

Figure S80.  Get High-res Image Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'PTEN MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0129 (Fisher's exact test), Q value = 0.11

Table S117.  Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
PTEN MUTATED 2 9 2 2
PTEN WILD-TYPE 89 86 123 113

Figure S81.  Get High-res Image Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

'PTEN MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.00211 (Fisher's exact test), Q value = 0.024

Table S118.  Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
PTEN MUTATED 0 2 13
PTEN WILD-TYPE 82 157 172

Figure S82.  Get High-res Image Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'PTEN MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S119.  Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
PTEN MUTATED 3 19 1 0 1
PTEN WILD-TYPE 129 90 108 133 29

Figure S83.  Get High-res Image Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'PTEN MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S120.  Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
PTEN MUTATED 2 18 0 1 1 2 0
PTEN WILD-TYPE 132 53 36 65 90 39 74

Figure S84.  Get High-res Image Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'PTEN MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.00354 (Fisher's exact test), Q value = 0.038

Table S121.  Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
PTEN MUTATED 12 8 3 1
PTEN WILD-TYPE 124 99 180 82

Figure S85.  Get High-res Image Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'PTEN MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S122.  Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
PTEN MUTATED 6 1 17
PTEN WILD-TYPE 216 183 86

Figure S86.  Get High-res Image Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'PTEN MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.00035

Table S123.  Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
PTEN MUTATED 20 2 2
PTEN WILD-TYPE 164 160 157

Figure S87.  Get High-res Image Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'PTEN MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S124.  Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
PTEN MUTATED 3 3 1 17
PTEN WILD-TYPE 87 135 187 72

Figure S88.  Get High-res Image Gene #11: 'PTEN 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 = 0.00019

Table S125.  Gene #12: 'EGFR MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
EGFR MUTATED 0 32 3
EGFR WILD-TYPE 169 88 218

Figure S89.  Get High-res Image Gene #12: 'EGFR MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'EGFR MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S126.  Gene #12: 'EGFR MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
EGFR MUTATED 0 30 2 3
EGFR WILD-TYPE 222 51 166 39

Figure S90.  Get High-res Image Gene #12: 'EGFR MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'EGFR MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.304 (Fisher's exact test), Q value = 0.83

Table S127.  Gene #12: 'EGFR MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
EGFR MUTATED 4 9 5 9
EGFR WILD-TYPE 87 86 120 106
'EGFR MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0557 (Fisher's exact test), Q value = 0.32

Table S128.  Gene #12: 'EGFR MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
EGFR MUTATED 1 10 16
EGFR WILD-TYPE 81 149 169
'EGFR MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S129.  Gene #12: 'EGFR MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
EGFR MUTATED 0 26 2 5 2
EGFR WILD-TYPE 132 83 107 128 28

Figure S91.  Get High-res Image Gene #12: 'EGFR MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'EGFR MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S130.  Gene #12: '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 134 71 36 66 91 41 74
EGFR MUTATED 0 25 1 6 0 1 2
EGFR WILD-TYPE 134 46 35 60 91 40 72

Figure S92.  Get High-res Image Gene #12: 'EGFR MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'EGFR MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0105 (Fisher's exact test), Q value = 0.092

Table S131.  Gene #12: 'EGFR MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
EGFR MUTATED 11 11 13 0
EGFR WILD-TYPE 125 96 170 83

Figure S93.  Get High-res Image Gene #12: 'EGFR MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'EGFR MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S132.  Gene #12: 'EGFR MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
EGFR MUTATED 1 9 25
EGFR WILD-TYPE 221 175 78

Figure S94.  Get High-res Image Gene #12: 'EGFR MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'EGFR MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S133.  Gene #12: 'EGFR MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
EGFR MUTATED 23 0 12
EGFR WILD-TYPE 161 162 147

Figure S95.  Get High-res Image Gene #12: 'EGFR MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'EGFR MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 0.00019

Table S134.  Gene #12: 'EGFR MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
EGFR MUTATED 0 0 8 27
EGFR WILD-TYPE 90 138 180 62

Figure S96.  Get High-res Image Gene #12: 'EGFR MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'GAGE2A MUTATION STATUS' versus 'CN_CNMF'

P value = 0.815 (Fisher's exact test), Q value = 1

Table S135.  Gene #13: 'GAGE2A MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
GAGE2A MUTATED 3 1 4
GAGE2A WILD-TYPE 166 119 217
'GAGE2A MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S136.  Gene #13: 'GAGE2A MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
GAGE2A MUTATED 4 1 3 0
GAGE2A WILD-TYPE 218 80 165 42
'GAGE2A MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S137.  Gene #13: 'GAGE2A MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
GAGE2A MUTATED 1 2 3 2
GAGE2A WILD-TYPE 90 93 122 113
'GAGE2A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S138.  Gene #13: 'GAGE2A MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
GAGE2A MUTATED 1 3 4
GAGE2A WILD-TYPE 81 156 181
'GAGE2A MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.724 (Fisher's exact test), Q value = 1

Table S139.  Gene #13: 'GAGE2A MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
GAGE2A MUTATED 1 2 2 2 1
GAGE2A WILD-TYPE 131 107 107 131 29
'GAGE2A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.621 (Fisher's exact test), Q value = 1

Table S140.  Gene #13: '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 134 71 36 66 91 41 74
GAGE2A MUTATED 2 1 0 0 1 1 3
GAGE2A WILD-TYPE 132 70 36 66 90 40 71
'GAGE2A MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.655 (Fisher's exact test), Q value = 1

Table S141.  Gene #13: 'GAGE2A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
GAGE2A MUTATED 1 3 3 1
GAGE2A WILD-TYPE 135 104 180 82
'GAGE2A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.901 (Fisher's exact test), Q value = 1

Table S142.  Gene #13: 'GAGE2A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
GAGE2A MUTATED 3 3 2
GAGE2A WILD-TYPE 219 181 101
'GAGE2A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S143.  Gene #13: 'GAGE2A MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
GAGE2A MUTATED 2 3 3
GAGE2A WILD-TYPE 182 159 156
'GAGE2A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.923 (Fisher's exact test), Q value = 1

Table S144.  Gene #13: 'GAGE2A MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
GAGE2A MUTATED 2 2 3 1
GAGE2A WILD-TYPE 88 136 185 88
'NUDT11 MUTATION STATUS' versus 'CN_CNMF'

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

Table S145.  Gene #14: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
NUDT11 MUTATED 4 2 5
NUDT11 WILD-TYPE 165 118 216
'NUDT11 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.848 (Fisher's exact test), Q value = 1

Table S146.  Gene #14: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
NUDT11 MUTATED 6 1 4 0
NUDT11 WILD-TYPE 216 80 164 42
'NUDT11 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.456 (Fisher's exact test), Q value = 0.96

Table S147.  Gene #14: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
NUDT11 MUTATED 2 4 4 1
NUDT11 WILD-TYPE 89 91 121 114
'NUDT11 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S148.  Gene #14: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
NUDT11 MUTATED 2 3 6
NUDT11 WILD-TYPE 80 156 179
'NUDT11 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.203 (Fisher's exact test), Q value = 0.71

Table S149.  Gene #14: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
NUDT11 MUTATED 2 2 4 1 2
NUDT11 WILD-TYPE 130 107 105 132 28
'NUDT11 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.156 (Fisher's exact test), Q value = 0.63

Table S150.  Gene #14: '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 134 71 36 66 91 41 74
NUDT11 MUTATED 3 0 1 0 3 3 1
NUDT11 WILD-TYPE 131 71 35 66 88 38 73
'NUDT11 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0255 (Fisher's exact test), Q value = 0.19

Table S151.  Gene #14: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
NUDT11 MUTATED 1 4 1 4
NUDT11 WILD-TYPE 135 103 182 79

Figure S97.  Get High-res Image Gene #14: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'NUDT11 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.919 (Fisher's exact test), Q value = 1

Table S152.  Gene #14: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
NUDT11 MUTATED 5 3 2
NUDT11 WILD-TYPE 217 181 101
'NUDT11 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.17 (Fisher's exact test), Q value = 0.65

Table S153.  Gene #14: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
NUDT11 MUTATED 1 5 4
NUDT11 WILD-TYPE 183 157 155
'NUDT11 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.296 (Fisher's exact test), Q value = 0.83

Table S154.  Gene #14: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
NUDT11 MUTATED 1 5 4 0
NUDT11 WILD-TYPE 89 133 184 89
'PIK3CA MUTATION STATUS' versus 'CN_CNMF'

P value = 7e-05 (Fisher's exact test), Q value = 0.0012

Table S155.  Gene #15: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
PIK3CA MUTATED 3 13 28
PIK3CA WILD-TYPE 166 107 193

Figure S98.  Get High-res Image Gene #15: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'PIK3CA MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 2e-05 (Fisher's exact test), Q value = 0.00035

Table S156.  Gene #15: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
PIK3CA MUTATED 5 11 25 3
PIK3CA WILD-TYPE 217 70 143 39

Figure S99.  Get High-res Image Gene #15: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'PIK3CA MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.329 (Fisher's exact test), Q value = 0.83

Table S157.  Gene #15: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
PIK3CA MUTATED 9 10 6 11
PIK3CA WILD-TYPE 82 85 119 104
'PIK3CA MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.566 (Fisher's exact test), Q value = 1

Table S158.  Gene #15: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
PIK3CA MUTATED 7 16 13
PIK3CA WILD-TYPE 75 143 172
'PIK3CA MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.00111 (Fisher's exact test), Q value = 0.014

Table S159.  Gene #15: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
PIK3CA MUTATED 2 14 15 10 3
PIK3CA WILD-TYPE 130 95 94 123 27

Figure S100.  Get High-res Image Gene #15: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'PIK3CA MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 3e-05 (Fisher's exact test), Q value = 0.00051

Table S160.  Gene #15: '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 134 71 36 66 91 41 74
PIK3CA MUTATED 1 11 2 2 15 4 9
PIK3CA WILD-TYPE 133 60 34 64 76 37 65

Figure S101.  Get High-res Image Gene #15: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'PIK3CA MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0103 (Fisher's exact test), Q value = 0.09

Table S161.  Gene #15: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
PIK3CA MUTATED 5 14 13 12
PIK3CA WILD-TYPE 131 93 170 71

Figure S102.  Get High-res Image Gene #15: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'PIK3CA MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0386 (Fisher's exact test), Q value = 0.25

Table S162.  Gene #15: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
PIK3CA MUTATED 13 16 15
PIK3CA WILD-TYPE 209 168 88

Figure S103.  Get High-res Image Gene #15: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'PIK3CA MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.329 (Fisher's exact test), Q value = 0.83

Table S163.  Gene #15: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
PIK3CA MUTATED 17 10 17
PIK3CA WILD-TYPE 167 152 142
'PIK3CA MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00091 (Fisher's exact test), Q value = 0.012

Table S164.  Gene #15: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
PIK3CA MUTATED 0 15 17 12
PIK3CA WILD-TYPE 90 123 171 77

Figure S104.  Get High-res Image Gene #15: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'STK19 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.422 (Fisher's exact test), Q value = 0.95

Table S165.  Gene #16: 'STK19 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
STK19 MUTATED 3 4 3
STK19 WILD-TYPE 166 116 218
'STK19 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.111 (Fisher's exact test), Q value = 0.51

Table S166.  Gene #16: 'STK19 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
STK19 MUTATED 4 3 1 2
STK19 WILD-TYPE 218 78 167 40
'STK19 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.396 (Fisher's exact test), Q value = 0.91

Table S167.  Gene #16: 'STK19 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
STK19 MUTATED 3 0 2 2
STK19 WILD-TYPE 88 95 123 113
'STK19 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S168.  Gene #16: 'STK19 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
STK19 MUTATED 2 3 2
STK19 WILD-TYPE 80 156 183
'STK19 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.299 (Fisher's exact test), Q value = 0.83

Table S169.  Gene #16: 'STK19 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
STK19 MUTATED 2 3 0 4 1
STK19 WILD-TYPE 130 106 109 129 29
'STK19 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.719 (Fisher's exact test), Q value = 1

Table S170.  Gene #16: '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 134 71 36 66 91 41 74
STK19 MUTATED 2 2 0 3 1 1 1
STK19 WILD-TYPE 132 69 36 63 90 40 73
'STK19 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.169 (Fisher's exact test), Q value = 0.65

Table S171.  Gene #16: 'STK19 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
STK19 MUTATED 1 4 5 0
STK19 WILD-TYPE 135 103 178 83
'STK19 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.545 (Fisher's exact test), Q value = 1

Table S172.  Gene #16: 'STK19 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
STK19 MUTATED 3 4 3
STK19 WILD-TYPE 219 180 100
'STK19 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S173.  Gene #16: 'STK19 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
STK19 MUTATED 3 4 3
STK19 WILD-TYPE 181 158 156
'STK19 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.843 (Fisher's exact test), Q value = 1

Table S174.  Gene #16: 'STK19 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
STK19 MUTATED 1 2 5 2
STK19 WILD-TYPE 89 136 183 87
'EMG1 MUTATION STATUS' versus 'CN_CNMF'

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

Table S175.  Gene #17: 'EMG1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
EMG1 MUTATED 2 1 3
EMG1 WILD-TYPE 167 119 218
'EMG1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.856 (Fisher's exact test), Q value = 1

Table S176.  Gene #17: 'EMG1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
EMG1 MUTATED 3 0 3 0
EMG1 WILD-TYPE 219 81 165 42
'EMG1 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S177.  Gene #17: 'EMG1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
EMG1 MUTATED 2 0 2 2
EMG1 WILD-TYPE 89 95 123 113
'EMG1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.424 (Fisher's exact test), Q value = 0.95

Table S178.  Gene #17: 'EMG1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
EMG1 MUTATED 2 1 3
EMG1 WILD-TYPE 80 158 182
'EMG1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.408 (Fisher's exact test), Q value = 0.93

Table S179.  Gene #17: 'EMG1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
EMG1 MUTATED 1 0 2 2 1
EMG1 WILD-TYPE 131 109 107 131 29
'EMG1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.285 (Fisher's exact test), Q value = 0.81

Table S180.  Gene #17: '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 134 71 36 66 91 41 74
EMG1 MUTATED 1 0 0 2 3 0 0
EMG1 WILD-TYPE 133 71 36 64 88 41 74
'EMG1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.409 (Fisher's exact test), Q value = 0.94

Table S181.  Gene #17: 'EMG1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
EMG1 MUTATED 1 0 3 2
EMG1 WILD-TYPE 135 107 180 81
'EMG1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.431 (Fisher's exact test), Q value = 0.95

Table S182.  Gene #17: 'EMG1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
EMG1 MUTATED 4 2 0
EMG1 WILD-TYPE 218 182 103
'EMG1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S183.  Gene #17: 'EMG1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
EMG1 MUTATED 1 3 2
EMG1 WILD-TYPE 183 159 157
'EMG1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S184.  Gene #17: 'EMG1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
EMG1 MUTATED 1 3 2 0
EMG1 WILD-TYPE 89 135 186 89
'SMARCA4 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0114 (Fisher's exact test), Q value = 0.097

Table S185.  Gene #18: 'SMARCA4 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
SMARCA4 MUTATED 16 4 6
SMARCA4 WILD-TYPE 153 116 215

Figure S105.  Get High-res Image Gene #18: 'SMARCA4 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'SMARCA4 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.103 (Fisher's exact test), Q value = 0.48

Table S186.  Gene #18: 'SMARCA4 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
SMARCA4 MUTATED 17 2 7 0
SMARCA4 WILD-TYPE 205 79 161 42
'SMARCA4 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.187 (Fisher's exact test), Q value = 0.67

Table S187.  Gene #18: 'SMARCA4 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
SMARCA4 MUTATED 1 4 9 5
SMARCA4 WILD-TYPE 90 91 116 110
'SMARCA4 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.956 (Fisher's exact test), Q value = 1

Table S188.  Gene #18: 'SMARCA4 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
SMARCA4 MUTATED 3 7 9
SMARCA4 WILD-TYPE 79 152 176
'SMARCA4 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.327 (Fisher's exact test), Q value = 0.83

Table S189.  Gene #18: 'SMARCA4 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
SMARCA4 MUTATED 9 2 7 6 2
SMARCA4 WILD-TYPE 123 107 102 127 28
'SMARCA4 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.452 (Fisher's exact test), Q value = 0.96

Table S190.  Gene #18: '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 134 71 36 66 91 41 74
SMARCA4 MUTATED 11 1 2 4 4 2 2
SMARCA4 WILD-TYPE 123 70 34 62 87 39 72
'SMARCA4 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.305 (Fisher's exact test), Q value = 0.83

Table S191.  Gene #18: 'SMARCA4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
SMARCA4 MUTATED 8 2 9 6
SMARCA4 WILD-TYPE 128 105 174 77
'SMARCA4 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.245 (Fisher's exact test), Q value = 0.76

Table S192.  Gene #18: 'SMARCA4 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
SMARCA4 MUTATED 14 9 2
SMARCA4 WILD-TYPE 208 175 101
'SMARCA4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.873 (Fisher's exact test), Q value = 1

Table S193.  Gene #18: 'SMARCA4 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
SMARCA4 MUTATED 8 9 8
SMARCA4 WILD-TYPE 176 153 151
'SMARCA4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.164 (Fisher's exact test), Q value = 0.64

Table S194.  Gene #18: 'SMARCA4 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
SMARCA4 MUTATED 7 6 11 1
SMARCA4 WILD-TYPE 83 132 177 88
'NIPBL MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0374 (Fisher's exact test), Q value = 0.24

Table S195.  Gene #19: 'NIPBL MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
NIPBL MUTATED 2 3 13
NIPBL WILD-TYPE 167 117 208

Figure S106.  Get High-res Image Gene #19: 'NIPBL MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'NIPBL MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.00077 (Fisher's exact test), Q value = 0.01

Table S196.  Gene #19: 'NIPBL MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
NIPBL MUTATED 2 2 14 0
NIPBL WILD-TYPE 220 79 154 42

Figure S107.  Get High-res Image Gene #19: 'NIPBL MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'NIPBL MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.388 (Fisher's exact test), Q value = 0.91

Table S197.  Gene #19: 'NIPBL MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
NIPBL MUTATED 3 2 7 2
NIPBL WILD-TYPE 88 93 118 113
'NIPBL MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.229 (Fisher's exact test), Q value = 0.74

Table S198.  Gene #19: 'NIPBL MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
NIPBL MUTATED 5 3 6
NIPBL WILD-TYPE 77 156 179
'NIPBL MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.00373 (Fisher's exact test), Q value = 0.039

Table S199.  Gene #19: 'NIPBL MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
NIPBL MUTATED 1 3 10 2 2
NIPBL WILD-TYPE 131 106 99 131 28

Figure S108.  Get High-res Image Gene #19: 'NIPBL MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'NIPBL MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00482 (Fisher's exact test), Q value = 0.049

Table S200.  Gene #19: 'NIPBL MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
NIPBL MUTATED 2 1 2 0 10 1 2
NIPBL WILD-TYPE 132 70 34 66 81 40 72

Figure S109.  Get High-res Image Gene #19: 'NIPBL MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'NIPBL MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.45 (Fisher's exact test), Q value = 0.96

Table S201.  Gene #19: 'NIPBL MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
NIPBL MUTATED 5 4 4 5
NIPBL WILD-TYPE 131 103 179 78
'NIPBL MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.172 (Fisher's exact test), Q value = 0.65

Table S202.  Gene #19: 'NIPBL MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
NIPBL MUTATED 12 4 2
NIPBL WILD-TYPE 210 180 101
'NIPBL MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0108 (Fisher's exact test), Q value = 0.093

Table S203.  Gene #19: 'NIPBL MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
NIPBL MUTATED 3 12 3
NIPBL WILD-TYPE 181 150 156

Figure S110.  Get High-res Image Gene #19: 'NIPBL MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'NIPBL MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0591 (Fisher's exact test), Q value = 0.33

Table S204.  Gene #19: 'NIPBL MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
NIPBL MUTATED 3 10 4 1
NIPBL WILD-TYPE 87 128 184 88
'TCF12 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.671 (Fisher's exact test), Q value = 1

