Correlation between gene mutation status and molecular subtypes
Overview
Introduction

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

Summary

Testing the association between mutation status of 92 genes and 12 molecular subtypes across 516 patients, 183 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',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

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

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

  • 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'.

  • STK19 mutation correlated to 'MIRSEQ_MATURE_CNMF'.

  • SMARCA4 mutation correlated to 'METHLYATION_CNMF' and 'MIRSEQ_MATURE_CNMF'.

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

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

  • DNMT3A mutation correlated to 'MIRSEQ_CHIERARCHICAL'.

  • IRS4 mutation correlated to 'MRNASEQ_CHIERARCHICAL'.

  • MYST4 mutation correlated to 'CN_CNMF'.

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

  • CUL4B mutation correlated to 'MIRSEQ_CHIERARCHICAL' and 'MIRSEQ_MATURE_CNMF'.

  • DLX6 mutation correlated to 'MIRSEQ_MATURE_CNMF'.

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

  • SRPX mutation correlated to 'MIRSEQ_MATURE_CHIERARCHICAL'.

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

  • SLC6A3 mutation correlated to 'RPPA_CHIERARCHICAL'.

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

  • PTPN11 mutation correlated to 'MIRSEQ_CHIERARCHICAL' and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • MYT1 mutation correlated to 'MRNASEQ_CHIERARCHICAL'.

  • PRX mutation correlated to 'MIRSEQ_CHIERARCHICAL'.

  • ELF4 mutation correlated to 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • ZNF709 mutation correlated to 'METHLYATION_CNMF'.

  • PLCG1 mutation correlated to 'CN_CNMF',  'MRNASEQ_CNMF',  'MIRSEQ_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

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

  • DLC1 mutation correlated to 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • SETD2 mutation correlated to 'METHLYATION_CNMF' and 'MRNASEQ_CNMF'.

  • ZC3H11A mutation correlated to 'CN_CNMF',  'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL', and 'MIRSEQ_CHIERARCHICAL'.

  • RBBP6 mutation correlated to 'METHLYATION_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • CCDC135 mutation correlated to 'MRNASEQ_CHIERARCHICAL'.

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

  • KTELC1 mutation correlated to 'MIRSEQ_CHIERARCHICAL'.

  • GPR133 mutation correlated to 'MRNASEQ_CNMF'.

  • WRN mutation correlated to 'CN_CNMF',  'MRNASEQ_CNMF',  'MRNASEQ_CHIERARCHICAL',  'MIRSEQ_MATURE_CNMF', and 'MIRSEQ_MATURE_CHIERARCHICAL'.

  • PHF3 mutation correlated to 'CN_CNMF'.

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

  • ZNF148 mutation correlated to 'MIRSEQ_MATURE_CHIERARCHICAL'.

Results
Overview of the results

Table 1.  Get Full Table Overview of the association between mutation status of 92 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, 183 significant findings detected.