Table S205.  Gene #20: 'TCF12 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
TCF12 MUTATED 5 2 8
TCF12 WILD-TYPE 164 118 213
'TCF12 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.579 (Fisher's exact test), Q value = 1

Table S206.  Gene #20: 'TCF12 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
TCF12 MUTATED 6 1 6 2
TCF12 WILD-TYPE 216 80 162 40
'TCF12 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.761 (Fisher's exact test), Q value = 1

Table S207.  Gene #20: 'TCF12 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
TCF12 MUTATED 3 2 5 2
TCF12 WILD-TYPE 88 93 120 113
'TCF12 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.508 (Fisher's exact test), Q value = 1

Table S208.  Gene #20: 'TCF12 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
TCF12 MUTATED 1 4 7
TCF12 WILD-TYPE 81 155 178
'TCF12 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.817 (Fisher's exact test), Q value = 1

Table S209.  Gene #20: 'TCF12 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
TCF12 MUTATED 4 3 5 3 0
TCF12 WILD-TYPE 128 106 104 130 30
'TCF12 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.477 (Fisher's exact test), Q value = 0.97

Table S210.  Gene #20: 'TCF12 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
TCF12 MUTATED 4 1 3 2 2 2 1
TCF12 WILD-TYPE 130 70 33 64 89 39 73
'TCF12 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.698 (Fisher's exact test), Q value = 1

Table S211.  Gene #20: 'TCF12 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
TCF12 MUTATED 4 2 5 4
TCF12 WILD-TYPE 132 105 178 79
'TCF12 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.517 (Fisher's exact test), Q value = 1

Table S212.  Gene #20: 'TCF12 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
TCF12 MUTATED 8 6 1
TCF12 WILD-TYPE 214 178 102
'TCF12 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S213.  Gene #20: 'TCF12 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
TCF12 MUTATED 5 5 5
TCF12 WILD-TYPE 179 157 154
'TCF12 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.516 (Fisher's exact test), Q value = 1

Table S214.  Gene #20: 'TCF12 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
TCF12 MUTATED 4 3 7 1
TCF12 WILD-TYPE 86 135 181 88
'DNMT3A MUTATION STATUS' versus 'CN_CNMF'

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

Table S215.  Gene #21: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
DNMT3A MUTATED 4 3 3
DNMT3A WILD-TYPE 165 117 218
'DNMT3A MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.646 (Fisher's exact test), Q value = 1

Table S216.  Gene #21: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
DNMT3A MUTATED 4 3 3 0
DNMT3A WILD-TYPE 218 78 165 42
'DNMT3A MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.524 (Fisher's exact test), Q value = 1

Table S217.  Gene #21: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
DNMT3A MUTATED 2 0 3 2
DNMT3A WILD-TYPE 89 95 122 113
'DNMT3A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.476 (Fisher's exact test), Q value = 0.97

Table S218.  Gene #21: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
DNMT3A MUTATED 0 4 3
DNMT3A WILD-TYPE 82 155 182
'DNMT3A MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S219.  Gene #21: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
DNMT3A MUTATED 4 2 3 1 0
DNMT3A WILD-TYPE 128 107 106 132 30
'DNMT3A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.942 (Fisher's exact test), Q value = 1

Table S220.  Gene #21: '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 134 71 36 66 91 41 74
DNMT3A MUTATED 3 1 1 2 1 1 1
DNMT3A WILD-TYPE 131 70 35 64 90 40 73
'DNMT3A MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.48 (Fisher's exact test), Q value = 0.98

Table S221.  Gene #21: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
DNMT3A MUTATED 1 2 6 1
DNMT3A WILD-TYPE 135 105 177 82
'DNMT3A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0442 (Fisher's exact test), Q value = 0.27

Table S222.  Gene #21: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
DNMT3A MUTATED 1 5 4
DNMT3A WILD-TYPE 221 179 99

Figure S111.  Get High-res Image Gene #21: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'DNMT3A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S223.  Gene #21: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
DNMT3A MUTATED 3 4 3
DNMT3A WILD-TYPE 181 158 156
'DNMT3A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.972 (Fisher's exact test), Q value = 1

Table S224.  Gene #21: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
DNMT3A MUTATED 1 3 4 2
DNMT3A WILD-TYPE 89 135 184 87
'TRERF1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.243 (Fisher's exact test), Q value = 0.76

Table S225.  Gene #22: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
TRERF1 MUTATED 4 1 1
TRERF1 WILD-TYPE 165 119 220
'TRERF1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.123 (Fisher's exact test), Q value = 0.53

Table S226.  Gene #22: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
TRERF1 MUTATED 3 2 0 1
TRERF1 WILD-TYPE 219 79 168 41
'TRERF1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.56 (Fisher's exact test), Q value = 1

Table S227.  Gene #22: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
TRERF1 MUTATED 2 0 1 2
TRERF1 WILD-TYPE 89 95 124 113
'TRERF1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.351 (Fisher's exact test), Q value = 0.87

Table S228.  Gene #22: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
TRERF1 MUTATED 2 2 1
TRERF1 WILD-TYPE 80 157 184
'TRERF1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.392 (Fisher's exact test), Q value = 0.91

Table S229.  Gene #22: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
TRERF1 MUTATED 2 2 0 1 1
TRERF1 WILD-TYPE 130 107 109 132 29
'TRERF1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.575 (Fisher's exact test), Q value = 1

Table S230.  Gene #22: '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 134 71 36 66 91 41 74
TRERF1 MUTATED 3 1 0 1 0 1 0
TRERF1 WILD-TYPE 131 70 36 65 91 40 74
'TRERF1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.39 (Fisher's exact test), Q value = 0.91

Table S231.  Gene #22: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
TRERF1 MUTATED 1 3 2 0
TRERF1 WILD-TYPE 135 104 181 83
'TRERF1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.757 (Fisher's exact test), Q value = 1

Table S232.  Gene #22: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
TRERF1 MUTATED 2 2 2
TRERF1 WILD-TYPE 220 182 101
'TRERF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.101 (Fisher's exact test), Q value = 0.48

Table S233.  Gene #22: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
TRERF1 MUTATED 2 0 4
TRERF1 WILD-TYPE 182 162 155
'TRERF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.354 (Fisher's exact test), Q value = 0.87

Table S234.  Gene #22: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
TRERF1 MUTATED 1 0 4 1
TRERF1 WILD-TYPE 89 138 184 88
'CREBZF MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0525 (Fisher's exact test), Q value = 0.31

Table S235.  Gene #23: 'CREBZF MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
CREBZF MUTATED 0 1 6
CREBZF WILD-TYPE 169 119 215
'CREBZF MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.00758 (Fisher's exact test), Q value = 0.07

Table S236.  Gene #23: 'CREBZF MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
CREBZF MUTATED 0 0 6 1
CREBZF WILD-TYPE 222 81 162 41

Figure S112.  Get High-res Image Gene #23: 'CREBZF MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'CREBZF MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.225 (Fisher's exact test), Q value = 0.73

Table S237.  Gene #23: 'CREBZF MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
CREBZF MUTATED 0 2 1 4
CREBZF WILD-TYPE 91 93 124 111
'CREBZF MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0353 (Fisher's exact test), Q value = 0.23

Table S238.  Gene #23: 'CREBZF MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
CREBZF MUTATED 0 6 1
CREBZF WILD-TYPE 82 153 184

Figure S113.  Get High-res Image Gene #23: 'CREBZF MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'CREBZF MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.281 (Fisher's exact test), Q value = 0.81

Table S239.  Gene #23: 'CREBZF MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
CREBZF MUTATED 0 1 2 4 0
CREBZF WILD-TYPE 132 108 107 129 30
'CREBZF MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0226 (Fisher's exact test), Q value = 0.17

Table S240.  Gene #23: 'CREBZF MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
CREBZF MUTATED 0 1 2 1 0 0 3
CREBZF WILD-TYPE 134 70 34 65 91 41 71

Figure S114.  Get High-res Image Gene #23: 'CREBZF MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'CREBZF MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.202 (Fisher's exact test), Q value = 0.71

Table S241.  Gene #23: 'CREBZF MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
CREBZF MUTATED 0 1 5 1
CREBZF WILD-TYPE 136 106 178 82
'CREBZF MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0137 (Fisher's exact test), Q value = 0.11

Table S242.  Gene #23: 'CREBZF MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
CREBZF MUTATED 0 6 1
CREBZF WILD-TYPE 222 178 102

Figure S115.  Get High-res Image Gene #23: 'CREBZF MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'CREBZF MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.116 (Fisher's exact test), Q value = 0.51

Table S243.  Gene #23: 'CREBZF MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
CREBZF MUTATED 1 1 5
CREBZF WILD-TYPE 183 161 154
'CREBZF MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0535 (Fisher's exact test), Q value = 0.31

Table S244.  Gene #23: 'CREBZF MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
CREBZF MUTATED 0 0 6 1
CREBZF WILD-TYPE 90 138 182 88
'FAM47C MUTATION STATUS' versus 'CN_CNMF'

P value = 0.307 (Fisher's exact test), Q value = 0.83

Table S245.  Gene #24: 'FAM47C MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
FAM47C MUTATED 3 5 10
FAM47C WILD-TYPE 166 115 211
'FAM47C MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S246.  Gene #24: 'FAM47C MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
FAM47C MUTATED 7 2 7 2
FAM47C WILD-TYPE 215 79 161 40
'FAM47C MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.463 (Fisher's exact test), Q value = 0.97

Table S247.  Gene #24: 'FAM47C MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
FAM47C MUTATED 1 3 5 6
FAM47C WILD-TYPE 90 92 120 109
'FAM47C MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.252 (Fisher's exact test), Q value = 0.77

Table S248.  Gene #24: 'FAM47C MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
FAM47C MUTATED 5 6 4
FAM47C WILD-TYPE 77 153 181
'FAM47C MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.278 (Fisher's exact test), Q value = 0.8

Table S249.  Gene #24: 'FAM47C MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
FAM47C MUTATED 2 3 5 8 0
FAM47C WILD-TYPE 130 106 104 125 30
'FAM47C MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0119 (Fisher's exact test), Q value = 0.1

Table S250.  Gene #24: 'FAM47C MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
FAM47C MUTATED 0 2 0 5 5 1 5
FAM47C WILD-TYPE 134 69 36 61 86 40 69

Figure S116.  Get High-res Image Gene #24: 'FAM47C MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'FAM47C MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.618 (Fisher's exact test), Q value = 1

Table S251.  Gene #24: 'FAM47C MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
FAM47C MUTATED 3 4 9 2
FAM47C WILD-TYPE 133 103 174 81
'FAM47C MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0926 (Fisher's exact test), Q value = 0.45

Table S252.  Gene #24: 'FAM47C MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
FAM47C MUTATED 5 11 2
FAM47C WILD-TYPE 217 173 101
'FAM47C MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00851 (Fisher's exact test), Q value = 0.077

Table S253.  Gene #24: 'FAM47C MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
FAM47C MUTATED 3 3 12
FAM47C WILD-TYPE 181 159 147

Figure S117.  Get High-res Image Gene #24: 'FAM47C MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'FAM47C MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00332 (Fisher's exact test), Q value = 0.037

Table S254.  Gene #24: 'FAM47C MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
FAM47C MUTATED 0 3 14 1
FAM47C WILD-TYPE 90 135 174 88

Figure S118.  Get High-res Image Gene #24: 'FAM47C MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'MYST4 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0244 (Fisher's exact test), Q value = 0.18

Table S255.  Gene #25: 'MYST4 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
MYST4 MUTATED 0 4 7
MYST4 WILD-TYPE 169 116 214

Figure S119.  Get High-res Image Gene #25: 'MYST4 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'MYST4 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.125 (Fisher's exact test), Q value = 0.54

Table S256.  Gene #25: 'MYST4 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
MYST4 MUTATED 2 2 7 0
MYST4 WILD-TYPE 220 79 161 42
'MYST4 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.128 (Fisher's exact test), Q value = 0.54

Table S257.  Gene #25: 'MYST4 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
MYST4 MUTATED 2 0 6 2
MYST4 WILD-TYPE 89 95 119 113
'MYST4 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.703 (Fisher's exact test), Q value = 1

Table S258.  Gene #25: 'MYST4 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
MYST4 MUTATED 1 3 6
MYST4 WILD-TYPE 81 156 179
'MYST4 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.268 (Fisher's exact test), Q value = 0.8

Table S259.  Gene #25: 'MYST4 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
MYST4 MUTATED 2 2 5 1 1
MYST4 WILD-TYPE 130 107 104 132 29
'MYST4 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.343 (Fisher's exact test), Q value = 0.85

Table S260.  Gene #25: 'MYST4 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
MYST4 MUTATED 2 1 2 0 4 1 1
MYST4 WILD-TYPE 132 70 34 66 87 40 73
'MYST4 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.201 (Fisher's exact test), Q value = 0.71

Table S261.  Gene #25: 'MYST4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
MYST4 MUTATED 1 3 3 4
MYST4 WILD-TYPE 135 104 180 79
'MYST4 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S262.  Gene #25: 'MYST4 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
MYST4 MUTATED 5 4 2
MYST4 WILD-TYPE 217 180 101
'MYST4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0624 (Fisher's exact test), Q value = 0.34

Table S263.  Gene #25: 'MYST4 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
MYST4 MUTATED 1 7 3
MYST4 WILD-TYPE 183 155 156
'MYST4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S264.  Gene #25: 'MYST4 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
MYST4 MUTATED 1 5 4 1
MYST4 WILD-TYPE 89 133 184 88
'MED9 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.175 (Fisher's exact test), Q value = 0.65

Table S265.  Gene #26: 'MED9 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
MED9 MUTATED 0 2 1
MED9 WILD-TYPE 169 118 220
'MED9 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.368 (Fisher's exact test), Q value = 0.89

Table S266.  Gene #26: 'MED9 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
MED9 MUTATED 1 0 1 1
MED9 WILD-TYPE 221 81 167 41
'MED9 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.336 (Fisher's exact test), Q value = 0.84

Table S267.  Gene #26: 'MED9 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
MED9 MUTATED 1 0 0 2
MED9 WILD-TYPE 90 95 125 113
'MED9 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.229 (Fisher's exact test), Q value = 0.74

Table S268.  Gene #26: 'MED9 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
MED9 MUTATED 1 2 0
MED9 WILD-TYPE 81 157 185
'MED9 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.218 (Fisher's exact test), Q value = 0.73

Table S269.  Gene #26: 'MED9 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
MED9 MUTATED 1 0 0 1 1
MED9 WILD-TYPE 131 109 109 132 29
'MED9 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.85 (Fisher's exact test), Q value = 1

Table S270.  Gene #26: 'MED9 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
MED9 MUTATED 1 1 0 0 0 0 1
MED9 WILD-TYPE 133 70 36 66 91 41 73
'MED9 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.877 (Fisher's exact test), Q value = 1

Table S271.  Gene #26: 'MED9 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
MED9 MUTATED 1 0 2 0
MED9 WILD-TYPE 135 107 181 83
'MED9 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S272.  Gene #26: 'MED9 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
MED9 MUTATED 1 1 1
MED9 WILD-TYPE 221 183 102
'MED9 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S273.  Gene #26: 'MED9 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
MED9 MUTATED 2 0 1
MED9 WILD-TYPE 182 162 158
'MED9 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S274.  Gene #26: 'MED9 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
MED9 MUTATED 0 0 2 1
MED9 WILD-TYPE 90 138 186 88
'IRS4 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0824 (Fisher's exact test), Q value = 0.42

Table S275.  Gene #27: 'IRS4 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
IRS4 MUTATED 2 4 1
IRS4 WILD-TYPE 167 116 220
'IRS4 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.377 (Fisher's exact test), Q value = 0.9

Table S276.  Gene #27: 'IRS4 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
IRS4 MUTATED 3 2 1 1
IRS4 WILD-TYPE 219 79 167 41
'IRS4 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S277.  Gene #27: 'IRS4 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
IRS4 MUTATED 0 2 2 2
IRS4 WILD-TYPE 91 93 123 113
'IRS4 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.579 (Fisher's exact test), Q value = 1

Table S278.  Gene #27: 'IRS4 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
IRS4 MUTATED 1 1 4
IRS4 WILD-TYPE 81 158 181
'IRS4 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.603 (Fisher's exact test), Q value = 1

Table S279.  Gene #27: 'IRS4 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
IRS4 MUTATED 3 2 0 2 0
IRS4 WILD-TYPE 129 107 109 131 30
'IRS4 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.137 (Fisher's exact test), Q value = 0.58

Table S280.  Gene #27: 'IRS4 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
IRS4 MUTATED 3 0 1 1 0 2 0
IRS4 WILD-TYPE 131 71 35 65 91 39 74
'IRS4 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.415 (Fisher's exact test), Q value = 0.94

Table S281.  Gene #27: 'IRS4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
IRS4 MUTATED 1 3 3 0
IRS4 WILD-TYPE 135 104 180 83
'IRS4 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.692 (Fisher's exact test), Q value = 1

Table S282.  Gene #27: 'IRS4 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
IRS4 MUTATED 2 3 2
IRS4 WILD-TYPE 220 181 101
'IRS4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.269 (Fisher's exact test), Q value = 0.8

Table S283.  Gene #27: 'IRS4 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
IRS4 MUTATED 1 2 4
IRS4 WILD-TYPE 183 160 155
'IRS4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S284.  Gene #27: 'IRS4 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
IRS4 MUTATED 1 2 3 1
IRS4 WILD-TYPE 89 136 185 88
'HTRA2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0298 (Fisher's exact test), Q value = 0.21

Table S285.  Gene #28: 'HTRA2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
HTRA2 MUTATED 4 1 0
HTRA2 WILD-TYPE 165 119 221

Figure S120.  Get High-res Image Gene #28: 'HTRA2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'HTRA2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.42 (Fisher's exact test), Q value = 0.95

Table S286.  Gene #28: 'HTRA2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
HTRA2 MUTATED 3 0 1 1
HTRA2 WILD-TYPE 219 81 167 41
'HTRA2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S287.  Gene #28: 'HTRA2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
HTRA2 MUTATED 1 1 1 1
HTRA2 WILD-TYPE 90 94 124 114
'HTRA2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S288.  Gene #28: 'HTRA2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
HTRA2 MUTATED 1 1 2
HTRA2 WILD-TYPE 81 158 183
'HTRA2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.953 (Fisher's exact test), Q value = 1

Table S289.  Gene #28: 'HTRA2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
HTRA2 MUTATED 2 1 1 1 0
HTRA2 WILD-TYPE 130 108 108 132 30
'HTRA2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.639 (Fisher's exact test), Q value = 1

Table S290.  Gene #28: 'HTRA2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
HTRA2 MUTATED 2 1 1 0 0 0 1
HTRA2 WILD-TYPE 132 70 35 66 91 41 73
'HTRA2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.348 (Fisher's exact test), Q value = 0.86

Table S291.  Gene #28: 'HTRA2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
HTRA2 MUTATED 3 0 1 1
HTRA2 WILD-TYPE 133 107 182 82
'HTRA2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.724 (Fisher's exact test), Q value = 1

Table S292.  Gene #28: 'HTRA2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
HTRA2 MUTATED 3 2 0
HTRA2 WILD-TYPE 219 182 103
'HTRA2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S293.  Gene #28: 'HTRA2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
HTRA2 MUTATED 2 2 0
HTRA2 WILD-TYPE 182 160 159
'HTRA2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.473 (Fisher's exact test), Q value = 0.97

Table S294.  Gene #28: 'HTRA2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
HTRA2 MUTATED 2 1 1 0
HTRA2 WILD-TYPE 88 137 187 89
'NRAS MUTATION STATUS' versus 'CN_CNMF'

P value = 0.565 (Fisher's exact test), Q value = 1

Table S295.  Gene #29: 'NRAS MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
NRAS MUTATED 1 0 3
NRAS WILD-TYPE 168 120 218
'NRAS MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.508 (Fisher's exact test), Q value = 1

Table S296.  Gene #29: 'NRAS MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
NRAS MUTATED 1 0 3 0
NRAS WILD-TYPE 221 81 165 42
'NRAS MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S297.  Gene #29: 'NRAS MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
NRAS MUTATED 1 1 1 1
NRAS WILD-TYPE 90 94 124 114
'NRAS MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.325 (Fisher's exact test), Q value = 0.83

Table S298.  Gene #29: 'NRAS MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
NRAS MUTATED 2 1 1
NRAS WILD-TYPE 80 158 184
'NRAS MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.418 (Fisher's exact test), Q value = 0.94

Table S299.  Gene #29: 'NRAS MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
NRAS MUTATED 0 0 2 2 0
NRAS WILD-TYPE 132 109 107 131 30
'NRAS MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.107 (Fisher's exact test), Q value = 0.5

Table S300.  Gene #29: '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 134 71 36 66 91 41 74
NRAS MUTATED 0 0 1 1 0 1 1
NRAS WILD-TYPE 134 71 35 65 91 40 73
'NRAS MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.305 (Fisher's exact test), Q value = 0.83

Table S301.  Gene #29: 'NRAS MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
NRAS MUTATED 0 0 3 1
NRAS WILD-TYPE 136 107 180 82
'NRAS MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S302.  Gene #29: 'NRAS MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
NRAS MUTATED 1 2 1
NRAS WILD-TYPE 221 182 102
'NRAS MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.334 (Fisher's exact test), Q value = 0.84

Table S303.  Gene #29: 'NRAS MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
NRAS MUTATED 0 2 2
NRAS WILD-TYPE 184 160 157
'NRAS MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.759 (Fisher's exact test), Q value = 1

Table S304.  Gene #29: 'NRAS MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
NRAS MUTATED 0 2 2 0
NRAS WILD-TYPE 90 136 186 89
'TNRC18 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.908 (Fisher's exact test), Q value = 1

Table S305.  Gene #30: 'TNRC18 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
TNRC18 MUTATED 2 2 5
TNRC18 WILD-TYPE 167 118 216
'TNRC18 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.232 (Fisher's exact test), Q value = 0.74

Table S306.  Gene #30: 'TNRC18 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
TNRC18 MUTATED 4 3 1 1
TNRC18 WILD-TYPE 218 78 167 41
'TNRC18 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.444 (Fisher's exact test), Q value = 0.96

Table S307.  Gene #30: 'TNRC18 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
TNRC18 MUTATED 0 1 3 3
TNRC18 WILD-TYPE 91 94 122 112
'TNRC18 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.542 (Fisher's exact test), Q value = 1

Table S308.  Gene #30: 'TNRC18 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
TNRC18 MUTATED 0 3 4
TNRC18 WILD-TYPE 82 156 181
'TNRC18 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.191 (Fisher's exact test), Q value = 0.68

Table S309.  Gene #30: 'TNRC18 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
TNRC18 MUTATED 1 3 0 4 1
TNRC18 WILD-TYPE 131 106 109 129 29
'TNRC18 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S310.  Gene #30: 'TNRC18 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
TNRC18 MUTATED 2 2 0 2 0 1 2
TNRC18 WILD-TYPE 132 69 36 64 91 40 72
'TNRC18 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S311.  Gene #30: 'TNRC18 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
TNRC18 MUTATED 3 2 4 0
TNRC18 WILD-TYPE 133 105 179 83
'TNRC18 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.373 (Fisher's exact test), Q value = 0.9

Table S312.  Gene #30: 'TNRC18 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
TNRC18 MUTATED 2 4 3
TNRC18 WILD-TYPE 220 180 100
'TNRC18 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.822 (Fisher's exact test), Q value = 1

Table S313.  Gene #30: 'TNRC18 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
TNRC18 MUTATED 2 3 3
TNRC18 WILD-TYPE 182 159 156
'TNRC18 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.578 (Fisher's exact test), Q value = 1

Table S314.  Gene #30: 'TNRC18 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
TNRC18 MUTATED 0 2 4 2
TNRC18 WILD-TYPE 90 136 184 87
'ZNF709 MUTATION STATUS' versus 'CN_CNMF'

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

Table S315.  Gene #31: 'ZNF709 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
ZNF709 MUTATED 2 0 2
ZNF709 WILD-TYPE 167 120 219
'ZNF709 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S316.  Gene #31: 'ZNF709 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
ZNF709 MUTATED 2 0 2 0
ZNF709 WILD-TYPE 220 81 166 42
'ZNF709 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S317.  Gene #31: 'ZNF709 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
ZNF709 MUTATED 1 1 1 1
ZNF709 WILD-TYPE 90 94 124 114
'ZNF709 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.678 (Fisher's exact test), Q value = 1

Table S318.  Gene #31: 'ZNF709 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
ZNF709 MUTATED 1 2 1
ZNF709 WILD-TYPE 81 157 184
'ZNF709 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.219 (Fisher's exact test), Q value = 0.73

Table S319.  Gene #31: 'ZNF709 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
ZNF709 MUTATED 1 0 0 2 1
ZNF709 WILD-TYPE 131 109 109 131 29
'ZNF709 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.23 (Fisher's exact test), Q value = 0.74

Table S320.  Gene #31: 'ZNF709 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
ZNF709 MUTATED 0 0 0 0 2 1 1
ZNF709 WILD-TYPE 134 71 36 66 89 40 73
'ZNF709 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S321.  Gene #31: 'ZNF709 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
ZNF709 MUTATED 1 1 2 0
ZNF709 WILD-TYPE 135 106 181 83
'ZNF709 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.682 (Fisher's exact test), Q value = 1

Table S322.  Gene #31: 'ZNF709 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
ZNF709 MUTATED 1 2 1
ZNF709 WILD-TYPE 221 182 102
'ZNF709 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.272 (Fisher's exact test), Q value = 0.8

Table S323.  Gene #31: 'ZNF709 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
ZNF709 MUTATED 3 0 1
ZNF709 WILD-TYPE 181 162 158
'ZNF709 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S324.  Gene #31: 'ZNF709 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
ZNF709 MUTATED 1 1 2 0
ZNF709 WILD-TYPE 89 137 186 89
'PLXNA3 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.211 (Fisher's exact test), Q value = 0.72

Table S325.  Gene #32: 'PLXNA3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
PLXNA3 MUTATED 1 4 4
PLXNA3 WILD-TYPE 168 116 217
'PLXNA3 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.272 (Fisher's exact test), Q value = 0.8

Table S326.  Gene #32: 'PLXNA3 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
PLXNA3 MUTATED 2 3 4 0
PLXNA3 WILD-TYPE 220 78 164 42
'PLXNA3 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.158 (Fisher's exact test), Q value = 0.63

Table S327.  Gene #32: 'PLXNA3 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
PLXNA3 MUTATED 2 2 5 0
PLXNA3 WILD-TYPE 89 93 120 115
'PLXNA3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.217 (Fisher's exact test), Q value = 0.73

Table S328.  Gene #32: 'PLXNA3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
PLXNA3 MUTATED 2 1 6
PLXNA3 WILD-TYPE 80 158 179
'PLXNA3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.199 (Fisher's exact test), Q value = 0.7

Table S329.  Gene #32: 'PLXNA3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
PLXNA3 MUTATED 2 3 3 0 1
PLXNA3 WILD-TYPE 130 106 106 133 29
'PLXNA3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.31 (Fisher's exact test), Q value = 0.83

Table S330.  Gene #32: 'PLXNA3 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
PLXNA3 MUTATED 2 2 0 0 4 1 0
PLXNA3 WILD-TYPE 132 69 36 66 87 40 74
'PLXNA3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.353 (Fisher's exact test), Q value = 0.87

Table S331.  Gene #32: 'PLXNA3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
PLXNA3 MUTATED 3 3 1 2
PLXNA3 WILD-TYPE 133 104 182 81
'PLXNA3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.227 (Fisher's exact test), Q value = 0.73

Table S332.  Gene #32: 'PLXNA3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
PLXNA3 MUTATED 5 1 3
PLXNA3 WILD-TYPE 217 183 100
'PLXNA3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.482 (Fisher's exact test), Q value = 0.98

Table S333.  Gene #32: 'PLXNA3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
PLXNA3 MUTATED 4 4 1
PLXNA3 WILD-TYPE 180 158 158
'PLXNA3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.877 (Fisher's exact test), Q value = 1

Table S334.  Gene #32: 'PLXNA3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
PLXNA3 MUTATED 1 3 3 2
PLXNA3 WILD-TYPE 89 135 185 87
'ROBO3 MUTATION STATUS' versus 'CN_CNMF'

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

Table S335.  Gene #33: 'ROBO3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
ROBO3 MUTATED 2 0 3
ROBO3 WILD-TYPE 167 120 218
'ROBO3 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S336.  Gene #33: 'ROBO3 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
ROBO3 MUTATED 3 0 2 0
ROBO3 WILD-TYPE 219 81 166 42
'ROBO3 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S337.  Gene #33: 'ROBO3 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
ROBO3 MUTATED 1 0 2 1
ROBO3 WILD-TYPE 90 95 123 114
'ROBO3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.538 (Fisher's exact test), Q value = 1

Table S338.  Gene #33: 'ROBO3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
ROBO3 MUTATED 0 1 3
ROBO3 WILD-TYPE 82 158 182
'ROBO3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.828 (Fisher's exact test), Q value = 1

Table S339.  Gene #33: 'ROBO3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
ROBO3 MUTATED 2 0 1 2 0
ROBO3 WILD-TYPE 130 109 108 131 30
'ROBO3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S340.  Gene #33: 'ROBO3 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
ROBO3 MUTATED 2 0 1 1 1 0 0
ROBO3 WILD-TYPE 132 71 35 65 90 41 74
'ROBO3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.403 (Fisher's exact test), Q value = 0.93

Table S341.  Gene #33: 'ROBO3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
ROBO3 MUTATED 1 0 2 2
ROBO3 WILD-TYPE 135 107 181 81
'ROBO3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.287 (Fisher's exact test), Q value = 0.82

Table S342.  Gene #33: 'ROBO3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
ROBO3 MUTATED 4 1 0
ROBO3 WILD-TYPE 218 183 103
'ROBO3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S343.  Gene #33: 'ROBO3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
ROBO3 MUTATED 2 2 1
ROBO3 WILD-TYPE 182 160 158
'ROBO3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S344.  Gene #33: 'ROBO3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
ROBO3 MUTATED 1 2 2 0
ROBO3 WILD-TYPE 89 136 186 89
'RB1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.00022 (Fisher's exact test), Q value = 0.0033

Table S345.  Gene #34: 'RB1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
RB1 MUTATED 0 6 0
RB1 WILD-TYPE 169 114 221

Figure S121.  Get High-res Image Gene #34: 'RB1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'RB1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.00077 (Fisher's exact test), Q value = 0.01

Table S346.  Gene #34: 'RB1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
RB1 MUTATED 0 5 1 0
RB1 WILD-TYPE 222 76 167 42

Figure S122.  Get High-res Image Gene #34: 'RB1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'RB1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.872 (Fisher's exact test), Q value = 1

Table S347.  Gene #34: 'RB1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
RB1 MUTATED 1 2 1 1
RB1 WILD-TYPE 90 93 124 114
'RB1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.846 (Fisher's exact test), Q value = 1

Table S348.  Gene #34: 'RB1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
RB1 MUTATED 1 1 3
RB1 WILD-TYPE 81 158 182
'RB1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0166 (Fisher's exact test), Q value = 0.13

Table S349.  Gene #34: 'RB1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
RB1 MUTATED 0 4 1 0 1
RB1 WILD-TYPE 132 105 108 133 29

Figure S123.  Get High-res Image Gene #34: 'RB1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'RB1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0968 (Fisher's exact test), Q value = 0.46

Table S350.  Gene #34: '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 134 71 36 66 91 41 74
RB1 MUTATED 0 3 0 1 1 1 0
RB1 WILD-TYPE 134 68 36 65 90 40 74
'RB1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.601 (Fisher's exact test), Q value = 1

Table S351.  Gene #34: 'RB1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
RB1 MUTATED 3 1 1 1
RB1 WILD-TYPE 133 106 182 82
'RB1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0327 (Fisher's exact test), Q value = 0.22

Table S352.  Gene #34: 'RB1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
RB1 MUTATED 1 1 4
RB1 WILD-TYPE 221 183 99

Figure S124.  Get High-res Image Gene #34: 'RB1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'RB1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.781 (Fisher's exact test), Q value = 1

Table S353.  Gene #34: 'RB1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
RB1 MUTATED 3 1 2
RB1 WILD-TYPE 181 161 157
'RB1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.246 (Fisher's exact test), Q value = 0.76

Table S354.  Gene #34: 'RB1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
RB1 MUTATED 0 1 2 3
RB1 WILD-TYPE 90 137 186 86
'SRPX MUTATION STATUS' versus 'CN_CNMF'

P value = 0.224 (Fisher's exact test), Q value = 0.73

Table S355.  Gene #35: 'SRPX MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
SRPX MUTATED 0 2 2
SRPX WILD-TYPE 169 118 219
'SRPX MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.105 (Fisher's exact test), Q value = 0.49

Table S356.  Gene #35: 'SRPX MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
SRPX MUTATED 0 2 2 0
SRPX WILD-TYPE 222 79 166 42
'SRPX MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.675 (Fisher's exact test), Q value = 1

Table S357.  Gene #35: 'SRPX MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
SRPX MUTATED 1 1 2 0
SRPX WILD-TYPE 90 94 123 115
'SRPX MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.251 (Fisher's exact test), Q value = 0.77

Table S358.  Gene #35: 'SRPX MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
SRPX MUTATED 1 0 3
SRPX WILD-TYPE 81 159 182
'SRPX MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.206 (Fisher's exact test), Q value = 0.71

Table S359.  Gene #35: 'SRPX MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
SRPX MUTATED 0 2 2 0 0
SRPX WILD-TYPE 132 107 107 133 30
'SRPX MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.144 (Fisher's exact test), Q value = 0.6

Table S360.  Gene #35: '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 134 71 36 66 91 41 74
SRPX MUTATED 0 2 1 0 1 0 0
SRPX WILD-TYPE 134 69 35 66 90 41 74
'SRPX MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.276 (Fisher's exact test), Q value = 0.8

Table S361.  Gene #35: 'SRPX MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
SRPX MUTATED 2 1 0 1
SRPX WILD-TYPE 134 106 183 82
'SRPX MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.198 (Fisher's exact test), Q value = 0.7

Table S362.  Gene #35: 'SRPX MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
SRPX MUTATED 2 0 2
SRPX WILD-TYPE 220 184 101
'SRPX MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.395 (Fisher's exact test), Q value = 0.91

Table S363.  Gene #35: 'SRPX MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
SRPX MUTATED 3 1 0
SRPX WILD-TYPE 181 161 159
'SRPX MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0625 (Fisher's exact test), Q value = 0.34

Table S364.  Gene #35: 'SRPX MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
SRPX MUTATED 0 2 0 2
SRPX WILD-TYPE 90 136 188 87
'PDGFRA MUTATION STATUS' versus 'CN_CNMF'

P value = 0.32 (Fisher's exact test), Q value = 0.83

Table S365.  Gene #36: 'PDGFRA MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
PDGFRA MUTATED 5 3 2
PDGFRA WILD-TYPE 164 117 219
'PDGFRA MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.063 (Fisher's exact test), Q value = 0.35

Table S366.  Gene #36: 'PDGFRA MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
PDGFRA MUTATED 3 5 2 0
PDGFRA WILD-TYPE 219 76 166 42
'PDGFRA MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.127 (Fisher's exact test), Q value = 0.54

Table S367.  Gene #36: 'PDGFRA MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
PDGFRA MUTATED 2 4 2 0
PDGFRA WILD-TYPE 89 91 123 115
'PDGFRA MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.227 (Fisher's exact test), Q value = 0.73

Table S368.  Gene #36: 'PDGFRA MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
PDGFRA MUTATED 1 1 6
PDGFRA WILD-TYPE 81 158 179
'PDGFRA MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.00654 (Fisher's exact test), Q value = 0.062

Table S369.  Gene #36: 'PDGFRA MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
PDGFRA MUTATED 1 7 2 0 0
PDGFRA WILD-TYPE 131 102 107 133 30

Figure S125.  Get High-res Image Gene #36: 'PDGFRA MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'PDGFRA MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00011 (Fisher's exact test), Q value = 0.0018

Table S370.  Gene #36: 'PDGFRA MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
PDGFRA MUTATED 0 3 1 0 1 5 0
PDGFRA WILD-TYPE 134 68 35 66 90 36 74

Figure S126.  Get High-res Image Gene #36: 'PDGFRA MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'PDGFRA MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.00056 (Fisher's exact test), Q value = 0.008

Table S371.  Gene #36: 'PDGFRA MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
PDGFRA MUTATED 1 7 0 2
PDGFRA WILD-TYPE 135 100 183 81

Figure S127.  Get High-res Image Gene #36: 'PDGFRA MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'PDGFRA MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00155 (Fisher's exact test), Q value = 0.019

Table S372.  Gene #36: 'PDGFRA MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
PDGFRA MUTATED 2 1 7
PDGFRA WILD-TYPE 220 183 96

Figure S128.  Get High-res Image Gene #36: 'PDGFRA MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'PDGFRA MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S373.  Gene #36: 'PDGFRA MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
PDGFRA MUTATED 3 3 4
PDGFRA WILD-TYPE 181 159 155
'PDGFRA MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.184 (Fisher's exact test), Q value = 0.67

Table S374.  Gene #36: 'PDGFRA MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
PDGFRA MUTATED 0 2 4 4
PDGFRA WILD-TYPE 90 136 184 85
'ZNF512B MUTATION STATUS' versus 'CN_CNMF'

P value = 0.453 (Fisher's exact test), Q value = 0.96

Table S375.  Gene #37: 'ZNF512B MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
ZNF512B MUTATED 3 1 1
ZNF512B WILD-TYPE 166 119 220
'ZNF512B MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.817 (Fisher's exact test), Q value = 1

Table S376.  Gene #37: 'ZNF512B MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
ZNF512B MUTATED 3 1 1 0
ZNF512B WILD-TYPE 219 80 167 42
'ZNF512B MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S377.  Gene #37: 'ZNF512B MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
ZNF512B MUTATED 1 1 1 2
ZNF512B WILD-TYPE 90 94 124 113
'ZNF512B MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.429 (Fisher's exact test), Q value = 0.95

Table S378.  Gene #37: 'ZNF512B MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
ZNF512B MUTATED 2 1 2
ZNF512B WILD-TYPE 80 158 183
'ZNF512B MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S379.  Gene #37: 'ZNF512B MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
ZNF512B MUTATED 1 1 1 2 0
ZNF512B WILD-TYPE 131 108 108 131 30
'ZNF512B MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.851 (Fisher's exact test), Q value = 1

Table S380.  Gene #37: 'ZNF512B MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
ZNF512B MUTATED 1 0 0 1 1 1 1
ZNF512B WILD-TYPE 133 71 36 65 90 40 73
'ZNF512B MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S381.  Gene #37: 'ZNF512B MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
ZNF512B MUTATED 1 1 2 1
ZNF512B WILD-TYPE 135 106 181 82
'ZNF512B MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S382.  Gene #37: 'ZNF512B MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
ZNF512B MUTATED 2 2 1
ZNF512B WILD-TYPE 220 182 102
'ZNF512B MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.456 (Fisher's exact test), Q value = 0.96

Table S383.  Gene #37: 'ZNF512B MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
ZNF512B MUTATED 1 1 3
ZNF512B WILD-TYPE 183 161 156
'ZNF512B MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.248 (Fisher's exact test), Q value = 0.77

Table S384.  Gene #37: 'ZNF512B MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
ZNF512B MUTATED 1 0 4 0
ZNF512B WILD-TYPE 89 138 184 89
'ZMIZ1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0513 (Fisher's exact test), Q value = 0.3

Table S385.  Gene #38: 'ZMIZ1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
ZMIZ1 MUTATED 0 3 6
ZMIZ1 WILD-TYPE 169 117 215
'ZMIZ1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.329 (Fisher's exact test), Q value = 0.83

Table S386.  Gene #38: 'ZMIZ1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
ZMIZ1 MUTATED 2 2 5 0
ZMIZ1 WILD-TYPE 220 79 163 42
'ZMIZ1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.181 (Fisher's exact test), Q value = 0.67