Clinical
Features 		MRNA
CNMF 		MRNA
CHIERARCHICAL 		CN
CNMF 		METHLYATION
CNMF 		RPPA
CNMF 		RPPA
CHIERARCHICAL 		MRNASEQ
CNMF 		MRNASEQ
CHIERARCHICAL 		MIRSEQ
CNMF 		MIRSEQ
CHIERARCHICAL 		MIRSEQ
MATURE
CNMF 		MIRSEQ
MATURE
CHIERARCHICAL
nMutated (%) nWild-Type Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test
TP53 251 (49%) 265 0.0952
(0.436) 		0.00632
(0.0618) 		1e-05
(0.000197) 		1e-05
(0.000197) 		0.00578
(0.0588) 		0.00318
(0.0362) 		1e-05
(0.000197) 		1e-05
(0.000197) 		1e-05
(0.000197) 		4e-05
(0.000736) 		1e-05
(0.000197) 		1e-05
(0.000197)
IDH1 401 (78%) 115 0.226
(0.75) 		0.882
(1.00) 		1e-05
(0.000197) 		1e-05
(0.000197) 		0.00156
(0.0195) 		0.0005
(0.00726) 		1e-05
(0.000197) 		1e-05
(0.000197) 		0.00013
(0.00214) 		1e-05
(0.000197) 		1e-05
(0.000197) 		1e-05
(0.000197)
ATRX 198 (38%) 318 0.026
(0.187) 		0.12
(0.504) 		1e-05
(0.000197) 		1e-05
(0.000197) 		0.121
(0.504) 		0.0335
(0.217) 		1e-05
(0.000197) 		1e-05
(0.000197) 		1e-05
(0.000197) 		2e-05
(0.000374) 		1e-05
(0.000197) 		1e-05
(0.000197)
FUBP1 47 (9%) 469 0.0245
(0.18) 		0.00678
(0.0645) 		1e-05
(0.000197) 		1e-05
(0.000197) 		0.65
(1.00) 		0.684
(1.00) 		1e-05
(0.000197) 		1e-05
(0.000197) 		1e-05
(0.000197) 		0.00108
(0.0142) 		0.00015
(0.00244) 		1e-05
(0.000197)
PTEN 24 (5%) 492 0.00025
(0.00389) 		1e-05
(0.000197) 		0.0115
(0.0993) 		0.00237
(0.0281) 		1e-05
(0.000197) 		1e-05
(0.000197) 		0.00357
(0.0402) 		1e-05
(0.000197) 		0.00026
(0.00399) 		1e-05
(0.000197)
CIC 108 (21%) 408 0.0502
(0.284) 		0.00307
(0.0353) 		1e-05
(0.000197) 		1e-05
(0.000197) 		0.0577
(0.306) 		0.362
(0.874) 		1e-05
(0.000197) 		1e-05
(0.000197) 		1e-05
(0.000197) 		1e-05
(0.000197) 		1e-05
(0.000197) 		1e-05
(0.000197)
NOTCH1 42 (8%) 474 0.617
(1.00) 		0.279
(0.793) 		2e-05
(0.000374) 		1e-05
(0.000197) 		0.617
(1.00) 		0.594
(1.00) 		1e-05
(0.000197) 		1e-05
(0.000197) 		0.0002
(0.00315) 		0.0051
(0.0541) 		1e-05
(0.000197) 		0.00462
(0.0502)
EGFR 35 (7%) 481 1e-05
(0.000197) 		1e-05
(0.000197) 		0.301
(0.819) 		0.055
(0.301) 		1e-05
(0.000197) 		1e-05
(0.000197) 		0.0106
(0.0927) 		1e-05
(0.000197) 		0.0001
(0.00175) 		1e-05
(0.000197)
IDH2 20 (4%) 496 0.00092
(0.0124) 		0.0118
(0.1) 		0.252
(0.772) 		0.09
(0.421) 		0.00637
(0.0618) 		0.00019
(0.00304) 		0.00886
(0.0795) 		0.00066
(0.00922) 		0.0386
(0.237) 		0.0654
(0.334)
PIK3CA 44 (9%) 472 0.00011
(0.00187) 		1e-05
(0.000197) 		0.321
(0.829) 		0.582
(1.00) 		0.00154
(0.0195) 		2e-05
(0.000374) 		0.0283
(0.194) 		0.0375
(0.233) 		0.204
(0.706) 		1e-05
(0.000197)
NF1 33 (6%) 483 0.0553
(0.301) 		1e-05
(0.000197) 		0.0359
(0.225) 		0.184
(0.663) 		1e-05
(0.000197) 		1e-05
(0.000197) 		0.359
(0.874) 		7e-05
(0.00125) 		0.359
(0.874) 		1e-05
(0.000197)
NIPBL 18 (3%) 498 0.00043
(0.00633) 		0.00062
(0.00889) 		0.375
(0.874) 		0.23
(0.75) 		0.00278
(0.0323) 		0.0042
(0.0464) 		0.449
(0.944) 		0.171
(0.638) 		0.0319
(0.211) 		0.0346
(0.221)
ZBTB20 21 (4%) 495 0.00029
(0.00439) 		0.00219
(0.0263) 		0.849
(1.00) 		0.294
(0.81) 		0.0137
(0.114) 		0.00379
(0.0423) 		0.144
(0.572) 		0.0203
(0.158) 		0.0133
(0.112) 		0.147
(0.582)
PDGFRA 10 (2%) 506 0.376
(0.874) 		0.00032
(0.00477) 		0.125
(0.516) 		0.198
(0.698) 		0.00944
(0.084) 		0.00013
(0.00214) 		0.00081
(0.011) 		0.00157
(0.0195) 		0.897