Table S387.  Gene #38: 'ZMIZ1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
ZMIZ1 MUTATED 2 0 2 5
ZMIZ1 WILD-TYPE 89 95 123 110
'ZMIZ1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.242 (Fisher's exact test), Q value = 0.76

Table S388.  Gene #38: 'ZMIZ1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
ZMIZ1 MUTATED 1 6 2
ZMIZ1 WILD-TYPE 81 153 183
'ZMIZ1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S389.  Gene #38: 'ZMIZ1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
ZMIZ1 MUTATED 1 1 3 3 1
ZMIZ1 WILD-TYPE 131 108 106 130 29
'ZMIZ1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.298 (Fisher's exact test), Q value = 0.83

Table S390.  Gene #38: 'ZMIZ1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
ZMIZ1 MUTATED 1 0 0 2 4 1 1
ZMIZ1 WILD-TYPE 133 71 36 64 87 40 73
'ZMIZ1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.478 (Fisher's exact test), Q value = 0.97

Table S391.  Gene #38: 'ZMIZ1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
ZMIZ1 MUTATED 1 2 3 3
ZMIZ1 WILD-TYPE 135 105 180 80
'ZMIZ1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.678 (Fisher's exact test), Q value = 1

Table S392.  Gene #38: 'ZMIZ1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
ZMIZ1 MUTATED 5 2 2
ZMIZ1 WILD-TYPE 217 182 101
'ZMIZ1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0188 (Fisher's exact test), Q value = 0.15

Table S393.  Gene #38: 'ZMIZ1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
ZMIZ1 MUTATED 0 6 3
ZMIZ1 WILD-TYPE 184 156 156

Figure S129.  Get High-res Image Gene #38: 'ZMIZ1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'ZMIZ1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.421 (Fisher's exact test), Q value = 0.95

Table S394.  Gene #38: 'ZMIZ1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
ZMIZ1 MUTATED 0 4 4 1
ZMIZ1 WILD-TYPE 90 134 184 88
'TMEM216 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.251 (Fisher's exact test), Q value = 0.77

Table S395.  Gene #39: 'TMEM216 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
TMEM216 MUTATED 2 1 0
TMEM216 WILD-TYPE 167 119 221
'TMEM216 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S396.  Gene #39: 'TMEM216 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
TMEM216 MUTATED 2 0 1 0
TMEM216 WILD-TYPE 220 81 167 42
'TMEM216 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.708 (Fisher's exact test), Q value = 1

Table S397.  Gene #39: 'TMEM216 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
TMEM216 MUTATED 1 1 0 1
TMEM216 WILD-TYPE 90 94 125 114
'TMEM216 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S398.  Gene #39: 'TMEM216 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
TMEM216 MUTATED 0 2 1
TMEM216 WILD-TYPE 82 157 184
'TMEM216 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S399.  Gene #39: 'TMEM216 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
TMEM216 MUTATED 1 0 1 1 0
TMEM216 WILD-TYPE 131 109 108 132 30
'TMEM216 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.443 (Fisher's exact test), Q value = 0.96

Table S400.  Gene #39: 'TMEM216 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
TMEM216 MUTATED 1 0 1 0 0 0 1
TMEM216 WILD-TYPE 133 71 35 66 91 41 73
'TMEM216 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.52 (Fisher's exact test), Q value = 1

Table S401.  Gene #39: 'TMEM216 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
TMEM216 MUTATED 0 1 1 1
TMEM216 WILD-TYPE 136 106 182 82
'TMEM216 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S402.  Gene #39: 'TMEM216 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
TMEM216 MUTATED 1 2 0
TMEM216 WILD-TYPE 221 182 103
'TMEM216 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.3 (Fisher's exact test), Q value = 0.83

Table S403.  Gene #39: 'TMEM216 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
TMEM216 MUTATED 0 2 1
TMEM216 WILD-TYPE 184 160 158
'TMEM216 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S404.  Gene #39: 'TMEM216 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
TMEM216 MUTATED 0 2 1 0
TMEM216 WILD-TYPE 90 136 187 89
'ARID2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.859 (Fisher's exact test), Q value = 1

Table S405.  Gene #40: 'ARID2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
ARID2 MUTATED 4 3 4
ARID2 WILD-TYPE 165 117 217
'ARID2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.264 (Fisher's exact test), Q value = 0.79

Table S406.  Gene #40: 'ARID2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
ARID2 MUTATED 5 4 2 0
ARID2 WILD-TYPE 217 77 166 42
'ARID2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.783 (Fisher's exact test), Q value = 1

Table S407.  Gene #40: 'ARID2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
ARID2 MUTATED 1 3 2 2
ARID2 WILD-TYPE 90 92 123 113
'ARID2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S408.  Gene #40: 'ARID2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
ARID2 MUTATED 1 2 5
ARID2 WILD-TYPE 81 157 180
'ARID2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.463 (Fisher's exact test), Q value = 0.97

Table S409.  Gene #40: 'ARID2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
ARID2 MUTATED 3 4 2 1 1
ARID2 WILD-TYPE 129 105 107 132 29
'ARID2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.651 (Fisher's exact test), Q value = 1

Table S410.  Gene #40: '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 134 71 36 66 91 41 74
ARID2 MUTATED 3 2 1 1 2 2 0
ARID2 WILD-TYPE 131 69 35 65 89 39 74
'ARID2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.603 (Fisher's exact test), Q value = 1

Table S411.  Gene #40: 'ARID2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
ARID2 MUTATED 2 4 3 1
ARID2 WILD-TYPE 134 103 180 82
'ARID2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.348 (Fisher's exact test), Q value = 0.86

Table S412.  Gene #40: 'ARID2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
ARID2 MUTATED 3 3 4
ARID2 WILD-TYPE 219 181 99
'ARID2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.484 (Fisher's exact test), Q value = 0.98

Table S413.  Gene #40: 'ARID2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
ARID2 MUTATED 3 2 5
ARID2 WILD-TYPE 181 160 154
'ARID2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.458 (Fisher's exact test), Q value = 0.96

Table S414.  Gene #40: 'ARID2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
ARID2 MUTATED 1 1 5 3
ARID2 WILD-TYPE 89 137 183 86
'RBPJ MUTATION STATUS' versus 'CN_CNMF'

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

Table S415.  Gene #41: 'RBPJ MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
RBPJ MUTATED 2 2 3
RBPJ WILD-TYPE 167 118 218
'RBPJ MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.181 (Fisher's exact test), Q value = 0.67

Table S416.  Gene #41: 'RBPJ MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
RBPJ MUTATED 1 1 5 0
RBPJ WILD-TYPE 221 80 163 42
'RBPJ MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.108 (Fisher's exact test), Q value = 0.5

Table S417.  Gene #41: 'RBPJ MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
RBPJ MUTATED 0 3 2 0
RBPJ WILD-TYPE 91 92 123 115
'RBPJ MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0514 (Fisher's exact test), Q value = 0.3

Table S418.  Gene #41: 'RBPJ MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
RBPJ MUTATED 0 0 5
RBPJ WILD-TYPE 82 159 180
'RBPJ MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.435 (Fisher's exact test), Q value = 0.96

Table S419.  Gene #41: 'RBPJ MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
RBPJ MUTATED 0 2 3 2 0
RBPJ WILD-TYPE 132 107 106 131 30
'RBPJ MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 7e-05 (Fisher's exact test), Q value = 0.0012

Table S420.  Gene #41: 'RBPJ MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
RBPJ MUTATED 0 0 4 0 1 2 0
RBPJ WILD-TYPE 134 71 32 66 90 39 74

Figure S130.  Get High-res Image Gene #41: 'RBPJ MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'RBPJ MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.33 (Fisher's exact test), Q value = 0.83

Table S421.  Gene #41: 'RBPJ MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
RBPJ MUTATED 0 2 4 1
RBPJ WILD-TYPE 136 105 179 82
'RBPJ MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0282 (Fisher's exact test), Q value = 0.2

Table S422.  Gene #41: 'RBPJ MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
RBPJ MUTATED 0 5 2
RBPJ WILD-TYPE 222 179 101

Figure S131.  Get High-res Image Gene #41: 'RBPJ MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'RBPJ MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.114 (Fisher's exact test), Q value = 0.51

Table S423.  Gene #41: 'RBPJ MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
RBPJ MUTATED 1 1 5
RBPJ WILD-TYPE 183 161 154
'RBPJ MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.446 (Fisher's exact test), Q value = 0.96

Table S424.  Gene #41: 'RBPJ MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
RBPJ MUTATED 0 1 4 2
RBPJ WILD-TYPE 90 137 184 87
'CUL4B MUTATION STATUS' versus 'CN_CNMF'

P value = 0.296 (Fisher's exact test), Q value = 0.83

Table S425.  Gene #42: 'CUL4B MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
CUL4B MUTATED 1 3 6
CUL4B WILD-TYPE 168 117 215
'CUL4B MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0464 (Fisher's exact test), Q value = 0.28

Table S426.  Gene #42: 'CUL4B MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
CUL4B MUTATED 2 5 3 0
CUL4B WILD-TYPE 220 76 165 42

Figure S132.  Get High-res Image Gene #42: 'CUL4B MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'CUL4B MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.277 (Fisher's exact test), Q value = 0.8

Table S427.  Gene #42: 'CUL4B MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
CUL4B MUTATED 2 3 2 0
CUL4B WILD-TYPE 89 92 123 115
'CUL4B MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.368 (Fisher's exact test), Q value = 0.89

Table S428.  Gene #42: 'CUL4B MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
CUL4B MUTATED 1 1 5
CUL4B WILD-TYPE 81 158 180
'CUL4B MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0915 (Fisher's exact test), Q value = 0.45

Table S429.  Gene #42: 'CUL4B MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
CUL4B MUTATED 1 6 2 1 0
CUL4B WILD-TYPE 131 103 107 132 30
'CUL4B MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0708 (Fisher's exact test), Q value = 0.38

Table S430.  Gene #42: 'CUL4B MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
CUL4B MUTATED 1 3 1 0 1 3 1
CUL4B WILD-TYPE 133 68 35 66 90 38 73
'CUL4B MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.19 (Fisher's exact test), Q value = 0.68

Table S431.  Gene #42: 'CUL4B MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
CUL4B MUTATED 1 5 3 1
CUL4B WILD-TYPE 135 102 180 82
'CUL4B MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00715 (Fisher's exact test), Q value = 0.067

Table S432.  Gene #42: 'CUL4B MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
CUL4B MUTATED 1 3 6
CUL4B WILD-TYPE 221 181 97

Figure S133.  Get High-res Image Gene #42: 'CUL4B MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'CUL4B MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S433.  Gene #42: 'CUL4B MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
CUL4B MUTATED 4 3 3
CUL4B WILD-TYPE 180 159 156
'CUL4B MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.379 (Fisher's exact test), Q value = 0.91

Table S434.  Gene #42: 'CUL4B MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
CUL4B MUTATED 1 2 3 4
CUL4B WILD-TYPE 89 136 185 85
'SLC6A3 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.7 (Fisher's exact test), Q value = 1

Table S435.  Gene #43: 'SLC6A3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
SLC6A3 MUTATED 3 3 3
SLC6A3 WILD-TYPE 166 117 218
'SLC6A3 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.877 (Fisher's exact test), Q value = 1

Table S436.  Gene #43: 'SLC6A3 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
SLC6A3 MUTATED 4 2 3 0
SLC6A3 WILD-TYPE 218 79 165 42
'SLC6A3 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.323 (Fisher's exact test), Q value = 0.83

Table S437.  Gene #43: 'SLC6A3 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
SLC6A3 MUTATED 0 2 4 1
SLC6A3 WILD-TYPE 91 93 121 114
'SLC6A3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.00972 (Fisher's exact test), Q value = 0.086

Table S438.  Gene #43: 'SLC6A3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
SLC6A3 MUTATED 0 0 7
SLC6A3 WILD-TYPE 82 159 178

Figure S134.  Get High-res Image Gene #43: 'SLC6A3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'SLC6A3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.74 (Fisher's exact test), Q value = 1

Table S439.  Gene #43: 'SLC6A3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
SLC6A3 MUTATED 3 2 3 1 0
SLC6A3 WILD-TYPE 129 107 106 132 30
'SLC6A3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.487 (Fisher's exact test), Q value = 0.98

Table S440.  Gene #43: 'SLC6A3 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
SLC6A3 MUTATED 3 1 2 1 1 1 0
SLC6A3 WILD-TYPE 131 70 34 65 90 40 74
'SLC6A3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.173 (Fisher's exact test), Q value = 0.65

Table S441.  Gene #43: 'SLC6A3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
SLC6A3 MUTATED 2 4 1 2
SLC6A3 WILD-TYPE 134 103 182 81
'SLC6A3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.506 (Fisher's exact test), Q value = 1

Table S442.  Gene #43: 'SLC6A3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
SLC6A3 MUTATED 4 2 3
SLC6A3 WILD-TYPE 218 182 100
'SLC6A3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S443.  Gene #43: 'SLC6A3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
SLC6A3 MUTATED 3 2 4
SLC6A3 WILD-TYPE 181 160 155
'SLC6A3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.537 (Fisher's exact test), Q value = 1

Table S444.  Gene #43: 'SLC6A3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
SLC6A3 MUTATED 3 1 4 1
SLC6A3 WILD-TYPE 87 137 184 88
'SETD2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0394 (Fisher's exact test), Q value = 0.25

Table S445.  Gene #44: 'SETD2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
SETD2 MUTATED 2 6 2
SETD2 WILD-TYPE 167 114 219

Figure S135.  Get High-res Image Gene #44: 'SETD2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'SETD2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.064 (Fisher's exact test), Q value = 0.35

Table S446.  Gene #44: 'SETD2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
SETD2 MUTATED 3 5 2 0
SETD2 WILD-TYPE 219 76 166 42
'SETD2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S447.  Gene #44: 'SETD2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
SETD2 MUTATED 2 2 2 2
SETD2 WILD-TYPE 89 93 123 113
'SETD2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S448.  Gene #44: 'SETD2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
SETD2 MUTATED 2 3 3
SETD2 WILD-TYPE 80 156 182
'SETD2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.00051 (Fisher's exact test), Q value = 0.0073

Table S449.  Gene #44: 'SETD2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
SETD2 MUTATED 0 5 2 0 3
SETD2 WILD-TYPE 132 104 107 133 27

Figure S136.  Get High-res Image Gene #44: 'SETD2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'SETD2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0531 (Fisher's exact test), Q value = 0.31

Table S450.  Gene #44: '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 134 71 36 66 91 41 74
SETD2 MUTATED 1 2 0 1 1 4 1
SETD2 WILD-TYPE 133 69 36 65 90 37 73
'SETD2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S451.  Gene #44: 'SETD2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
SETD2 MUTATED 2 4 3 1
SETD2 WILD-TYPE 134 103 180 82
'SETD2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0948 (Fisher's exact test), Q value = 0.46

Table S452.  Gene #44: 'SETD2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
SETD2 MUTATED 3 2 5
SETD2 WILD-TYPE 219 182 98
'SETD2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.853 (Fisher's exact test), Q value = 1

Table S453.  Gene #44: 'SETD2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
SETD2 MUTATED 3 3 4
SETD2 WILD-TYPE 181 159 155
'SETD2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.377 (Fisher's exact test), Q value = 0.9

Table S454.  Gene #44: 'SETD2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
SETD2 MUTATED 1 2 3 4
SETD2 WILD-TYPE 89 136 185 85
'KRT3 MUTATION STATUS' versus 'CN_CNMF'

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

Table S455.  Gene #45: 'KRT3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
KRT3 MUTATED 2 1 1
KRT3 WILD-TYPE 167 119 220
'KRT3 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.88 (Fisher's exact test), Q value = 1

Table S456.  Gene #45: 'KRT3 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
KRT3 MUTATED 2 1 1 0
KRT3 WILD-TYPE 220 80 167 42
'KRT3 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S457.  Gene #45: 'KRT3 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
KRT3 MUTATED 1 1 1 0
KRT3 WILD-TYPE 90 94 124 115
'KRT3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.307 (Fisher's exact test), Q value = 0.83

Table S458.  Gene #45: 'KRT3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
KRT3 MUTATED 0 0 3
KRT3 WILD-TYPE 82 159 182
'KRT3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S459.  Gene #45: 'KRT3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
KRT3 MUTATED 2 1 1 0 0
KRT3 WILD-TYPE 130 108 108 133 30
'KRT3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.738 (Fisher's exact test), Q value = 1

Table S460.  Gene #45: 'KRT3 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
KRT3 MUTATED 1 1 0 0 1 1 0
KRT3 WILD-TYPE 133 70 36 66 90 40 74
'KRT3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.274 (Fisher's exact test), Q value = 0.8

Table S461.  Gene #45: 'KRT3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
KRT3 MUTATED 2 1 0 1
KRT3 WILD-TYPE 134 106 183 82
'KRT3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.196 (Fisher's exact test), Q value = 0.7

Table S462.  Gene #45: 'KRT3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
KRT3 MUTATED 2 0 2
KRT3 WILD-TYPE 220 184 101
'KRT3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.395 (Fisher's exact test), Q value = 0.91

Table S463.  Gene #45: 'KRT3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
KRT3 MUTATED 3 1 0
KRT3 WILD-TYPE 181 161 159
'KRT3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.211 (Fisher's exact test), Q value = 0.72

Table S464.  Gene #45: 'KRT3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
KRT3 MUTATED 2 0 1 1
KRT3 WILD-TYPE 88 138 187 88
'MYT1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0152 (Fisher's exact test), Q value = 0.12

Table S465.  Gene #46: 'MYT1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
MYT1 MUTATED 5 1 0
MYT1 WILD-TYPE 164 119 221

Figure S137.  Get High-res Image Gene #46: 'MYT1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'MYT1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.208 (Fisher's exact test), Q value = 0.71

Table S466.  Gene #46: 'MYT1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
MYT1 MUTATED 4 1 0 1
MYT1 WILD-TYPE 218 80 168 41
'MYT1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.448 (Fisher's exact test), Q value = 0.96

Table S467.  Gene #46: 'MYT1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
MYT1 MUTATED 2 3 0 1 0
MYT1 WILD-TYPE 130 106 109 132 30
'MYT1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0324 (Fisher's exact test), Q value = 0.22

Table S468.  Gene #46: 'MYT1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
MYT1 MUTATED 2 0 0 1 0 3 0
MYT1 WILD-TYPE 132 71 36 65 91 38 74

Figure S138.  Get High-res Image Gene #46: 'MYT1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'MYT1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.43 (Fisher's exact test), Q value = 0.95

Table S469.  Gene #46: 'MYT1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
MYT1 MUTATED 0 2 3 1
MYT1 WILD-TYPE 136 105 180 82
'MYT1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.757 (Fisher's exact test), Q value = 1

Table S470.  Gene #46: 'MYT1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
MYT1 MUTATED 2 2 2
MYT1 WILD-TYPE 220 182 101
'MYT1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.454 (Fisher's exact test), Q value = 0.96

Table S471.  Gene #46: 'MYT1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
MYT1 MUTATED 1 2 3
MYT1 WILD-TYPE 183 160 156
'MYT1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S472.  Gene #46: 'MYT1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
MYT1 MUTATED 1 1 3 1
MYT1 WILD-TYPE 89 137 185 88
'SMOC1 MUTATION STATUS' versus 'CN_CNMF'

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

Table S473.  Gene #47: 'SMOC1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
SMOC1 MUTATED 1 1 1
SMOC1 WILD-TYPE 168 119 220
'SMOC1 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S474.  Gene #47: 'SMOC1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
SMOC1 MUTATED 2 0 1 0
SMOC1 WILD-TYPE 220 81 167 42
'SMOC1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S475.  Gene #47: 'SMOC1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
SMOC1 MUTATED 1 1 0 1 0
SMOC1 WILD-TYPE 131 108 109 132 30
'SMOC1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S476.  Gene #47: 'SMOC1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
SMOC1 MUTATED 2 0 0 0 0 0 1
SMOC1 WILD-TYPE 132 71 36 66 91 41 73
'SMOC1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.598 (Fisher's exact test), Q value = 1