(1.00) 		0.0573
(0.306)
ZC3H11A 6 (1%) 510 0.0192
(0.152) 		0.0268
(0.187) 		0.447
(0.944) 		0.0497
(0.284) 		0.0158
(0.128) 		0.0239
(0.177) 		0.267
(0.781) 		0.0113
(0.098) 		0.1
(0.451) 		0.0542
(0.299)
RBBP6 6 (1%) 510 0.0442
(0.261) 		0.0159
(0.128) 		1
(1.00) 		0.0974
(0.445) 		0.0286
(0.195) 		0.00521
(0.0548) 		0.283
(0.798) 		0.0645
(0.331) 		0.0224
(0.169) 		0.0273
(0.189)
WRN 5 (1%) 511 0.0396
(0.242) 		0.103
(0.462) 		0.909
(1.00) 		0.539
(1.00) 		0.0271
(0.188) 		0.0143
(0.118) 		0.0566
(0.305) 		1
(1.00) 		0.0117
(0.1) 		0.00464
(0.0502)
CREBZF 7 (1%) 509 0.00635
(0.0618) 		0.0484
(0.28) 		0.239
(0.757) 		0.0355
(0.225) 		0.28
(0.793) 		0.0225
(0.169) 		0.176
(0.647) 		0.0143
(0.118) 		0.265
(0.778) 		0.294
(0.81)
PLCG1 6 (1%) 510 0.00107
(0.0142) 		0.215
(0.735) 		0.0936
(0.43) 		0.836
(1.00) 		0.0248
(0.181) 		0.374
(0.874) 		0.0318
(0.211) 		0.0636
(0.33) 		0.0458
(0.268) 		0.0216
(0.166)
MYOCD 9 (2%) 507 0.0357
(0.225) 		0.0378
(0.233) 		0.749
(1.00) 		0.552
(1.00) 		0.0783
(0.383) 		0.0144
(0.118) 		0.279
(0.793) 		0.00063
(0.00892) 		0.142
(0.565) 		0.111
(0.476)
PIK3R1 22 (4%) 494 0.615
(1.00) 		0.582
(1.00) 		0.00506
(0.0541) 		0.00145
(0.0186) 		0.946
(1.00) 		0.831
(1.00) 		0.124
(0.515) 		0.0325
(0.213) 		0.09
(0.421) 		0.583
(1.00) 		0.905
(1.00) 		0.696
(1.00)
FAM47C 19 (4%) 497 0.757
(1.00) 		0.545
(1.00) 		0.318
(0.824) 		0.207
(0.713) 		0.152
(0.597) 		0.00638
(0.0618) 		0.438
(0.944) 		0.0629
(0.328) 		0.00069
(0.00952) 		0.00581
(0.0588)
RB1 6 (1%) 510 0.0541
(0.299) 		0.0178
(0.142) 		0.871
(1.00) 		0.846
(1.00) 		0.0025
(0.0294) 		0.0985
(0.447) 		0.599
(1.00) 		0.0329
(0.215) 		0.702
(1.00) 		0.093
(0.429)
RBPJ 7 (1%) 509 0.157
(0.604) 		0.00727
(0.0673) 		0.106
(0.466) 		0.0499
(0.284) 		0.405
(0.919) 		5e-05
(0.000905) 		0.302
(0.819) 		0.0287
(0.195) 		0.378
(0.875) 		0.232
(0.75)
AGBL1 5 (1%) 511 0.623
(1.00) 		0.37
(0.874) 		0.162
(0.614) 		0.051
(0.287) 		0.0409
(0.247) 		0.042
(0.252) 		0.21
(0.721) 		0.00621
(0.0618) 		0.37
(0.874) 		0.00731
(0.0673)
ARID1A 20 (4%) 496 0.0552
(0.301) 		0.0452
(0.266) 		0.261
(0.772) 		0.634
(1.00) 		0.0229
(0.171) 		0.137
(0.554) 		0.518
(1.00) 		0.606
(1.00) 		0.00558
(0.0576) 		0.0613
(0.323)
SMARCA4 26 (5%) 490 0.635
(1.00) 		0.04
(0.242) 		0.203
(0.705) 		0.954
(1.00) 		0.554
(1.00) 		0.46
(0.96) 		0.312
(0.819) 		0.241
(0.76) 		0.0218
(0.166) 		0.179
(0.653)
CUL4B 10 (2%) 506 0.554
(1.00) 		0.194
(0.691) 		0.269
(0.783) 		0.369
(0.874) 		0.117
(0.498) 		0.0677
(0.343) 		0.174
(0.641) 		0.0075
(0.0684) 		0.0343
(0.22) 		0.316
(0.822)
PTPN11 7 (1%) 509 0.0725
(0.36) 		0.085
(0.403) 		0.496
(0.995) 		0.844
(1.00) 		0.082
(0.394) 		0.229
(0.75) 		0.229
(0.75) 		0.00541
(0.0563) 		0.185
(0.663) 		0.00162
(0.0199)
SETD2 10 (2%) 506 0.0696
(0.348) 		0.018
(0.143) 		1
(1.00) 		0.898
(1.00) 		0.00011
(0.00187) 		0.0524
(0.294) 		0.366
(0.874) 		0.0908
(0.423) 		0.255
(0.772) 		0.811
(1.00)
NUDT11 11 (2%) 505 0.857
(1.00) 		0.242
(0.76) 		0.444
(0.944) 		0.853
(1.00) 		0.257
(0.772) 		0.154
(0.597) 		0.0265
(0.187) 		0.918
(1.00) 		0.555
(1.00) 		0.22
(0.74)
STK19 10 (2%) 506 0.605
(1.00) 		0.287
(0.802) 		0.392
(0.899) 		0.693
(1.00) 		0.334
(0.841) 		0.741
(1.00) 		0.159
(0.609) 		0.543
(1.00) 		0.00717
(0.0671) 		0.724
(1.00)
DNMT3A 11 (2%) 505 1
(1.00) 		0.848
(1.00) 		0.458
(0.957) 		0.26
(0.772) 		0.878
(1.00) 		0.958
(1.00) 		0.305
(0.819) 		0.03
(0.202) 		0.738
(1.00) 		0.775
(1.00)
IRS4 8 (2%) 508 0.344
(0.855) 		0.592
(1.00) 		0.41
(0.921) 		0.37
(0.874) 		0.376
(0.874) 		0.0376
(0.233) 		0.199
(0.7) 		0.381
(0.88) 		0.232
(0.75) 		0.565
(1.00)
MYST4 11 (2%) 505 0.00199
(0.0241) 		0.142
(0.565) 		0.132
(0.542) 		0.65
(1.00) 		0.247
(0.765) 		0.327
(0.829) 		0.185
(0.663) 		1
(1.00) 		0.0731
(0.362) 		0.761
(1.00)
DLX6 4 (1%) 512 1
(1.00) 		0.722
(1.00) 		0.725
(1.00) 		0.327
(0.829) 		0.312
(0.819) 		0.275
(0.792) 		0.438
(0.944) 		0.0758
(0.374) 		0.0254
(0.185) 		0.446
(0.944)
SRPX 4 (1%) 512 0.0779
(0.382) 		0.258
(0.772) 		0.671
(1.00) 		0.255
(0.772) 		0.222
(0.742) 		0.134
(0.545) 		0.336
(0.843) 		0.195
(0.691) 		0.452
(0.948) 		0.0085
(0.0769)
SLC6A3 9 (2%) 507 0.258
(0.772) 		1
(1.00) 		0.312
(0.819) 		0.00986
(0.0871) 		0.72
(1.00) 		0.49
(0.995) 		0.184
(0.663) 		0.504
(1.00) 		0.791
(1.00) 		0.217
(0.737)
MYT1 6 (1%) 510 0.105
(0.465) 		0.141
(0.565) 		0.508
(1.00) 		0.0338
(0.218) 		0.407
(0.92) 		0.756
(1.00) 		0.855
(1.00) 		0.949
(1.00)
PRX 10 (2%) 506 0.375
(0.874) 		0.163
(0.614) 		0.854
(1.00) 		0.841
(1.00) 		0.104
(0.465) 		0.0615
(0.323) 		0.503
(1.00) 		0.00117
(0.0152) 		0.1
(0.451) 		0.494
(0.995)
ELF4 4 (1%) 512 0.689
(1.00) 		0.84
(1.00) 		0.513
(1.00) 		0.16
(0.61) 		0.914
(1.00) 		1
(1.00) 		0.532
(1.00) 		0.0311
(0.208)
ZNF709 3 (1%) 513 0.601
(1.00) 		0.0266
(0.187) 		0.893
(1.00) 		0.313
(0.819) 		0.0672
(0.342) 		0.345
(0.855) 		0.878
(1.00) 		0.598
(1.00) 		0.432
(0.944) 		0.567
(1.00)
DLC1 6 (1%) 510 0.0562
(0.304) 		0.578
(1.00) 		0.67
(1.00) 		0.835
(1.00) 		0.507
(1.00) 		0.516
(1.00) 		0.891
(1.00) 		0.149
(0.586) 		0.645
(1.00) 		0.00717
(0.0671)
CCDC135 7 (1%) 509 1
(1.00) 		0.766
(1.00) 		0.392
(0.899) 		0.431
(0.944) 		0.366
(0.874) 		0.0267
(0.187) 		0.657
(1.00) 		1
(1.00) 		0.917
(1.00) 		0.518
(1.00)
KTELC1 5 (1%) 511 0.852
(1.00) 		0.324
(0.829) 		0.311
(0.819) 		0.539
(1.00) 		0.953
(1.00) 		0.796
(1.00) 		0.118
(0.502) 		0.00673
(0.0645) 		0.93
(1.00) 		0.504
(1.00)
GPR133 4 (1%) 512 0.436
(0.944) 		0.718
(1.00) 		0.313
(0.819) 		0.328
(0.829) 		0.0196
(0.153) 		0.585
(1.00) 		1
(1.00) 		0.685
(1.00) 		0.258
(0.772) 		0.799
(1.00)
PHF3 8 (2%) 508 0.0208
(0.161) 		0.85
(1.00) 		0.777
(1.00) 		0.502
(1.00) 		0.799
(1.00) 		0.59
(1.00) 		0.106
(0.466) 		0.265
(0.778) 		0.474
(0.969) 		0.846
(1.00)
ZNF148 4 (1%) 512 0.0809
(0.39) 		0.219
(0.74) 		0.789
(1.00) 		1
(1.00) 		0.545
(1.00) 		0.22
(0.74) 		0.536
(1.00) 		0.262
(0.772) 		0.841
(1.00) 		0.0264
(0.187)
TCF12 15 (3%) 501 0.751
(1.00) 		0.836
(1.00) 		0.76
(1.00) 		0.51
(1.00) 		0.783
(1.00) 		0.479
(0.975) 		0.853
(1.00) 		0.518
(1.00) 		0.08
(0.389) 		0.359
(0.874)
GAGE2A 8 (2%) 508 1
(1.00) 		0.787
(1.00) 		0.964
(1.00) 		1
(1.00) 		0.725
(1.00) 		0.61
(1.00) 		0.656
(1.00) 		0.901
(1.00) 		0.169
(0.634) 		0.685
(1.00)
TRERF1 6 (1%) 510 0.669
(1.00) 		0.302
(0.819) 		0.556
(1.00) 		0.353
(0.868) 		0.4
(0.908) 		0.584
(1.00) 		0.369
(0.874) 		0.758
(1.00) 		0.358
(0.874) 		0.907
(1.00)
EMG1 5 (1%) 511 0.45
(0.944) 		0.461
(0.96) 		0.729
(1.00) 		0.846
(1.00) 		0.276
(0.792) 		0.433
(0.944) 		0.43
(0.944) 		0.287