Table S477.  Gene #47: 'SMOC1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
SMOC1 MUTATED 2 0 1 0
SMOC1 WILD-TYPE 134 107 182 83
'SMOC1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S478.  Gene #47: 'SMOC1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
SMOC1 MUTATED 2 1 0
SMOC1 WILD-TYPE 220 183 103
'SMOC1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.652 (Fisher's exact test), Q value = 1

Table S479.  Gene #47: 'SMOC1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
SMOC1 MUTATED 2 0 1
SMOC1 WILD-TYPE 182 162 158
'SMOC1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.183 (Fisher's exact test), Q value = 0.67

Table S480.  Gene #47: 'SMOC1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
SMOC1 MUTATED 2 0 1 0
SMOC1 WILD-TYPE 88 138 187 89
'ZBTB20 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0126 (Fisher's exact test), Q value = 0.11

Table S481.  Gene #48: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
ZBTB20 MUTATED 3 2 16
ZBTB20 WILD-TYPE 166 118 205

Figure S139.  Get High-res Image Gene #48: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'ZBTB20 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.00062 (Fisher's exact test), Q value = 0.0084

Table S482.  Gene #48: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
ZBTB20 MUTATED 3 2 16 0
ZBTB20 WILD-TYPE 219 79 152 42

Figure S140.  Get High-res Image Gene #48: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'ZBTB20 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S483.  Gene #48: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
ZBTB20 MUTATED 4 2 5 5
ZBTB20 WILD-TYPE 87 93 120 110
'ZBTB20 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.295 (Fisher's exact test), Q value = 0.83

Table S484.  Gene #48: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
ZBTB20 MUTATED 4 8 4
ZBTB20 WILD-TYPE 78 151 181
'ZBTB20 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0132 (Fisher's exact test), Q value = 0.11

Table S485.  Gene #48: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
ZBTB20 MUTATED 1 2 5 11 2
ZBTB20 WILD-TYPE 131 107 104 122 28

Figure S141.  Get High-res Image Gene #48: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'ZBTB20 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0038 (Fisher's exact test), Q value = 0.039

Table S486.  Gene #48: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
ZBTB20 MUTATED 1 0 4 2 6 2 6
ZBTB20 WILD-TYPE 133 71 32 64 85 39 68

Figure S142.  Get High-res Image Gene #48: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'ZBTB20 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.159 (Fisher's exact test), Q value = 0.63

Table S487.  Gene #48: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
ZBTB20 MUTATED 3 2 12 4
ZBTB20 WILD-TYPE 133 105 171 79
'ZBTB20 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0194 (Fisher's exact test), Q value = 0.15

Table S488.  Gene #48: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
ZBTB20 MUTATED 5 14 2
ZBTB20 WILD-TYPE 217 170 101

Figure S143.  Get High-res Image Gene #48: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'ZBTB20 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0406 (Fisher's exact test), Q value = 0.26

Table S489.  Gene #48: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
ZBTB20 MUTATED 3 7 11
ZBTB20 WILD-TYPE 181 155 148

Figure S144.  Get High-res Image Gene #48: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'ZBTB20 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0329 (Fisher's exact test), Q value = 0.22

Table S490.  Gene #48: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
ZBTB20 MUTATED 1 5 14 1
ZBTB20 WILD-TYPE 89 133 174 88

Figure S145.  Get High-res Image Gene #48: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'PPL MUTATION STATUS' versus 'CN_CNMF'

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

Table S491.  Gene #49: 'PPL MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
PPL MUTATED 3 1 2
PPL WILD-TYPE 166 119 219
'PPL MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S492.  Gene #49: 'PPL MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
PPL MUTATED 3 1 2 0
PPL WILD-TYPE 219 80 166 42
'PPL MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.211 (Fisher's exact test), Q value = 0.72

Table S493.  Gene #49: 'PPL MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
PPL MUTATED 1 1 4 0
PPL WILD-TYPE 90 94 121 115
'PPL MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.576 (Fisher's exact test), Q value = 1

Table S494.  Gene #49: 'PPL MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
PPL MUTATED 1 1 4
PPL WILD-TYPE 81 158 181
'PPL MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.843 (Fisher's exact test), Q value = 1

Table S495.  Gene #49: 'PPL MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
PPL MUTATED 1 2 2 1 0
PPL WILD-TYPE 131 107 107 132 30
'PPL MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.249 (Fisher's exact test), Q value = 0.77

Table S496.  Gene #49: 'PPL MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
PPL MUTATED 1 0 0 1 2 2 0
PPL WILD-TYPE 133 71 36 65 89 39 74
'PPL MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.146 (Fisher's exact test), Q value = 0.6

Table S497.  Gene #49: 'PPL MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
PPL MUTATED 0 3 3 0
PPL WILD-TYPE 136 104 180 83
'PPL MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.758 (Fisher's exact test), Q value = 1

Table S498.  Gene #49: 'PPL MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
PPL MUTATED 2 2 2
PPL WILD-TYPE 220 182 101
'PPL MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.329 (Fisher's exact test), Q value = 0.83

Table S499.  Gene #49: 'PPL MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
PPL MUTATED 1 4 1
PPL WILD-TYPE 183 158 158
'PPL MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.726 (Fisher's exact test), Q value = 1

Table S500.  Gene #49: 'PPL MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
PPL MUTATED 1 3 2 0
PPL WILD-TYPE 89 135 186 89
'PTPN11 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.549 (Fisher's exact test), Q value = 1

Table S501.  Gene #50: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
PTPN11 MUTATED 2 3 2
PTPN11 WILD-TYPE 167 117 219
'PTPN11 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0187 (Fisher's exact test), Q value = 0.15

Table S502.  Gene #50: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
PTPN11 MUTATED 1 4 1 1
PTPN11 WILD-TYPE 221 77 167 41

Figure S146.  Get High-res Image Gene #50: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'PTPN11 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.5 (Fisher's exact test), Q value = 1

Table S503.  Gene #50: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
PTPN11 MUTATED 1 2 2 0
PTPN11 WILD-TYPE 90 93 123 115
'PTPN11 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S504.  Gene #50: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
PTPN11 MUTATED 1 1 3
PTPN11 WILD-TYPE 81 158 182
'PTPN11 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0534 (Fisher's exact test), Q value = 0.31

Table S505.  Gene #50: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
PTPN11 MUTATED 1 5 0 1 0
PTPN11 WILD-TYPE 131 104 109 132 30
'PTPN11 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.226 (Fisher's exact test), Q value = 0.73

Table S506.  Gene #50: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
PTPN11 MUTATED 1 3 0 2 0 0 1
PTPN11 WILD-TYPE 133 68 36 64 91 41 73
'PTPN11 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.22 (Fisher's exact test), Q value = 0.73

Table S507.  Gene #50: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
PTPN11 MUTATED 3 3 1 0
PTPN11 WILD-TYPE 133 104 182 83
'PTPN11 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00516 (Fisher's exact test), Q value = 0.052

Table S508.  Gene #50: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
PTPN11 MUTATED 1 1 5
PTPN11 WILD-TYPE 221 183 98

Figure S147.  Get High-res Image Gene #50: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'PTPN11 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0166 (Fisher's exact test), Q value = 0.13

Table S509.  Gene #50: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
PTPN11 MUTATED 6 0 1
PTPN11 WILD-TYPE 178 162 158

Figure S148.  Get High-res Image Gene #50: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'PTPN11 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00244 (Fisher's exact test), Q value = 0.028

Table S510.  Gene #50: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
PTPN11 MUTATED 1 0 1 5
PTPN11 WILD-TYPE 89 138 187 84

Figure S149.  Get High-res Image Gene #50: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'RET MUTATION STATUS' versus 'CN_CNMF'

P value = 0.551 (Fisher's exact test), Q value = 1

Table S511.  Gene #51: 'RET MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
RET MUTATED 2 3 2
RET WILD-TYPE 167 117 219
'RET MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.319 (Fisher's exact test), Q value = 0.83

Table S512.  Gene #51: 'RET MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
RET MUTATED 2 3 2 0
RET WILD-TYPE 220 78 166 42
'RET MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.623 (Fisher's exact test), Q value = 1

Table S513.  Gene #51: 'RET MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
RET MUTATED 0 2 1 1
RET WILD-TYPE 91 93 124 114
'RET MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S514.  Gene #51: 'RET MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
RET MUTATED 0 2 2
RET WILD-TYPE 82 157 183
'RET MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.373 (Fisher's exact test), Q value = 0.9

Table S515.  Gene #51: 'RET MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
RET MUTATED 1 3 0 3 0
RET WILD-TYPE 131 106 109 130 30
'RET MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.446 (Fisher's exact test), Q value = 0.96

Table S516.  Gene #51: 'RET MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
RET MUTATED 1 2 1 1 0 1 1
RET WILD-TYPE 133 69 35 65 91 40 73
'RET MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.707 (Fisher's exact test), Q value = 1

Table S517.  Gene #51: 'RET MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
RET MUTATED 2 1 4 0
RET WILD-TYPE 134 106 179 83
'RET MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.152 (Fisher's exact test), Q value = 0.61

Table S518.  Gene #51: 'RET MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
RET MUTATED 1 3 3
RET WILD-TYPE 221 181 100
'RET MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.15 (Fisher's exact test), Q value = 0.61

Table S519.  Gene #51: 'RET MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
RET MUTATED 3 0 4
RET WILD-TYPE 181 162 155
'RET MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.254 (Fisher's exact test), Q value = 0.77

Table S520.  Gene #51: 'RET MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
RET MUTATED 1 0 4 2
RET WILD-TYPE 89 138 184 87
'ANKRD36 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0261 (Fisher's exact test), Q value = 0.19

Table S521.  Gene #52: 'ANKRD36 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
ANKRD36 MUTATED 5 2 0
ANKRD36 WILD-TYPE 164 118 221

Figure S150.  Get High-res Image Gene #52: 'ANKRD36 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'ANKRD36 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.112 (Fisher's exact test), Q value = 0.51

Table S522.  Gene #52: 'ANKRD36 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
ANKRD36 MUTATED 6 1 0 0
ANKRD36 WILD-TYPE 216 80 168 42
'ANKRD36 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.441 (Fisher's exact test), Q value = 0.96

Table S523.  Gene #52: 'ANKRD36 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
ANKRD36 MUTATED 2 2 2 0
ANKRD36 WILD-TYPE 89 93 123 115
'ANKRD36 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.171 (Fisher's exact test), Q value = 0.65

Table S524.  Gene #52: 'ANKRD36 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
ANKRD36 MUTATED 3 1 2
ANKRD36 WILD-TYPE 79 158 183
'ANKRD36 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.601 (Fisher's exact test), Q value = 1

Table S525.  Gene #52: 'ANKRD36 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
ANKRD36 MUTATED 3 2 0 2 0
ANKRD36 WILD-TYPE 129 107 109 131 30
'ANKRD36 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.449 (Fisher's exact test), Q value = 0.96

Table S526.  Gene #52: 'ANKRD36 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
ANKRD36 MUTATED 3 1 0 2 0 1 0
ANKRD36 WILD-TYPE 131 70 36 64 91 40 74
'ANKRD36 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S527.  Gene #52: 'ANKRD36 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
ANKRD36 MUTATED 1 1 3 2
ANKRD36 WILD-TYPE 135 106 180 81
'ANKRD36 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S528.  Gene #52: 'ANKRD36 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
ANKRD36 MUTATED 3 3 1
ANKRD36 WILD-TYPE 219 181 102
'ANKRD36 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S529.  Gene #52: 'ANKRD36 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
ANKRD36 MUTATED 2 3 2
ANKRD36 WILD-TYPE 182 159 157
'ANKRD36 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.948 (Fisher's exact test), Q value = 1

Table S530.  Gene #52: 'ANKRD36 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
ANKRD36 MUTATED 1 3 2 1
ANKRD36 WILD-TYPE 89 135 186 88
'NEU2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.529 (Fisher's exact test), Q value = 1

Table S531.  Gene #53: 'NEU2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
NEU2 MUTATED 2 2 1
NEU2 WILD-TYPE 167 118 220
'NEU2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.816 (Fisher's exact test), Q value = 1

Table S532.  Gene #53: 'NEU2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
NEU2 MUTATED 3 1 1 0
NEU2 WILD-TYPE 219 80 167 42
'NEU2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S533.  Gene #53: 'NEU2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
NEU2 MUTATED 1 2 1 1
NEU2 WILD-TYPE 90 93 124 114
'NEU2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S534.  Gene #53: 'NEU2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
NEU2 MUTATED 1 2 2
NEU2 WILD-TYPE 81 157 183
'NEU2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0781 (Fisher's exact test), Q value = 0.4

Table S535.  Gene #53: 'NEU2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
NEU2 MUTATED 3 0 1 0 1
NEU2 WILD-TYPE 129 109 108 133 29
'NEU2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.869 (Fisher's exact test), Q value = 1

Table S536.  Gene #53: 'NEU2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
NEU2 MUTATED 3 1 0 0 1 0 0
NEU2 WILD-TYPE 131 70 36 66 90 41 74
'NEU2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.303 (Fisher's exact test), Q value = 0.83

Table S537.  Gene #53: 'NEU2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
NEU2 MUTATED 0 1 2 2
NEU2 WILD-TYPE 136 106 181 81
'NEU2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S538.  Gene #53: 'NEU2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
NEU2 MUTATED 2 2 1
NEU2 WILD-TYPE 220 182 102
'NEU2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.459 (Fisher's exact test), Q value = 0.96

Table S539.  Gene #53: 'NEU2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
NEU2 MUTATED 1 1 3
NEU2 WILD-TYPE 183 161 156
'NEU2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.713 (Fisher's exact test), Q value = 1

Table S540.  Gene #53: 'NEU2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
NEU2 MUTATED 0 1 3 1
NEU2 WILD-TYPE 90 137 185 88
'PRX MUTATION STATUS' versus 'CN_CNMF'

P value = 0.114 (Fisher's exact test), Q value = 0.51

Table S541.  Gene #54: 'PRX MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
PRX MUTATED 3 5 2
PRX WILD-TYPE 166 115 219
'PRX MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.033 (Fisher's exact test), Q value = 0.22

Table S542.  Gene #54: 'PRX MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
PRX MUTATED 2 5 2 1
PRX WILD-TYPE 220 76 166 41

Figure S151.  Get High-res Image Gene #54: 'PRX MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'PRX MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S543.  Gene #54: 'PRX MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
PRX MUTATED 2 2 2 4
PRX WILD-TYPE 89 93 123 111
'PRX MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S544.  Gene #54: 'PRX MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
PRX MUTATED 1 4 5
PRX WILD-TYPE 81 155 180
'PRX MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.389 (Fisher's exact test), Q value = 0.91

Table S545.  Gene #54: 'PRX MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
PRX MUTATED 1 4 1 3 1
PRX WILD-TYPE 131 105 108 130 29
'PRX MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.06 (Fisher's exact test), Q value = 0.33

Table S546.  Gene #54: 'PRX MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
PRX MUTATED 1 4 0 2 0 2 1
PRX WILD-TYPE 133 67 36 64 91 39 73
'PRX MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.536 (Fisher's exact test), Q value = 1

Table S547.  Gene #54: 'PRX MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
PRX MUTATED 1 3 5 1
PRX WILD-TYPE 135 104 178 82
'PRX MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00104 (Fisher's exact test), Q value = 0.013

Table S548.  Gene #54: 'PRX MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
PRX MUTATED 1 2 7
PRX WILD-TYPE 221 182 96

Figure S152.  Get High-res Image Gene #54: 'PRX MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'PRX MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.185 (Fisher's exact test), Q value = 0.67

Table S549.  Gene #54: 'PRX MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
PRX MUTATED 2 2 6
PRX WILD-TYPE 182 160 153
'PRX MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0742 (Fisher's exact test), Q value = 0.39

Table S550.  Gene #54: 'PRX MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
PRX MUTATED 1 1 3 5
PRX WILD-TYPE 89 137 185 84
'RBBP6 MUTATION STATUS' versus 'CN_CNMF'

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

Table S551.  Gene #55: 'RBBP6 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
RBBP6 MUTATED 1 1 4
RBBP6 WILD-TYPE 168 119 217
'RBBP6 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.321 (Fisher's exact test), Q value = 0.83

Table S552.  Gene #55: 'RBBP6 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
RBBP6 MUTATED 1 1 4 0
RBBP6 WILD-TYPE 221 80 164 42
'RBBP6 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S553.  Gene #55: 'RBBP6 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
RBBP6 MUTATED 1 1 2 2
RBBP6 WILD-TYPE 90 94 123 113
'RBBP6 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0974 (Fisher's exact test), Q value = 0.46

Table S554.  Gene #55: 'RBBP6 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
RBBP6 MUTATED 0 5 1
RBBP6 WILD-TYPE 82 154 184
'RBBP6 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0275 (Fisher's exact test), Q value = 0.2

Table S555.  Gene #55: 'RBBP6 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
RBBP6 MUTATED 0 2 4 0 0
RBBP6 WILD-TYPE 132 107 105 133 30

Figure S153.  Get High-res Image Gene #55: 'RBBP6 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'RBBP6 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00614 (Fisher's exact test), Q value = 0.061

Table S556.  Gene #55: 'RBBP6 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
RBBP6 MUTATED 0 0 0 0 4 2 0
RBBP6 WILD-TYPE 134 71 36 66 87 39 74

Figure S154.  Get High-res Image Gene #55: 'RBBP6 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'RBBP6 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.281 (Fisher's exact test), Q value = 0.81

Table S557.  Gene #55: 'RBBP6 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
RBBP6 MUTATED 0 1 3 2
RBBP6 WILD-TYPE 136 106 180 81
'RBBP6 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0656 (Fisher's exact test), Q value = 0.35

Table S558.  Gene #55: 'RBBP6 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
RBBP6 MUTATED 3 0 3
RBBP6 WILD-TYPE 219 184 100
'RBBP6 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0852 (Fisher's exact test), Q value = 0.43

Table S559.  Gene #55: 'RBBP6 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
RBBP6 MUTATED 0 4 2
RBBP6 WILD-TYPE 184 158 157
'RBBP6 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.179 (Fisher's exact test), Q value = 0.66

Table S560.  Gene #55: 'RBBP6 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
RBBP6 MUTATED 0 4 1 1
RBBP6 WILD-TYPE 90 134 187 88
'CIB1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.822 (Fisher's exact test), Q value = 1

Table S561.  Gene #56: 'CIB1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
CIB1 MUTATED 2 1 1
CIB1 WILD-TYPE 167 119 220
'CIB1 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S562.  Gene #56: 'CIB1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
CIB1 MUTATED 2 0 2 0
CIB1 WILD-TYPE 220 81 166 42
'CIB1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.623 (Fisher's exact test), Q value = 1

Table S563.  Gene #56: 'CIB1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
CIB1 MUTATED 0 2 1 1
CIB1 WILD-TYPE 91 93 124 114
'CIB1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S564.  Gene #56: 'CIB1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
CIB1 MUTATED 0 1 3
CIB1 WILD-TYPE 82 158 182
'CIB1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S565.  Gene #56: 'CIB1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
CIB1 MUTATED 0 1 2 1 0
CIB1 WILD-TYPE 132 108 107 132 30
'CIB1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.173 (Fisher's exact test), Q value = 0.65

Table S566.  Gene #56: 'CIB1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
CIB1 MUTATED 0 0 1 0 1 1 1
CIB1 WILD-TYPE 134 71 35 66 90 40 73
'CIB1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.219 (Fisher's exact test), Q value = 0.73

Table S567.  Gene #56: 'CIB1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
CIB1 MUTATED 0 1 1 2
CIB1 WILD-TYPE 136 106 182 81
'CIB1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0439 (Fisher's exact test), Q value = 0.27

Table S568.  Gene #56: 'CIB1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
CIB1 MUTATED 0 4 0
CIB1 WILD-TYPE 222 180 103

Figure S155.  Get High-res Image Gene #56: 'CIB1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'CIB1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.12 (Fisher's exact test), Q value = 0.52

Table S569.  Gene #56: 'CIB1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
CIB1 MUTATED 0 3 1
CIB1 WILD-TYPE 184 159 158
'CIB1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.32 (Fisher's exact test), Q value = 0.83

Table S570.  Gene #56: 'CIB1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
CIB1 MUTATED 0 3 1 0
CIB1 WILD-TYPE 90 135 187 89
'DDX5 MUTATION STATUS' versus 'CN_CNMF'

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

Table S571.  Gene #57: 'DDX5 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
DDX5 MUTATED 2 1 2
DDX5 WILD-TYPE 167 119 219
'DDX5 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S572.  Gene #57: 'DDX5 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
DDX5 MUTATED 2 1 2 0
DDX5 WILD-TYPE 220 80 166 42
'DDX5 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S573.  Gene #57: 'DDX5 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
DDX5 MUTATED 1 1 2 1
DDX5 WILD-TYPE 90 94 123 114
'DDX5 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S574.  Gene #57: 'DDX5 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
DDX5 MUTATED 0 3 2
DDX5 WILD-TYPE 82 156 183
'DDX5 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.615 (Fisher's exact test), Q value = 1

Table S575.  Gene #57: 'DDX5 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
DDX5 MUTATED 2 1 2 0 0
DDX5 WILD-TYPE 130 108 107 133 30
'DDX5 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.485 (Fisher's exact test), Q value = 0.98

Table S576.  Gene #57: 'DDX5 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
DDX5 MUTATED 2 0 1 0 1 1 0
DDX5 WILD-TYPE 132 71 35 66 90 40 74
'DDX5 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.264 (Fisher's exact test), Q value = 0.79

Table S577.  Gene #57: 'DDX5 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
DDX5 MUTATED 0 2 3 0
DDX5 WILD-TYPE 136 105 180 83
'DDX5 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.439 (Fisher's exact test), Q value = 0.96

Table S578.  Gene #57: 'DDX5 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
DDX5 MUTATED 1 3 1
DDX5 WILD-TYPE 221 181 102
'DDX5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0283 (Fisher's exact test), Q value = 0.2

Table S579.  Gene #57: 'DDX5 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
DDX5 MUTATED 0 1 4
DDX5 WILD-TYPE 184 161 155

Figure S156.  Get High-res Image Gene #57: 'DDX5 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'DDX5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.317 (Fisher's exact test), Q value = 0.83

Table S580.  Gene #57: 'DDX5 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
DDX5 MUTATED 0 1 4 0
DDX5 WILD-TYPE 90 137 184 89
'NAP1L2 MUTATION STATUS' versus 'CN_CNMF'

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

Table S581.  Gene #58: 'NAP1L2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
NAP1L2 MUTATED 2 0 2
NAP1L2 WILD-TYPE 167 120 219
'NAP1L2 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S582.  Gene #58: 'NAP1L2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
NAP1L2 MUTATED 2 0 2 0
NAP1L2 WILD-TYPE 220 81 166 42
'NAP1L2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S583.  Gene #58: 'NAP1L2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
NAP1L2 MUTATED 1 0 1 1
NAP1L2 WILD-TYPE 90 95 124 114
'NAP1L2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.048 (Fisher's exact test), Q value = 0.29

Table S584.  Gene #58: 'NAP1L2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
NAP1L2 MUTATED 2 1 0
NAP1L2 WILD-TYPE 80 158 185

Figure S157.  Get High-res Image Gene #58: 'NAP1L2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'NAP1L2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.381 (Fisher's exact test), Q value = 0.91

Table S585.  Gene #58: 'NAP1L2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
NAP1L2 MUTATED 2 0 2 0 0
NAP1L2 WILD-TYPE 130 109 107 133 30
'NAP1L2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0684 (Fisher's exact test), Q value = 0.36

Table S586.  Gene #58: 'NAP1L2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
NAP1L2 MUTATED 2 0 2 0 0 0 0
NAP1L2 WILD-TYPE 132 71 34 66 91 41 74
'NAP1L2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S587.  Gene #58: 'NAP1L2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
NAP1L2 MUTATED 1 1 2 0
NAP1L2 WILD-TYPE 135 106 181 83
'NAP1L2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.83 (Fisher's exact test), Q value = 1

Table S588.  Gene #58: 'NAP1L2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
NAP1L2 MUTATED 2 2 0
NAP1L2 WILD-TYPE 220 182 103
'NAP1L2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S589.  Gene #58: 'NAP1L2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
NAP1L2 MUTATED 2 1 1
NAP1L2 WILD-TYPE 182 161 158
'NAP1L2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S590.  Gene #58: 'NAP1L2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
NAP1L2 MUTATED 1 1 2 0
NAP1L2 WILD-TYPE 89 137 186 89
'SCN4A MUTATION STATUS' versus 'CN_CNMF'

P value = 0.113 (Fisher's exact test), Q value = 0.51

Table S591.  Gene #59: 'SCN4A MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
SCN4A MUTATED 0 1 5
SCN4A WILD-TYPE 169 119 216
'SCN4A MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.347 (Fisher's exact test), Q value = 0.86

Table S592.  Gene #59: 'SCN4A MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
SCN4A MUTATED 1 1 3 1
SCN4A WILD-TYPE 221 80 165 41
'SCN4A MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.567 (Fisher's exact test), Q value = 1

Table S593.  Gene #59: 'SCN4A MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
SCN4A MUTATED 0 1 2 3
SCN4A WILD-TYPE 91 94 123 112
'SCN4A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.867 (Fisher's exact test), Q value = 1

Table S594.  Gene #59: 'SCN4A MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
SCN4A MUTATED 1 3 2
SCN4A WILD-TYPE 81 156 183
'SCN4A MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.487 (Fisher's exact test), Q value = 0.98

Table S595.  Gene #59: 'SCN4A MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
SCN4A MUTATED 0 1 2 3 0
SCN4A WILD-TYPE 132 108 107 130 30
'SCN4A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.111 (Fisher's exact test), Q value = 0.5

Table S596.  Gene #59: 'SCN4A MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
SCN4A MUTATED 0 0 0 1 1 1 3
SCN4A WILD-TYPE 134 71 36 65 90 40 71
'SCN4A MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.571 (Fisher's exact test), Q value = 1

Table S597.  Gene #59: 'SCN4A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
SCN4A MUTATED 1 1 4 0
SCN4A WILD-TYPE 135 106 179 83
'SCN4A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.866 (Fisher's exact test), Q value = 1

Table S598.  Gene #59: 'SCN4A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
SCN4A MUTATED 2 3 1
SCN4A WILD-TYPE 220 181 102
'SCN4A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.068 (Fisher's exact test), Q value = 0.36

Table S599.  Gene #59: 'SCN4A MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
SCN4A MUTATED 0 2 4
SCN4A WILD-TYPE 184 160 155
'SCN4A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.415 (Fisher's exact test), Q value = 0.94

Table S600.  Gene #59: 'SCN4A MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
SCN4A MUTATED 0 2 4 0
SCN4A WILD-TYPE 90 136 184 89
'AGBL1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.163 (Fisher's exact test), Q value = 0.64

Table S601.  Gene #60: 'AGBL1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
AGBL1 MUTATED 1 3 1
AGBL1 WILD-TYPE 168 117 220
'AGBL1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.117 (Fisher's exact test), Q value = 0.51

Table S602.  Gene #60: 'AGBL1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
AGBL1 MUTATED 1 3 1 0
AGBL1 WILD-TYPE 221 78 167 42
'AGBL1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.162 (Fisher's exact test), Q value = 0.64

Table S603.  Gene #60: 'AGBL1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
AGBL1 MUTATED 0 2 3 0
AGBL1 WILD-TYPE 91 93 122 115
'AGBL1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0505 (Fisher's exact test), Q value = 0.3

Table S604.  Gene #60: 'AGBL1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
AGBL1 MUTATED 0 0 5
AGBL1 WILD-TYPE 82 159 180
'AGBL1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0312 (Fisher's exact test), Q value = 0.22

Table S605.  Gene #60: 'AGBL1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
AGBL1 MUTATED 0 4 1 0 0
AGBL1 WILD-TYPE 132 105 108 133 30

Figure S158.  Get High-res Image Gene #60: 'AGBL1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'AGBL1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0436 (Fisher's exact test), Q value = 0.27

Table S606.  Gene #60: 'AGBL1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
AGBL1 MUTATED 0 2 0 0 1 2 0
AGBL1 WILD-TYPE 134 69 36 66 90 39 74

Figure S159.  Get High-res Image Gene #60: 'AGBL1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'AGBL1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.208 (Fisher's exact test), Q value = 0.71

Table S607.  Gene #60: 'AGBL1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
AGBL1 MUTATED 2 2 0 1
AGBL1 WILD-TYPE 134 105 183 82
'AGBL1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00646 (Fisher's exact test), Q value = 0.062

Table S608.  Gene #60: 'AGBL1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
AGBL1 MUTATED 1 0 4
AGBL1 WILD-TYPE 221 184 99

Figure S160.  Get High-res Image Gene #60: 'AGBL1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'AGBL1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.136 (Fisher's exact test), Q value = 0.57

Table S609.  Gene #60: 'AGBL1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
AGBL1 MUTATED 4 1 0
AGBL1 WILD-TYPE 180 161 159
'AGBL1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0036 (Fisher's exact test), Q value = 0.038

Table S610.  Gene #60: 'AGBL1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
AGBL1 MUTATED 0 1 0 4
AGBL1 WILD-TYPE 90 137 188 85

Figure S161.  Get High-res Image Gene #60: 'AGBL1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'TPX2 MUTATION STATUS' versus 'CN_CNMF'

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

Table S611.  Gene #61: 'TPX2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
TPX2 MUTATED 2 1 2
TPX2 WILD-TYPE 167 119 219
'TPX2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.819 (Fisher's exact test), Q value = 1

Table S612.  Gene #61: 'TPX2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
TPX2 MUTATED 3 1 1 0
TPX2 WILD-TYPE 219 80 167 42
'TPX2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S613.  Gene #61: 'TPX2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
TPX2 MUTATED 0 1 1 1
TPX2 WILD-TYPE 91 94 124 114
'TPX2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S614.  Gene #61: 'TPX2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
TPX2 MUTATED 0 1 2
TPX2 WILD-TYPE 82 158 183
'TPX2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.829 (Fisher's exact test), Q value = 1

Table S615.  Gene #61: 'TPX2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
TPX2 MUTATED 2 1 0 2 0
TPX2 WILD-TYPE 130 108 109 131 30
'TPX2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.388 (Fisher's exact test), Q value = 0.91

Table S616.  Gene #61: 'TPX2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
TPX2 MUTATED 2 0 1 0 0 1 1
TPX2 WILD-TYPE 132 71 35 66 91 40 73
'TPX2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.488 (Fisher's exact test), Q value = 0.98

Table S617.  Gene #61: 'TPX2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
TPX2 MUTATED 0 1 3 1
TPX2 WILD-TYPE 136 106 180 82
'TPX2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0744 (Fisher's exact test), Q value = 0.39

Table S618.  Gene #61: 'TPX2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
TPX2 MUTATED 0 4 1
TPX2 WILD-TYPE 222 180 102
'TPX2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.166 (Fisher's exact test), Q value = 0.65

Table S619.  Gene #61: 'TPX2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
TPX2 MUTATED 0 2 3
TPX2 WILD-TYPE 184 160 156
'TPX2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.32 (Fisher's exact test), Q value = 0.83

Table S620.  Gene #61: 'TPX2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
TPX2 MUTATED 0 1 4 0
TPX2 WILD-TYPE 90 137 184 89
'KRT15 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.33 (Fisher's exact test), Q value = 0.83

Table S621.  Gene #62: 'KRT15 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
KRT15 MUTATED 1 3 2
KRT15 WILD-TYPE 168 117 219
'KRT15 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S622.  Gene #62: 'KRT15 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
KRT15 MUTATED 3 1 2 0
KRT15 WILD-TYPE 219 80 166 42
'KRT15 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S623.  Gene #62: 'KRT15 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
KRT15 MUTATED 0 1 1 1
KRT15 WILD-TYPE 91 94 124 114
'KRT15 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S624.  Gene #62: 'KRT15 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
KRT15 MUTATED 1 1 1
KRT15 WILD-TYPE 81 158 184
'KRT15 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.489 (Fisher's exact test), Q value = 0.98

Table S625.  Gene #62: 'KRT15 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
KRT15 MUTATED 0 2 1 3 0
KRT15 WILD-TYPE 132 107 108 130 30
'KRT15 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.466 (Fisher's exact test), Q value = 0.97

Table S626.  Gene #62: 'KRT15 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
KRT15 MUTATED 0 1 0 1 2 1 1
KRT15 WILD-TYPE 134 70 36 65 89 40 73
'KRT15 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.518 (Fisher's exact test), Q value = 1

Table S627.  Gene #62: 'KRT15 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
KRT15 MUTATED 3 0 2 1
KRT15 WILD-TYPE 133 107 181 82
'KRT15 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S628.  Gene #62: 'KRT15 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
KRT15 MUTATED 2 3 1
KRT15 WILD-TYPE 220 181 102
'KRT15 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S629.  Gene #62: 'KRT15 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
KRT15 MUTATED 2 2 2
KRT15 WILD-TYPE 182 160 157
'KRT15 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S630.  Gene #62: 'KRT15 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
KRT15 MUTATED 1 2 2 1
KRT15 WILD-TYPE 89 136 186 88
'HTR3A MUTATION STATUS' versus 'CN_CNMF'

P value = 0.62 (Fisher's exact test), Q value = 1

Table S631.  Gene #63: 'HTR3A MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
HTR3A MUTATED 1 2 4
HTR3A WILD-TYPE 168 118 217
'HTR3A MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.152 (Fisher's exact test), Q value = 0.61

Table S632.  Gene #63: 'HTR3A MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
HTR3A MUTATED 1 3 3 0
HTR3A WILD-TYPE 221 78 165 42
'HTR3A MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.846 (Fisher's exact test), Q value = 1

Table S633.  Gene #63: 'HTR3A MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
HTR3A MUTATED 2 2 2 1
HTR3A WILD-TYPE 89 93 123 114
'HTR3A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S634.  Gene #63: 'HTR3A MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
HTR3A MUTATED 1 3 3
HTR3A WILD-TYPE 81 156 182
'HTR3A MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S635.  Gene #63: 'HTR3A MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
HTR3A MUTATED 1 3 2 1 0
HTR3A WILD-TYPE 131 106 107 132 30
'HTR3A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.383 (Fisher's exact test), Q value = 0.91

Table S636.  Gene #63: 'HTR3A MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
HTR3A MUTATED 1 2 1 0 2 1 0
HTR3A WILD-TYPE 133 69 35 66 89 40 74
'HTR3A MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.169 (Fisher's exact test), Q value = 0.65

Table S637.  Gene #63: 'HTR3A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
HTR3A MUTATED 1 2 1 3
HTR3A WILD-TYPE 135 105 182 80
'HTR3A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.245 (Fisher's exact test), Q value = 0.76

Table S638.  Gene #63: 'HTR3A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
HTR3A MUTATED 3 1 3
HTR3A WILD-TYPE 219 183 100
'HTR3A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S639.  Gene #63: 'HTR3A MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
HTR3A MUTATED 4 2 1
HTR3A WILD-TYPE 180 160 158
'HTR3A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.872 (Fisher's exact test), Q value = 1

Table S640.  Gene #63: 'HTR3A MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
HTR3A MUTATED 1 2 2 2
HTR3A WILD-TYPE 89 136 186 87
'C14ORF4 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.467 (Fisher's exact test), Q value = 0.97

Table S641.  Gene #64: 'C14ORF4 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
C14ORF4 MUTATED 0 1 2
C14ORF4 WILD-TYPE 169 119 219
'C14ORF4 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.677 (Fisher's exact test), Q value = 1

Table S642.  Gene #64: 'C14ORF4 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
C14ORF4 MUTATED 1 1 1 0
C14ORF4 WILD-TYPE 221 80 167 42
'C14ORF4 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S643.  Gene #64: 'C14ORF4 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
C14ORF4 MUTATED 1 1 0 1 0
C14ORF4 WILD-TYPE 131 108 109 132 30
'C14ORF4 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.85 (Fisher's exact test), Q value = 1

Table S644.  Gene #64: 'C14ORF4 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
C14ORF4 MUTATED 1 1 0 0 0 0 1
C14ORF4 WILD-TYPE 133 70 36 66 91 41 73
'C14ORF4 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S645.  Gene #64: 'C14ORF4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
C14ORF4 MUTATED 1 1 1 0
C14ORF4 WILD-TYPE 135 106 182 83
'C14ORF4 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S646.  Gene #64: 'C14ORF4 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
C14ORF4 MUTATED 1 1 1
C14ORF4 WILD-TYPE 221 183 102
'C14ORF4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.649 (Fisher's exact test), Q value = 1

Table S647.  Gene #64: 'C14ORF4 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
C14ORF4 MUTATED 2 0 1
C14ORF4 WILD-TYPE 182 162 158
'C14ORF4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.44 (Fisher's exact test), Q value = 0.96

Table S648.  Gene #64: 'C14ORF4 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
C14ORF4 MUTATED 1 0 1 1
C14ORF4 WILD-TYPE 89 138 187 88
'R3HDM1 MUTATION STATUS' versus 'CN_CNMF'

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

Table S649.  Gene #65: 'R3HDM1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
R3HDM1 MUTATED 2 2 3
R3HDM1 WILD-TYPE 167 118 218
'R3HDM1 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S650.  Gene #65: 'R3HDM1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
R3HDM1 MUTATED 3 2 2 0
R3HDM1 WILD-TYPE 219 79 166 42
'R3HDM1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.27 (Fisher's exact test), Q value = 0.8

Table S651.  Gene #65: 'R3HDM1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
R3HDM1 MUTATED 0 0 3 2
R3HDM1 WILD-TYPE 91 95 122 113
'R3HDM1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.73 (Fisher's exact test), Q value = 1

Table S652.  Gene #65: 'R3HDM1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
R3HDM1 MUTATED 0 2 3
R3HDM1 WILD-TYPE 82 157 182
'R3HDM1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.856 (Fisher's exact test), Q value = 1

Table S653.  Gene #65: 'R3HDM1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
R3HDM1 MUTATED 1 1 2 3 0
R3HDM1 WILD-TYPE 131 108 107 130 30
'R3HDM1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.625 (Fisher's exact test), Q value = 1

Table S654.  Gene #65: 'R3HDM1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
R3HDM1 MUTATED 1 0 0 2 2 1 1
R3HDM1 WILD-TYPE 133 71 36 64 89 40 73
'R3HDM1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.738 (Fisher's exact test), Q value = 1

Table S655.  Gene #65: 'R3HDM1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
R3HDM1 MUTATED 1 1 3 2
R3HDM1 WILD-TYPE 135 106 180 81
'R3HDM1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S656.  Gene #65: 'R3HDM1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
R3HDM1 MUTATED 3 2 2
R3HDM1 WILD-TYPE 219 182 101
'R3HDM1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0745 (Fisher's exact test), Q value = 0.39

Table S657.  Gene #65: 'R3HDM1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
R3HDM1 MUTATED 0 4 3
R3HDM1 WILD-TYPE 184 158 156
'R3HDM1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.948 (Fisher's exact test), Q value = 1

Table S658.  Gene #65: 'R3HDM1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
R3HDM1 MUTATED 1 3 2 1
R3HDM1 WILD-TYPE 89 135 186 88
'G6PC MUTATION STATUS' versus 'CN_CNMF'

P value = 0.329 (Fisher's exact test), Q value = 0.83

Table S659.  Gene #66: 'G6PC MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
G6PC MUTATED 1 3 2
G6PC WILD-TYPE 168 117 219
'G6PC MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.146 (Fisher's exact test), Q value = 0.6

Table S660.  Gene #66: 'G6PC MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
G6PC MUTATED 1 3 2 0
G6PC WILD-TYPE 221 78 166 42
'G6PC MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.9 (Fisher's exact test), Q value = 1