(0.802) 		0.192
(0.686) 		0.266
(0.778)
MED9 3 (1%) 513 0.798
(1.00) 		1
(1.00) 		0.331
(0.834) 		0.312
(0.819) 		0.689
(1.00) 		0.849
(1.00) 		0.876
(1.00) 		0.793
(1.00) 		1
(1.00) 		0.768
(1.00)
NRAS 4 (1%) 512 0.113
(0.486) 		0.306
(0.819) 		1
(1.00) 		0.326
(0.829) 		0.71
(1.00) 		0.108
(0.471) 		0.17
(0.636) 		0.682
(1.00) 		0.783
(1.00) 		0.495
(0.995)
PLXNA3 9 (2%) 507 0.624
(1.00) 		0.587
(1.00) 		0.156
(0.602) 		0.218
(0.737) 		0.2
(0.7) 		0.299
(0.819) 		0.354
(0.868) 		0.227
(0.75) 		0.55
(1.00) 		0.273
(0.79)
TNRC18 10 (2%) 506 0.659
(1.00) 		0.448
(0.944) 		0.343
(0.855) 		0.421
(0.938) 		0.446
(0.944) 		0.661
(1.00) 		0.538
(1.00) 		0.543
(1.00) 		0.36
(0.874) 		0.8
(1.00)
HTRA2 5 (1%) 511 0.3
(0.819) 		0.878
(1.00) 		1
(1.00) 		1
(1.00) 		0.952
(1.00) 		0.632
(1.00) 		0.348
(0.862) 		0.724
(1.00) 		0.672
(1.00) 		0.745
(1.00)
ZMIZ1 9 (2%) 507 0.0886
(0.418) 		0.394
(0.901) 		0.18
(0.656) 		0.245
(0.765) 		0.493
(0.995) 		0.303
(0.819) 		0.445
(0.944) 		0.678
(1.00) 		0.0848
(0.403) 		0.138
(0.557)
ROBO3 5 (1%) 511 0.721
(1.00) 		0.583
(1.00) 		0.844
(1.00) 		0.535
(1.00) 		0.799
(1.00) 		0.702
(1.00) 		1
(1.00) 		0.288
(0.802) 		0.929
(1.00) 		0.962
(1.00)
TMEM216 3 (1%) 513 0.234
(0.75) 		0.801
(1.00) 		0.704
(1.00) 		0.601
(1.00) 		0.91
(1.00) 		0.448
(0.944) 		0.521
(1.00) 		0.599
(1.00) 		0.377
(0.874) 		0.909
(1.00)
ARID2 11 (2%) 505 0.859
(1.00) 		0.272
(0.788) 		0.781
(1.00) 		0.643
(1.00) 		0.503
(1.00) 		0.647
(1.00) 		0.591
(1.00) 		0.343
(0.855) 		0.834
(1.00) 		0.933
(1.00)
ZNF292 14 (3%) 502 0.0427
(0.255) 		0.0697
(0.348) 		0.472
(0.969) 		0.462
(0.96) 		0.7
(1.00) 		0.054
(0.299) 		0.398
(0.905) 		0.31
(0.819) 		0.155
(0.601) 		0.0464
(0.269)
PPL 6 (1%) 510 1
(1.00) 		1
(1.00) 		0.202
(0.702) 		0.58
(1.00) 		0.843
(1.00) 		0.247
(0.765) 		0.137
(0.554) 		0.756
(1.00) 		0.735
(1.00) 		0.125
(0.515)
CIB1 4 (1%) 512 0.824
(1.00) 		0.842
(1.00) 		0.624
(1.00) 		0.539
(1.00) 		0.546
(1.00) 		0.174
(0.641) 		0.216
(0.736) 		0.0433
(0.257) 		0.572
(1.00) 		0.26
(0.772)
ANKRD36 7 (1%) 509 0.103
(0.462) 		0.111
(0.476) 		0.42
(0.938) 		0.173
(0.641) 		0.62
(1.00) 		0.467
(0.963) 		0.738
(1.00) 		1
(1.00) 		1
(1.00) 		0.869
(1.00)
NAP1L2 4 (1%) 512 0.274
(0.79) 		0.616
(1.00) 		0.895
(1.00) 		0.0491
(0.283) 		0.294
(0.81) 		0.0629
(0.328) 		1
(1.00) 		0.832
(1.00) 		0.622
(1.00) 		0.856
(1.00)
SMOC1 3 (1%) 513 0.45
(0.944) 		0.652
(1.00) 		0.417
(0.933) 		0.789
(1.00) 		0.677
(1.00) 		1
(1.00) 		0.376
(0.874) 		0.647
(1.00)
ABCA7 10 (2%) 506 0.0688
(0.347) 		0.228
(0.75) 		0.257
(0.772) 		0.279
(0.793) 		0.085
(0.403) 		0.375
(0.874) 		1
(1.00) 		0.0918
(0.426) 		0.286
(0.802) 		0.931
(1.00)
ZNF512B 5 (1%) 511 0.62
(1.00) 		0.878
(1.00) 		0.931
(1.00) 		0.43
(0.944) 		1
(1.00) 		0.861
(1.00) 		1
(1.00) 		1
(1.00) 		0.466
(0.963) 		0.759
(1.00)
SMARCB1 4 (1%) 512 1
(1.00) 		1
(1.00) 		0.0642
(0.331) 		0.23
(0.75) 		0.927
(1.00) 		0.573
(1.00) 		0.438
(0.944) 		0.684
(1.00) 		0.286
(0.802) 		0.779
(1.00)
C9ORF79 10 (2%) 506 0.41
(0.921) 		0.511
(1.00) 		0.546
(1.00) 		0.211
(0.723) 		0.664
(1.00) 		0.65
(1.00) 		0.8
(1.00) 		0.769
(1.00) 		0.707
(1.00) 		0.782
(1.00)
KRT3 4 (1%) 512 1
(1.00) 		1
(1.00) 		0.792
(1.00) 		0.23
(0.75) 		0.674
(1.00) 		0.734
(1.00) 		0.337
(0.843) 		0.195