Table S661.  Gene #66: 'G6PC MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
G6PC MUTATED 2 1 2 1
G6PC WILD-TYPE 89 94 123 114
'G6PC MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S662.  Gene #66: 'G6PC MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
G6PC MUTATED 1 2 3
G6PC WILD-TYPE 81 157 182
'G6PC MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S663.  Gene #66: 'G6PC MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
G6PC MUTATED 1 1 2 1 1
G6PC WILD-TYPE 131 108 107 132 29
'G6PC MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0832 (Fisher's exact test), Q value = 0.42

Table S664.  Gene #66: 'G6PC MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
G6PC MUTATED 0 1 1 1 1 2 0
G6PC WILD-TYPE 134 70 35 65 90 39 74
'G6PC MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.432 (Fisher's exact test), Q value = 0.96

Table S665.  Gene #66: 'G6PC MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
G6PC MUTATED 0 2 3 1
G6PC WILD-TYPE 136 105 180 82
'G6PC MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.149 (Fisher's exact test), Q value = 0.61

Table S666.  Gene #66: 'G6PC MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
G6PC MUTATED 1 2 3
G6PC WILD-TYPE 221 182 100
'G6PC MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.297 (Fisher's exact test), Q value = 0.83

Table S667.  Gene #66: 'G6PC MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
G6PC MUTATED 1 1 4
G6PC WILD-TYPE 183 161 155
'G6PC MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.765 (Fisher's exact test), Q value = 1

Table S668.  Gene #66: 'G6PC MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
G6PC MUTATED 1 1 2 2
G6PC WILD-TYPE 89 137 186 87
'DLC1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0723 (Fisher's exact test), Q value = 0.38

Table S669.  Gene #67: 'DLC1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
DLC1 MUTATED 1 4 1
DLC1 WILD-TYPE 168 116 220
'DLC1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.236 (Fisher's exact test), Q value = 0.75

Table S670.  Gene #67: 'DLC1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
DLC1 MUTATED 2 3 1 0
DLC1 WILD-TYPE 220 78 167 42
'DLC1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.671 (Fisher's exact test), Q value = 1

Table S671.  Gene #67: 'DLC1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
DLC1 MUTATED 1 1 2 0
DLC1 WILD-TYPE 90 94 123 115
'DLC1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S672.  Gene #67: 'DLC1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
DLC1 MUTATED 0 2 2
DLC1 WILD-TYPE 82 157 183
'DLC1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.448 (Fisher's exact test), Q value = 0.96

Table S673.  Gene #67: 'DLC1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
DLC1 MUTATED 2 3 0 1 0
DLC1 WILD-TYPE 130 106 109 132 30
'DLC1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.527 (Fisher's exact test), Q value = 1

Table S674.  Gene #67: 'DLC1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
DLC1 MUTATED 2 2 0 0 0 1 1
DLC1 WILD-TYPE 132 69 36 66 91 40 73
'DLC1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S675.  Gene #67: 'DLC1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
DLC1 MUTATED 1 2 2 1
DLC1 WILD-TYPE 135 105 181 82
'DLC1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.15 (Fisher's exact test), Q value = 0.61

Table S676.  Gene #67: 'DLC1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
DLC1 MUTATED 1 2 3
DLC1 WILD-TYPE 221 182 100
'DLC1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.783 (Fisher's exact test), Q value = 1

Table S677.  Gene #67: 'DLC1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
DLC1 MUTATED 3 1 2
DLC1 WILD-TYPE 181 161 157
'DLC1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.139 (Fisher's exact test), Q value = 0.58

Table S678.  Gene #67: 'DLC1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
DLC1 MUTATED 0 0 4 2
DLC1 WILD-TYPE 90 138 184 87
'SLC12A7 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.167 (Fisher's exact test), Q value = 0.65

Table S679.  Gene #68: 'SLC12A7 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
SLC12A7 MUTATED 1 4 2
SLC12A7 WILD-TYPE 168 116 219
'SLC12A7 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.405 (Fisher's exact test), Q value = 0.93

Table S680.  Gene #68: 'SLC12A7 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
SLC12A7 MUTATED 2 2 2 1
SLC12A7 WILD-TYPE 220 79 166 41
'SLC12A7 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.383 (Fisher's exact test), Q value = 0.91

Table S681.  Gene #68: 'SLC12A7 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
SLC12A7 MUTATED 0 1 4 2
SLC12A7 WILD-TYPE 91 94 121 113
'SLC12A7 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.321 (Fisher's exact test), Q value = 0.83

Table S682.  Gene #68: 'SLC12A7 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
SLC12A7 MUTATED 0 2 5
SLC12A7 WILD-TYPE 82 157 180
'SLC12A7 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S683.  Gene #68: 'SLC12A7 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
SLC12A7 MUTATED 2 2 2 1 0
SLC12A7 WILD-TYPE 130 107 107 132 30
'SLC12A7 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.863 (Fisher's exact test), Q value = 1

Table S684.  Gene #68: 'SLC12A7 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
SLC12A7 MUTATED 2 1 1 0 1 1 1
SLC12A7 WILD-TYPE 132 70 35 66 90 40 73
'SLC12A7 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S685.  Gene #68: 'SLC12A7 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
SLC12A7 MUTATED 3 1 2 1
SLC12A7 WILD-TYPE 133 106 181 82
'SLC12A7 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.786 (Fisher's exact test), Q value = 1

Table S686.  Gene #68: 'SLC12A7 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
SLC12A7 MUTATED 3 2 2
SLC12A7 WILD-TYPE 219 182 101
'SLC12A7 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.896 (Fisher's exact test), Q value = 1

Table S687.  Gene #68: 'SLC12A7 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
SLC12A7 MUTATED 2 3 2
SLC12A7 WILD-TYPE 182 159 157
'SLC12A7 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S688.  Gene #68: 'SLC12A7 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
SLC12A7 MUTATED 1 2 3 1
SLC12A7 WILD-TYPE 89 136 185 88
'SMARCB1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.822 (Fisher's exact test), Q value = 1

Table S689.  Gene #69: 'SMARCB1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
SMARCB1 MUTATED 2 1 1
SMARCB1 WILD-TYPE 167 119 220
'SMARCB1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.88 (Fisher's exact test), Q value = 1

Table S690.  Gene #69: 'SMARCB1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
SMARCB1 MUTATED 2 1 1 0
SMARCB1 WILD-TYPE 220 80 167 42
'SMARCB1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0645 (Fisher's exact test), Q value = 0.35

Table S691.  Gene #69: 'SMARCB1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
SMARCB1 MUTATED 0 0 3 0
SMARCB1 WILD-TYPE 91 95 122 115
'SMARCB1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.31 (Fisher's exact test), Q value = 0.83

Table S692.  Gene #69: 'SMARCB1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
SMARCB1 MUTATED 0 0 3
SMARCB1 WILD-TYPE 82 159 182
'SMARCB1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S693.  Gene #69: 'SMARCB1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
SMARCB1 MUTATED 1 1 0 2 0
SMARCB1 WILD-TYPE 131 108 109 131 30
'SMARCB1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S694.  Gene #69: 'SMARCB1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
SMARCB1 MUTATED 2 0 0 0 0 1 1
SMARCB1 WILD-TYPE 132 71 36 66 91 40 73
'SMARCB1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.439 (Fisher's exact test), Q value = 0.96

Table S695.  Gene #69: 'SMARCB1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
SMARCB1 MUTATED 0 1 3 0
SMARCB1 WILD-TYPE 136 106 180 83
'SMARCB1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.681 (Fisher's exact test), Q value = 1

Table S696.  Gene #69: 'SMARCB1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
SMARCB1 MUTATED 1 2 1
SMARCB1 WILD-TYPE 221 182 102
'SMARCB1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.076 (Fisher's exact test), Q value = 0.39

Table S697.  Gene #69: 'SMARCB1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
SMARCB1 MUTATED 0 1 3
SMARCB1 WILD-TYPE 184 161 156
'SMARCB1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.395 (Fisher's exact test), Q value = 0.91

Table S698.  Gene #69: 'SMARCB1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
SMARCB1 MUTATED 1 0 3 0
SMARCB1 WILD-TYPE 89 138 185 89
'WRN MUTATION STATUS' versus 'CN_CNMF'

P value = 0.208 (Fisher's exact test), Q value = 0.71

Table S699.  Gene #70: 'WRN MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
WRN MUTATED 0 1 4
WRN WILD-TYPE 169 119 217
'WRN MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0763 (Fisher's exact test), Q value = 0.39

Table S700.  Gene #70: 'WRN MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
WRN MUTATED 0 1 4 0
WRN WILD-TYPE 222 80 164 42
'WRN MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.907 (Fisher's exact test), Q value = 1

Table S701.  Gene #70: 'WRN MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
WRN MUTATED 0 1 2 1
WRN WILD-TYPE 91 94 123 114
'WRN MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.537 (Fisher's exact test), Q value = 1

Table S702.  Gene #70: 'WRN MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
WRN MUTATED 0 1 3
WRN WILD-TYPE 82 158 182
'WRN MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0296 (Fisher's exact test), Q value = 0.21

Table S703.  Gene #70: 'WRN MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
WRN MUTATED 0 1 4 0 0
WRN WILD-TYPE 132 108 105 133 30

Figure S162.  Get High-res Image Gene #70: 'WRN MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'WRN MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.016 (Fisher's exact test), Q value = 0.13

Table S704.  Gene #70: 'WRN MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
WRN MUTATED 0 0 2 0 2 1 0
WRN WILD-TYPE 134 71 34 66 89 40 74

Figure S163.  Get High-res Image Gene #70: 'WRN MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'WRN MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.057 (Fisher's exact test), Q value = 0.32

Table S705.  Gene #70: 'WRN MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
WRN MUTATED 0 1 1 3
WRN WILD-TYPE 136 106 182 80
'WRN MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S706.  Gene #70: 'WRN MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
WRN MUTATED 2 2 1
WRN WILD-TYPE 220 182 102
'WRN MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0434 (Fisher's exact test), Q value = 0.27

Table S707.  Gene #70: 'WRN MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
WRN MUTATED 0 4 1
WRN WILD-TYPE 184 158 158

Figure S164.  Get High-res Image Gene #70: 'WRN MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'WRN MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.452 (Fisher's exact test), Q value = 0.96

Table S708.  Gene #70: 'WRN MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
WRN MUTATED 0 3 2 0
WRN WILD-TYPE 90 135 186 89
'LAMA4 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.452 (Fisher's exact test), Q value = 0.96

Table S709.  Gene #71: 'LAMA4 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
LAMA4 MUTATED 1 2 1
LAMA4 WILD-TYPE 168 118 220
'LAMA4 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.304 (Fisher's exact test), Q value = 0.83

Table S710.  Gene #71: 'LAMA4 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
LAMA4 MUTATED 1 2 1 0
LAMA4 WILD-TYPE 221 79 167 42
'LAMA4 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S711.  Gene #71: 'LAMA4 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
LAMA4 MUTATED 1 1 1 1
LAMA4 WILD-TYPE 90 94 124 114
'LAMA4 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.324 (Fisher's exact test), Q value = 0.83

Table S712.  Gene #71: 'LAMA4 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
LAMA4 MUTATED 2 1 1
LAMA4 WILD-TYPE 80 158 184
'LAMA4 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.104 (Fisher's exact test), Q value = 0.49

Table S713.  Gene #71: 'LAMA4 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
LAMA4 MUTATED 0 2 0 1 1
LAMA4 WILD-TYPE 132 107 109 132 29
'LAMA4 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.519 (Fisher's exact test), Q value = 1

Table S714.  Gene #71: 'LAMA4 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
LAMA4 MUTATED 1 2 0 0 0 0 1
LAMA4 WILD-TYPE 133 69 36 66 91 41 73
'LAMA4 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.7 (Fisher's exact test), Q value = 1

Table S715.  Gene #71: 'LAMA4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
LAMA4 MUTATED 2 0 2 0
LAMA4 WILD-TYPE 134 107 181 83
'LAMA4 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S716.  Gene #71: 'LAMA4 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
LAMA4 MUTATED 2 1 1
LAMA4 WILD-TYPE 220 183 102
'LAMA4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.476 (Fisher's exact test), Q value = 0.97

Table S717.  Gene #71: 'LAMA4 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
LAMA4 MUTATED 2 0 2
LAMA4 WILD-TYPE 182 162 157
'LAMA4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.839 (Fisher's exact test), Q value = 1

Table S718.  Gene #71: 'LAMA4 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
LAMA4 MUTATED 1 1 1 1
LAMA4 WILD-TYPE 89 137 187 88
'MAST2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.728 (Fisher's exact test), Q value = 1

Table S719.  Gene #72: 'MAST2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
MAST2 MUTATED 1 2 2
MAST2 WILD-TYPE 168 118 219
'MAST2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.463 (Fisher's exact test), Q value = 0.97

Table S720.  Gene #72: 'MAST2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
MAST2 MUTATED 2 2 1 0
MAST2 WILD-TYPE 220 79 167 42
'MAST2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.686 (Fisher's exact test), Q value = 1

Table S721.  Gene #72: 'MAST2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
MAST2 MUTATED 0 2 2 1
MAST2 WILD-TYPE 91 93 123 114
'MAST2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.282 (Fisher's exact test), Q value = 0.81

Table S722.  Gene #72: 'MAST2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
MAST2 MUTATED 0 1 4
MAST2 WILD-TYPE 82 158 181
'MAST2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S723.  Gene #72: 'MAST2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
MAST2 MUTATED 2 2 0 1 0
MAST2 WILD-TYPE 130 107 109 132 30
'MAST2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.215 (Fisher's exact test), Q value = 0.72

Table S724.  Gene #72: 'MAST2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
MAST2 MUTATED 1 1 0 0 0 2 1
MAST2 WILD-TYPE 133 70 36 66 91 39 73
'MAST2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0191 (Fisher's exact test), Q value = 0.15

Table S725.  Gene #72: 'MAST2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
MAST2 MUTATED 0 4 1 0
MAST2 WILD-TYPE 136 103 182 83

Figure S165.  Get High-res Image Gene #72: 'MAST2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'MAST2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.529 (Fisher's exact test), Q value = 1

Table S726.  Gene #72: 'MAST2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
MAST2 MUTATED 2 1 2
MAST2 WILD-TYPE 220 183 101
'MAST2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S727.  Gene #72: 'MAST2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
MAST2 MUTATED 2 1 2
MAST2 WILD-TYPE 182 161 157
'MAST2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.717 (Fisher's exact test), Q value = 1

Table S728.  Gene #72: 'MAST2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
MAST2 MUTATED 0 1 3 1
MAST2 WILD-TYPE 90 137 185 88
'ZMYM2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.621 (Fisher's exact test), Q value = 1

Table S729.  Gene #73: 'ZMYM2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
ZMYM2 MUTATED 1 2 4
ZMYM2 WILD-TYPE 168 118 217
'ZMYM2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.665 (Fisher's exact test), Q value = 1

Table S730.  Gene #73: 'ZMYM2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
ZMYM2 MUTATED 2 2 3 0
ZMYM2 WILD-TYPE 220 79 165 42
'ZMYM2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S731.  Gene #73: 'ZMYM2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
ZMYM2 MUTATED 0 1 3 1
ZMYM2 WILD-TYPE 91 94 122 114
'ZMYM2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.282 (Fisher's exact test), Q value = 0.81

Table S732.  Gene #73: 'ZMYM2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
ZMYM2 MUTATED 0 1 4
ZMYM2 WILD-TYPE 82 158 181
'ZMYM2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S733.  Gene #73: 'ZMYM2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
ZMYM2 MUTATED 2 2 0 3 0
ZMYM2 WILD-TYPE 130 107 109 130 30
'ZMYM2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.321 (Fisher's exact test), Q value = 0.83

Table S734.  Gene #73: 'ZMYM2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
ZMYM2 MUTATED 2 1 0 0 0 1 3
ZMYM2 WILD-TYPE 132 70 36 66 91 40 71
'ZMYM2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.123 (Fisher's exact test), Q value = 0.53

Table S735.  Gene #73: 'ZMYM2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
ZMYM2 MUTATED 0 3 4 0
ZMYM2 WILD-TYPE 136 104 179 83
'ZMYM2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.208 (Fisher's exact test), Q value = 0.71

Table S736.  Gene #73: 'ZMYM2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
ZMYM2 MUTATED 1 4 2
ZMYM2 WILD-TYPE 221 180 101
'ZMYM2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.271 (Fisher's exact test), Q value = 0.8

Table S737.  Gene #73: 'ZMYM2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
ZMYM2 MUTATED 1 2 4
ZMYM2 WILD-TYPE 183 160 155
'ZMYM2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.365 (Fisher's exact test), Q value = 0.89

Table S738.  Gene #73: 'ZMYM2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
ZMYM2 MUTATED 0 1 5 1
ZMYM2 WILD-TYPE 90 137 183 88
'SLFN11 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.824 (Fisher's exact test), Q value = 1

Table S739.  Gene #74: 'SLFN11 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
SLFN11 MUTATED 2 1 1
SLFN11 WILD-TYPE 167 119 220
'SLFN11 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.88 (Fisher's exact test), Q value = 1

Table S740.  Gene #74: 'SLFN11 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
SLFN11 MUTATED 2 1 1 0
SLFN11 WILD-TYPE 220 80 167 42
'SLFN11 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S741.  Gene #74: 'SLFN11 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
SLFN11 MUTATED 1 1 1 1
SLFN11 WILD-TYPE 90 94 124 114
'SLFN11 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.415 (Fisher's exact test), Q value = 0.94

Table S742.  Gene #74: 'SLFN11 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
SLFN11 MUTATED 0 3 1
SLFN11 WILD-TYPE 82 156 184
'SLFN11 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.311 (Fisher's exact test), Q value = 0.83

Table S743.  Gene #74: 'SLFN11 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
SLFN11 MUTATED 0 1 1 1 1
SLFN11 WILD-TYPE 132 108 108 132 29
'SLFN11 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.713 (Fisher's exact test), Q value = 1

Table S744.  Gene #74: 'SLFN11 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
SLFN11 MUTATED 1 0 0 1 1 1 0
SLFN11 WILD-TYPE 133 71 36 65 90 40 74
'SLFN11 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S745.  Gene #74: 'SLFN11 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
SLFN11 MUTATED 1 2 1 0
SLFN11 WILD-TYPE 135 105 182 83
'SLFN11 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.265 (Fisher's exact test), Q value = 0.79

Table S746.  Gene #74: 'SLFN11 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
SLFN11 MUTATED 3 0 1
SLFN11 WILD-TYPE 219 184 102
'SLFN11 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.475 (Fisher's exact test), Q value = 0.97

Table S747.  Gene #74: 'SLFN11 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
SLFN11 MUTATED 2 0 2
SLFN11 WILD-TYPE 182 162 157
'SLFN11 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.759 (Fisher's exact test), Q value = 1

Table S748.  Gene #74: 'SLFN11 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
SLFN11 MUTATED 0 2 2 0
SLFN11 WILD-TYPE 90 136 186 89
'C4BPA MUTATION STATUS' versus 'CN_CNMF'

P value = 0.329 (Fisher's exact test), Q value = 0.83

Table S749.  Gene #75: 'C4BPA MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
C4BPA MUTATED 1 3 2
C4BPA WILD-TYPE 168 117 219
'C4BPA MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.297 (Fisher's exact test), Q value = 0.83

Table S750.  Gene #75: 'C4BPA MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
C4BPA MUTATED 2 2 1 1
C4BPA WILD-TYPE 220 79 167 41
'C4BPA MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.313 (Fisher's exact test), Q value = 0.83

Table S751.  Gene #75: 'C4BPA MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
C4BPA MUTATED 0 0 3 1
C4BPA WILD-TYPE 91 95 122 114
'C4BPA MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.536 (Fisher's exact test), Q value = 1

Table S752.  Gene #75: 'C4BPA MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
C4BPA MUTATED 0 1 3
C4BPA WILD-TYPE 82 158 182
'C4BPA MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.901 (Fisher's exact test), Q value = 1

Table S753.  Gene #75: 'C4BPA MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
C4BPA MUTATED 2 2 1 1 0
C4BPA WILD-TYPE 130 107 108 132 30
'C4BPA MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.382 (Fisher's exact test), Q value = 0.91

Table S754.  Gene #75: 'C4BPA MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
C4BPA MUTATED 1 1 0 1 1 2 0
C4BPA WILD-TYPE 133 70 36 65 90 39 74
'C4BPA MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.73 (Fisher's exact test), Q value = 1