(0.691) 		0.107
(0.47) 		0.428
(0.944)
NEU2 6 (1%) 510 0.316
(0.822) 		0.802
(1.00) 		0.945
(1.00) 		1
(1.00) 		0.202
(0.702) 		0.766
(1.00) 		0.253
(0.772) 		0.757
(1.00) 		0.442
(0.944) 		0.249
(0.769)
R3HDM1 7 (1%) 509 0.792
(1.00) 		1
(1.00) 		0.289
(0.803) 		0.728
(1.00) 		0.819
(1.00) 		0.639
(1.00) 		0.738
(1.00) 		0.785
(1.00) 		0.24
(0.758) 		0.917
(1.00)
C14ORF4 3 (1%) 513 0.799
(1.00) 		0.411
(0.921) 		1
(1.00) 		0.848
(1.00) 		1
(1.00) 		0.795
(1.00) 		1
(1.00) 		0.867
(1.00)
C4BPA 6 (1%) 510 0.315
(0.822) 		0.578
(1.00) 		0.311
(0.819) 		0.538
(1.00) 		0.93
(1.00) 		0.384
(0.884) 		0.732
(1.00) 		0.505
(1.00) 		0.898
(1.00) 		0.853
(1.00)
ENGASE 5 (1%) 511 0.624
(1.00) 		0.768
(1.00) 		0.255
(0.772) 		0.251
(0.771) 		0.59
(1.00) 		0.441
(0.944) 		0.873
(1.00) 		0.962
(1.00)
G6PC 6 (1%) 510 0.163
(0.614) 		0.475
(0.969) 		0.899
(1.00) 		1
(1.00) 		0.584
(1.00) 		0.0805
(0.39) 		0.406
(0.919) 		0.149
(0.586) 		0.31
(0.819) 		0.736
(1.00)
SLC12A7 7 (1%) 509 0.0573
(0.306) 		0.639
(1.00) 		0.385
(0.885) 		0.323
(0.829) 		0.923
(1.00) 		0.849
(1.00) 		0.444
(0.944) 		0.785
(1.00) 		0.625
(1.00) 		0.953
(1.00)
RET 7 (1%) 509 0.689
(1.00) 		0.639
(1.00) 		0.622
(1.00) 		0.835
(1.00) 		0.475
(0.969) 		0.443
(0.944) 		0.684
(1.00) 		0.153
(0.597) 		0.43
(0.944) 		0.633
(1.00)
USP6 7 (1%) 509 0.616
(1.00) 		0.58
(1.00) 		0.944
(1.00) 		1
(1.00) 		0.443
(0.944) 		0.225
(0.749) 		0.609
(1.00) 		0.246
(0.765) 		0.777
(1.00) 		0.422
(0.938)
SLFN11 6 (1%) 510 0.131
(0.539) 		0.644
(1.00) 		1
(1.00) 		0.362
(0.874) 		0.633
(1.00) 		0.37
(0.874) 		0.369
(0.874) 		0.119
(0.504) 		0.529
(1.00) 		0.27
(0.784)
ASXL2 3 (1%) 513 0.236
(0.75) 		0.324
(0.829) 		0.631
(1.00) 		0.602
(1.00) 		0.832
(1.00) 		0.305
(0.819) 		0.517
(1.00) 		0.792
(1.00) 		0.49
(0.995) 		0.12
(0.504)
KRT15 6 (1%) 510 0.162
(0.614) 		0.233
(0.75) 		1
(1.00) 		0.79
(1.00) 		0.496
(0.995) 		0.462
(0.96) 		0.515
(1.00) 		0.867
(1.00) 		0.948
(1.00) 		0.863
(1.00)
FMR1 5 (1%) 511 0.851
(1.00) 		0.248
(0.766) 		0.326
(0.829) 		0.35
(0.864) 		0.183
(0.663) 		0.449
(0.944) 		0.242
(0.76) 		0.354
(0.868) 		0.73
(1.00) 		0.311
(0.819)
DDX5 5 (1%) 511 0.374
(0.874) 		1
(1.00) 		1
(1.00) 		0.614
(1.00) 		0.539
(1.00) 		0.473
(0.969) 		0.261
(0.772) 		0.528
(1.00) 		0.657
(1.00) 		0.291
(0.808)
SCN4A 6 (1%) 510 0.235
(0.75) 		0.524
(1.00) 		0.565
(1.00) 		0.866
(1.00) 		0.466
(0.963) 		0.11
(0.475) 		0.568
(1.00) 		0.864
(1.00) 		0.109
(0.472) 		0.398
(0.905)
TMEM184A 3 (1%) 513 0.236
(0.75) 		0.323
(0.829) 		0.894
(1.00) 		1
(1.00) 		0.586
(1.00) 		0.172
(0.639) 		0.879
(1.00) 		0.231
(0.75) 		0.631
(1.00) 		0.449
(0.944)
CDH3 3 (1%) 513 0.799
(1.00) 		1
(1.00) 		0.83
(1.00) 		0.281
(0.795) 		1
(1.00) 		0.795
(1.00) 		0.495
(0.995) 		0.674
(1.00)
SLC25A5 4 (1%) 512 1
(1.00) 		0.371
(0.874) 		0.927
(1.00) 		0.444
(0.944) 		0.832
(1.00) 		0.681
(1.00) 		0.909
(1.00) 		0.726
(1.00)
LAMA4 4 (1%) 512 0.435
(0.944) 		0.724
(1.00) 		1
(1.00) 		0.328
(0.829) 		0.124
(0.515) 		0.512
(1.00) 		0.698
(1.00) 		1
(1.00) 		0.909
(1.00) 		0.898
(1.00)
NKD2 4 (1%) 512 1
(1.00) 		1
(1.00) 		0.672
(1.00) 		0.468
(0.965) 		0.307
(0.819) 		1
(1.00) 		1
(1.00) 		0.697
(1.00)
'IDH1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.226 (Fisher's exact test), Q value = 0.75

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 = 0.882 (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 = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
IDH1 MUTATED 189 52 158
IDH1 WILD-TYPE 38 59 17

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 = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
IDH1 MUTATED 205 38 145 13
IDH1 WILD-TYPE 4 98 13 0

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 = 0.00156 (Fisher's exact test), Q value = 0.019

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
IDH1 MUTATED 75 63 110 89
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 = 5e-04 (Fisher's exact test), Q value = 0.0073

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
IDH1 MUTATED 76 128 133
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 = 2e-04

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 130 115 106 135 30
IDH1 MUTATED 128 41 98 110 24
IDH1 WILD-TYPE 2 74 8 25 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 = 2e-04

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 135 71 36 68 91 41 74
IDH1 MUTATED 133 2 32 52 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 = 0.00013 (Fisher's exact test), Q value = 0.0021

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
IDH1 MUTATED 102 73 77 145
IDH1 WILD-TYPE 38 34 6 37

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 = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
IDH1 MUTATED 208 154 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 = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
IDH1 MUTATED 96 76 101 121
IDH1 WILD-TYPE 31 43 5 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 = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
IDH1 MUTATED 93 69 90 54 0 88
IDH1 WILD-TYPE 6 8 30 3 63 4

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 = 0.0952 (Fisher's exact test), Q value = 0.44

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 = 0.00632 (Fisher's exact test), Q value = 0.062

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 = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
TP53 MUTATED 178 61 12
TP53 WILD-TYPE 49 50 163

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 = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
TP53 MUTATED 202 32 7 10
TP53 WILD-TYPE 7 104 151 3

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 = 0.00578 (Fisher's exact test), Q value = 0.059

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
TP53 MUTATED 49 45 69 40
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 = 0.00318 (Fisher's exact test), Q value = 0.036

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
TP53 MUTATED 49 60 94
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 = 2e-04

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 130 115 106 135 30
TP53 MUTATED 127 45 6 59 14
TP53 WILD-TYPE 3 70 100 76 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 = 2e-04

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 135 71 36 68 91 41 74
TP53 MUTATED 130 8 1 50 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 = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
TP53 MUTATED 84 71 17 75
TP53 WILD-TYPE 56 36 66 107

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 = 4e-05 (Fisher's exact test), Q value = 0.00074

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
TP53 MUTATED 134 73 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 = 1e-05 (Fisher's exact test), Q value = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
TP53 MUTATED 88 66 24 66
TP53 WILD-TYPE 39 53 82 90

Figure S20.  Get High-res Image Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'TP53 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
TP53 MUTATED 88 47 42 4 8 55
TP53 WILD-TYPE 11 30 78 53 55 37

Figure S21.  Get High-res Image Gene #2: 'TP53 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'ATRX MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.026 (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 S22.  Get High-res Image Gene #3: 'ATRX MUTATION STATUS' versus Molecular Subtype #1: 'MRNA_CNMF'

'ATRX MUTATION STATUS' versus 'MRNA_CHIERARCHICAL'

P value = 0.12 (Fisher's exact test), Q value = 0.5

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 = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
ATRX MUTATED 146 43 9
ATRX WILD-TYPE 81 68 166

Figure S23.  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 = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
ATRX MUTATED 164 24 3 7
ATRX WILD-TYPE 45 112 155 6

Figure S24.  Get High-res Image Gene #3: 'ATRX MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'ATRX MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.121 (Fisher's exact test), Q value = 0.5

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
ATRX MUTATED 43 34 54 38
ATRX WILD-TYPE 48 61 72 79
'ATRX MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0335 (Fisher's exact test), Q value = 0.22

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
ATRX MUTATED 43 56 70
ATRX WILD-TYPE 40 104 116

Figure S25.  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 = 2e-04

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 130 115 106 135 30
ATRX MUTATED 107 30 2 49 10
ATRX WILD-TYPE 23 85 104 86 20