Table S755.  Gene #75: 'C4BPA MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
C4BPA MUTATED 2 2 1 1
C4BPA WILD-TYPE 134 105 182 82
'C4BPA MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.505 (Fisher's exact test), Q value = 1

Table S756.  Gene #75: 'C4BPA MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
C4BPA MUTATED 3 1 2
C4BPA WILD-TYPE 219 183 101
'C4BPA MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S757.  Gene #75: 'C4BPA MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
C4BPA MUTATED 2 2 2
C4BPA WILD-TYPE 182 160 157
'C4BPA MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S758.  Gene #75: 'C4BPA MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
C4BPA MUTATED 1 2 2 1
C4BPA WILD-TYPE 89 136 186 88
'TMEM184A MUTATION STATUS' versus 'CN_CNMF'

P value = 0.468 (Fisher's exact test), Q value = 0.97

Table S759.  Gene #76: 'TMEM184A MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
TMEM184A MUTATED 0 1 2
TMEM184A WILD-TYPE 169 119 219
'TMEM184A MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.3 (Fisher's exact test), Q value = 0.83

Table S760.  Gene #76: 'TMEM184A MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
TMEM184A MUTATED 0 1 2 0
TMEM184A WILD-TYPE 222 80 166 42
'TMEM184A MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.893 (Fisher's exact test), Q value = 1

Table S761.  Gene #76: 'TMEM184A MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
TMEM184A MUTATED 1 0 1 1
TMEM184A WILD-TYPE 90 95 124 114
'TMEM184A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S762.  Gene #76: 'TMEM184A MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
TMEM184A MUTATED 0 1 2
TMEM184A WILD-TYPE 82 158 183
'TMEM184A MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.584 (Fisher's exact test), Q value = 1

Table S763.  Gene #76: 'TMEM184A MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
TMEM184A MUTATED 0 1 0 2 0
TMEM184A WILD-TYPE 132 108 109 131 30
'TMEM184A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.174 (Fisher's exact test), Q value = 0.65

Table S764.  Gene #76: 'TMEM184A MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
TMEM184A MUTATED 0 1 0 0 0 0 2
TMEM184A WILD-TYPE 134 70 36 66 91 41 72
'TMEM184A MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.878 (Fisher's exact test), Q value = 1

Table S765.  Gene #76: 'TMEM184A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
TMEM184A MUTATED 1 0 2 0
TMEM184A WILD-TYPE 135 107 181 83
'TMEM184A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.234 (Fisher's exact test), Q value = 0.74

Table S766.  Gene #76: 'TMEM184A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
TMEM184A MUTATED 0 2 1
TMEM184A WILD-TYPE 222 182 102
'TMEM184A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.414 (Fisher's exact test), Q value = 0.94

Table S767.  Gene #76: 'TMEM184A MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
TMEM184A MUTATED 1 0 2
TMEM184A WILD-TYPE 183 162 157
'TMEM184A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.51 (Fisher's exact test), Q value = 1

Table S768.  Gene #76: 'TMEM184A MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
TMEM184A MUTATED 0 0 2 1
TMEM184A WILD-TYPE 90 138 186 88
'KTELC1 MUTATION STATUS' versus 'CN_CNMF'

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

Table S769.  Gene #77: 'KTELC1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
KTELC1 MUTATED 2 1 2
KTELC1 WILD-TYPE 167 119 219
'KTELC1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.668 (Fisher's exact test), Q value = 1

Table S770.  Gene #77: 'KTELC1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
KTELC1 MUTATED 4 0 1 0
KTELC1 WILD-TYPE 218 81 167 42
'KTELC1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.312 (Fisher's exact test), Q value = 0.83

Table S771.  Gene #77: 'KTELC1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
KTELC1 MUTATED 0 0 3 1
KTELC1 WILD-TYPE 91 95 122 114
'KTELC1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.537 (Fisher's exact test), Q value = 1

Table S772.  Gene #77: 'KTELC1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
KTELC1 MUTATED 0 1 3
KTELC1 WILD-TYPE 82 158 182
'KTELC1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.953 (Fisher's exact test), Q value = 1

Table S773.  Gene #77: 'KTELC1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
KTELC1 MUTATED 2 1 1 1 0
KTELC1 WILD-TYPE 130 108 108 132 30
'KTELC1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.788 (Fisher's exact test), Q value = 1

Table S774.  Gene #77: 'KTELC1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
KTELC1 MUTATED 2 0 0 1 1 1 0
KTELC1 WILD-TYPE 132 71 36 65 90 40 74
'KTELC1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.116 (Fisher's exact test), Q value = 0.51

Table S775.  Gene #77: 'KTELC1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
KTELC1 MUTATED 0 3 1 1
KTELC1 WILD-TYPE 136 104 182 82
'KTELC1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00637 (Fisher's exact test), Q value = 0.062

Table S776.  Gene #77: 'KTELC1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
KTELC1 MUTATED 1 0 4
KTELC1 WILD-TYPE 221 184 99

Figure S166.  Get High-res Image Gene #77: 'KTELC1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'KTELC1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S777.  Gene #77: 'KTELC1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
KTELC1 MUTATED 2 2 1
KTELC1 WILD-TYPE 182 160 158
'KTELC1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.109 (Fisher's exact test), Q value = 0.5

Table S778.  Gene #77: 'KTELC1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
KTELC1 MUTATED 0 4 1 0
KTELC1 WILD-TYPE 90 134 187 89
'ASXL2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.465 (Fisher's exact test), Q value = 0.97

Table S779.  Gene #78: 'ASXL2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
ASXL2 MUTATED 0 1 2
ASXL2 WILD-TYPE 169 119 219
'ASXL2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.301 (Fisher's exact test), Q value = 0.83

Table S780.  Gene #78: 'ASXL2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
ASXL2 MUTATED 0 1 2 0
ASXL2 WILD-TYPE 222 80 166 42
'ASXL2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S781.  Gene #78: 'ASXL2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
ASXL2 MUTATED 0 0 2 1
ASXL2 WILD-TYPE 91 95 123 114
'ASXL2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S782.  Gene #78: 'ASXL2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
ASXL2 MUTATED 0 2 1
ASXL2 WILD-TYPE 82 157 184
'ASXL2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.829 (Fisher's exact test), Q value = 1

Table S783.  Gene #78: 'ASXL2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
ASXL2 MUTATED 0 1 1 1 0
ASXL2 WILD-TYPE 132 108 108 132 30
'ASXL2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.317 (Fisher's exact test), Q value = 0.83

Table S784.  Gene #78: '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 134 71 36 66 91 41 74
ASXL2 MUTATED 0 0 0 0 1 1 1
ASXL2 WILD-TYPE 134 71 36 66 90 40 73
'ASXL2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.524 (Fisher's exact test), Q value = 1

Table S785.  Gene #78: 'ASXL2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
ASXL2 MUTATED 0 1 1 1
ASXL2 WILD-TYPE 136 106 182 82
'ASXL2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S786.  Gene #78: 'ASXL2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
ASXL2 MUTATED 1 1 1
ASXL2 WILD-TYPE 221 183 102
'ASXL2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.206 (Fisher's exact test), Q value = 0.71

Table S787.  Gene #78: 'ASXL2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
ASXL2 MUTATED 0 1 2
ASXL2 WILD-TYPE 184 161 157
'ASXL2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S788.  Gene #78: 'ASXL2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
ASXL2 MUTATED 0 1 2 0
ASXL2 WILD-TYPE 90 137 186 89
'CCDC135 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.701 (Fisher's exact test), Q value = 1

Table S789.  Gene #79: 'CCDC135 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
CCDC135 MUTATED 3 2 2
CCDC135 WILD-TYPE 166 118 219
'CCDC135 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S790.  Gene #79: 'CCDC135 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
CCDC135 MUTATED 3 1 3 0
CCDC135 WILD-TYPE 219 80 165 42
'CCDC135 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.397 (Fisher's exact test), Q value = 0.92

Table S791.  Gene #79: 'CCDC135 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
CCDC135 MUTATED 1 1 3 0
CCDC135 WILD-TYPE 90 94 122 115
'CCDC135 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.426 (Fisher's exact test), Q value = 0.95

Table S792.  Gene #79: 'CCDC135 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
CCDC135 MUTATED 2 1 2
CCDC135 WILD-TYPE 80 158 183
'CCDC135 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.487 (Fisher's exact test), Q value = 0.98

Table S793.  Gene #79: 'CCDC135 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
CCDC135 MUTATED 0 2 2 3 0
CCDC135 WILD-TYPE 132 107 107 130 30
'CCDC135 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0272 (Fisher's exact test), Q value = 0.2

Table S794.  Gene #79: 'CCDC135 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
CCDC135 MUTATED 0 0 0 2 3 2 0
CCDC135 WILD-TYPE 134 71 36 64 88 39 74

Figure S167.  Get High-res Image Gene #79: 'CCDC135 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'CCDC135 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S795.  Gene #79: 'CCDC135 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
CCDC135 MUTATED 1 2 2 2
CCDC135 WILD-TYPE 135 105 181 81
'CCDC135 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S796.  Gene #79: 'CCDC135 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
CCDC135 MUTATED 3 3 1
CCDC135 WILD-TYPE 219 181 102
'CCDC135 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.802 (Fisher's exact test), Q value = 1

Table S797.  Gene #79: 'CCDC135 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
CCDC135 MUTATED 2 2 3
CCDC135 WILD-TYPE 182 160 156
'CCDC135 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.733 (Fisher's exact test), Q value = 1

Table S798.  Gene #79: 'CCDC135 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
CCDC135 MUTATED 1 2 4 0
CCDC135 WILD-TYPE 89 136 184 89
'SLC25A5 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.456 (Fisher's exact test), Q value = 0.96

Table S799.  Gene #80: 'SLC25A5 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
SLC25A5 MUTATED 1 2 1
SLC25A5 WILD-TYPE 168 118 220
'SLC25A5 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.226 (Fisher's exact test), Q value = 0.73

Table S800.  Gene #80: 'SLC25A5 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
SLC25A5 MUTATED 2 1 0 1
SLC25A5 WILD-TYPE 220 80 168 41
'SLC25A5 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S801.  Gene #80: 'SLC25A5 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
SLC25A5 MUTATED 1 1 0 2 0
SLC25A5 WILD-TYPE 131 108 109 131 30
'SLC25A5 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.423 (Fisher's exact test), Q value = 0.95

Table S802.  Gene #80: 'SLC25A5 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
SLC25A5 MUTATED 1 0 0 2 0 0 1
SLC25A5 WILD-TYPE 133 71 36 64 91 41 73
'SLC25A5 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.832 (Fisher's exact test), Q value = 1

Table S803.  Gene #80: 'SLC25A5 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
SLC25A5 MUTATED 1 0 2 1
SLC25A5 WILD-TYPE 135 107 181 82
'SLC25A5 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.681 (Fisher's exact test), Q value = 1

Table S804.  Gene #80: 'SLC25A5 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
SLC25A5 MUTATED 1 2 1
SLC25A5 WILD-TYPE 221 182 102
'SLC25A5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.474 (Fisher's exact test), Q value = 0.97

Table S805.  Gene #80: 'SLC25A5 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
SLC25A5 MUTATED 2 0 2
SLC25A5 WILD-TYPE 182 162 157
'SLC25A5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.52 (Fisher's exact test), Q value = 1

Table S806.  Gene #80: 'SLC25A5 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
SLC25A5 MUTATED 1 0 2 1
SLC25A5 WILD-TYPE 89 138 186 88
'ABCA7 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.702 (Fisher's exact test), Q value = 1

Table S807.  Gene #81: 'ABCA7 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
ABCA7 MUTATED 3 3 3
ABCA7 WILD-TYPE 166 117 218
'ABCA7 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.388 (Fisher's exact test), Q value = 0.91

Table S808.  Gene #81: 'ABCA7 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
ABCA7 MUTATED 3 3 2 1
ABCA7 WILD-TYPE 219 78 166 41
'ABCA7 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.225 (Fisher's exact test), Q value = 0.73

Table S809.  Gene #81: 'ABCA7 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
ABCA7 MUTATED 3 1 2 0
ABCA7 WILD-TYPE 88 94 123 115
'ABCA7 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.171 (Fisher's exact test), Q value = 0.65

Table S810.  Gene #81: 'ABCA7 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
ABCA7 MUTATED 3 1 2
ABCA7 WILD-TYPE 79 158 183
'ABCA7 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.265 (Fisher's exact test), Q value = 0.79

Table S811.  Gene #81: 'ABCA7 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
ABCA7 MUTATED 1 5 1 2 0
ABCA7 WILD-TYPE 131 104 108 131 30
'ABCA7 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.213 (Fisher's exact test), Q value = 0.72

Table S812.  Gene #81: 'ABCA7 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
ABCA7 MUTATED 1 1 0 1 1 3 2
ABCA7 WILD-TYPE 133 70 36 65 90 38 72
'ABCA7 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S813.  Gene #81: 'ABCA7 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
ABCA7 MUTATED 2 2 4 1
ABCA7 WILD-TYPE 134 105 179 82
'ABCA7 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0553 (Fisher's exact test), Q value = 0.32

Table S814.  Gene #81: 'ABCA7 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
ABCA7 MUTATED 2 2 5
ABCA7 WILD-TYPE 220 182 98
'ABCA7 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0989 (Fisher's exact test), Q value = 0.47

Table S815.  Gene #81: 'ABCA7 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
ABCA7 MUTATED 1 2 6
ABCA7 WILD-TYPE 183 160 153
'ABCA7 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.252 (Fisher's exact test), Q value = 0.77

Table S816.  Gene #81: 'ABCA7 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
ABCA7 MUTATED 1 1 3 4
ABCA7 WILD-TYPE 89 137 185 85
'NKD2 MUTATION STATUS' versus 'CN_CNMF'

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

Table S817.  Gene #82: 'NKD2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
NKD2 MUTATED 1 1 2
NKD2 WILD-TYPE 168 119 219
'NKD2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.878 (Fisher's exact test), Q value = 1

Table S818.  Gene #82: 'NKD2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
NKD2 MUTATED 2 1 1 0
NKD2 WILD-TYPE 220 80 167 42
'NKD2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S819.  Gene #82: 'NKD2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
NKD2 MUTATED 2 1 1 0 0
NKD2 WILD-TYPE 130 108 108 133 30
'NKD2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.463 (Fisher's exact test), Q value = 0.97

Table S820.  Gene #82: 'NKD2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
NKD2 MUTATED 1 1 1 1 0 0 0
NKD2 WILD-TYPE 133 70 35 65 91 41 74
'NKD2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.368 (Fisher's exact test), Q value = 0.89

Table S821.  Gene #82: 'NKD2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
NKD2 MUTATED 0 2 1 1
NKD2 WILD-TYPE 136 105 182 82
'NKD2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S822.  Gene #82: 'NKD2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
NKD2 MUTATED 2 1 1
NKD2 WILD-TYPE 220 183 102
'NKD2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S823.  Gene #82: 'NKD2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
NKD2 MUTATED 2 1 1
NKD2 WILD-TYPE 182 161 158
'NKD2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.839 (Fisher's exact test), Q value = 1

Table S824.  Gene #82: 'NKD2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
NKD2 MUTATED 1 1 1 1
NKD2 WILD-TYPE 89 137 187 88
'MAX MUTATION STATUS' versus 'CN_CNMF'

P value = 0.123 (Fisher's exact test), Q value = 0.53

Table S825.  Gene #83: 'MAX MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
MAX MUTATED 0 0 4
MAX WILD-TYPE 169 120 217
'MAX MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0907 (Fisher's exact test), Q value = 0.44

Table S826.  Gene #83: 'MAX MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
MAX MUTATED 0 0 3 1
MAX WILD-TYPE 222 81 165 41
'MAX MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.233 (Fisher's exact test), Q value = 0.74

Table S827.  Gene #83: 'MAX MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
MAX MUTATED 0 0 1 3
MAX WILD-TYPE 91 95 124 112
'MAX MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.537 (Fisher's exact test), Q value = 1

Table S828.  Gene #83: 'MAX MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
MAX MUTATED 0 1 3
MAX WILD-TYPE 82 158 182
'MAX MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.184 (Fisher's exact test), Q value = 0.67

Table S829.  Gene #83: 'MAX MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
MAX MUTATED 0 0 1 2 1
MAX WILD-TYPE 132 109 108 131 29
'MAX MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.157 (Fisher's exact test), Q value = 0.63

Table S830.  Gene #83: 'MAX MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
MAX MUTATED 0 0 1 0 1 0 2
MAX WILD-TYPE 134 71 35 66 90 41 72
'MAX MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.306 (Fisher's exact test), Q value = 0.83

Table S831.  Gene #83: 'MAX MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
MAX MUTATED 0 0 3 1
MAX WILD-TYPE 136 107 180 82
'MAX MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.83 (Fisher's exact test), Q value = 1

Table S832.  Gene #83: 'MAX MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
MAX MUTATED 2 2 0
MAX WILD-TYPE 220 182 103
'MAX MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.335 (Fisher's exact test), Q value = 0.84

Table S833.  Gene #83: 'MAX MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
MAX MUTATED 0 2 2
MAX WILD-TYPE 184 160 157
'MAX MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.761 (Fisher's exact test), Q value = 1

Table S834.  Gene #83: 'MAX MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
MAX MUTATED 0 2 2 0
MAX WILD-TYPE 90 136 186 89
'VSIG4 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.207 (Fisher's exact test), Q value = 0.71

Table S835.  Gene #84: 'VSIG4 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 169 120 221
VSIG4 MUTATED 4 0 2
VSIG4 WILD-TYPE 165 120 219
'VSIG4 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.169 (Fisher's exact test), Q value = 0.65

Table S836.  Gene #84: 'VSIG4 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 222 81 168 42
VSIG4 MUTATED 2 0 2 2
VSIG4 WILD-TYPE 220 81 166 40
'VSIG4 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.459 (Fisher's exact test), Q value = 0.96

Table S837.  Gene #84: 'VSIG4 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 125 115
VSIG4 MUTATED 2 0 3 1
VSIG4 WILD-TYPE 89 95 122 114
'VSIG4 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.749 (Fisher's exact test), Q value = 1

Table S838.  Gene #84: 'VSIG4 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 82 159 185
VSIG4 MUTATED 2 2 2
VSIG4 WILD-TYPE 80 157 183
'VSIG4 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S839.  Gene #84: 'VSIG4 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 132 109 109 133 30
VSIG4 MUTATED 2 0 2 2 0
VSIG4 WILD-TYPE 130 109 107 131 30
'VSIG4 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.501 (Fisher's exact test), Q value = 1

Table S840.  Gene #84: 'VSIG4 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 134 71 36 66 91 41 74
VSIG4 MUTATED 2 0 1 2 1 0 0
VSIG4 WILD-TYPE 132 71 35 64 90 41 74
'VSIG4 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.764 (Fisher's exact test), Q value = 1

Table S841.  Gene #84: 'VSIG4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 136 107 183 83
VSIG4 MUTATED 1 1 2 2
VSIG4 WILD-TYPE 135 106 181 81
'VSIG4 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S842.  Gene #84: 'VSIG4 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 222 184 103
VSIG4 MUTATED 3 3 0
VSIG4 WILD-TYPE 219 181 103
'VSIG4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S843.  Gene #84: 'VSIG4 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 184 162 159
VSIG4 MUTATED 2 3 1
VSIG4 WILD-TYPE 182 159 158
'VSIG4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.392 (Fisher's exact test), Q value = 0.91

Table S844.  Gene #84: 'VSIG4 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 90 138 188 89
VSIG4 MUTATED 0 3 3 0
VSIG4 WILD-TYPE 90 135 185 89
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/LGG-TP/20067755/transformed.cor.cli.txt

  • Molecular subtypes file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/LGG-TP/20146758/LGG-TP.transferedmergedcluster.txt

  • Number of patients = 513

  • Number of significantly mutated genes = 84

  • 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)
Copyright © 2015 Broad Institute TCGA GDAC as part of the TCGA Research Network. All rights reserved.
Made with Nozzle