Figure S26.  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 = 2e-04

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 135 71 36 68 91 41 74
ATRX MUTATED 109 4 1 40 1 26 17
ATRX WILD-TYPE 26 67 35 28 90 15 57

Figure S27.  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 = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
ATRX MUTATED 63 61 10 60
ATRX WILD-TYPE 77 46 73 122

Figure S28.  Get High-res Image Gene #3: 'ATRX MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'ATRX MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 0.00037

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
ATRX MUTATED 109 60 25
ATRX WILD-TYPE 114 126 78

Figure S29.  Get High-res Image Gene #3: 'ATRX MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'ATRX MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
ATRX MUTATED 70 53 16 52
ATRX WILD-TYPE 57 66 90 104

Figure S30.  Get High-res Image Gene #3: 'ATRX MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'ATRX MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
ATRX MUTATED 69 41 34 2 3 42
ATRX WILD-TYPE 30 36 86 55 60 50

Figure S31.  Get High-res Image Gene #3: 'ATRX MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'CIC MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.0502 (Fisher's exact test), Q value = 0.28

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 = 0.00307 (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 S32.  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 = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
CIC MUTATED 2 5 101
CIC WILD-TYPE 225 106 74

Figure S33.  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 = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
CIC MUTATED 0 7 101 0
CIC WILD-TYPE 209 129 57 13

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

'CIC MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0577 (Fisher's exact test), Q value = 0.31

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
CIC MUTATED 13 17 35 30
CIC WILD-TYPE 78 78 91 87
'CIC MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.362 (Fisher's exact test), Q value = 0.87

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
CIC MUTATED 15 41 39
CIC WILD-TYPE 68 119 147
'CIC MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 2e-04

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 130 115 106 135 30
CIC MUTATED 0 2 73 28 5
CIC WILD-TYPE 130 113 33 107 25

Figure S35.  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 = 2e-04

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 135 71 36 68 91 41 74
CIC MUTATED 0 0 23 0 60 1 24
CIC WILD-TYPE 135 71 13 68 31 40 50

Figure S36.  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 = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
CIC MUTATED 17 3 46 42
CIC WILD-TYPE 123 104 37 140

Figure S37.  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 = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
CIC MUTATED 55 51 2
CIC WILD-TYPE 168 135 101

Figure S38.  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 = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
CIC MUTATED 7 8 60 33
CIC WILD-TYPE 120 111 46 123

Figure S39.  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 = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
CIC MUTATED 2 16 25 43 0 22
CIC WILD-TYPE 97 61 95 14 63 70

Figure S40.  Get High-res Image Gene #4: 'CIC MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'NOTCH1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.617 (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 = 0.279 (Fisher's exact test), Q value = 0.79

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-05 (Fisher's exact test), Q value = 0.00037

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
NOTCH1 MUTATED 8 4 30
NOTCH1 WILD-TYPE 219 107 145

Figure S41.  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 = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
NOTCH1 MUTATED 8 1 32 1
NOTCH1 WILD-TYPE 201 135 126 12

Figure S42.  Get High-res Image Gene #5: 'NOTCH1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'NOTCH1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.617 (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 95 126 117
NOTCH1 MUTATED 6 8 15 10
NOTCH1 WILD-TYPE 85 87 111 107
'NOTCH1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.594 (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 83 160 186
NOTCH1 MUTATED 5 16 18
NOTCH1 WILD-TYPE 78 144 168
'NOTCH1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 2e-04

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 130 115 106 135 30
NOTCH1 MUTATED 3 3 21 15 0
NOTCH1 WILD-TYPE 127 112 85 120 30

Figure S43.  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 = 2e-04

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 135 71 36 68 91 41 74
NOTCH1 MUTATED 3 0 13 1 9 3 13
NOTCH1 WILD-TYPE 132 71 23 67 82 38 61

Figure S44.  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 = 0.0032

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
NOTCH1 MUTATED 4 3 14 20
NOTCH1 WILD-TYPE 136 104 69 162

Figure S45.  Get High-res Image Gene #5: 'NOTCH1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'NOTCH1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0051 (Fisher's exact test), Q value = 0.054

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
NOTCH1 MUTATED 16 23 2
NOTCH1 WILD-TYPE 207 163 101

Figure S46.  Get High-res Image Gene #5: 'NOTCH1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'NOTCH1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
NOTCH1 MUTATED 2 3 16 20
NOTCH1 WILD-TYPE 125 116 90 136

Figure S47.  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 = 0.00462 (Fisher's exact test), Q value = 0.05

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
NOTCH1 MUTATED 3 7 15 7 0 9
NOTCH1 WILD-TYPE 96 70 105 50 63 83

Figure S48.  Get High-res Image Gene #5: 'NOTCH1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'IDH2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.00092 (Fisher's exact test), Q value = 0.012

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
IDH2 MUTATED 3 2 15
IDH2 WILD-TYPE 224 109 160

Figure S49.  Get High-res Image Gene #6: 'IDH2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'IDH2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0118 (Fisher's exact test), Q value = 0.1

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
IDH2 MUTATED 3 4 13 0
IDH2 WILD-TYPE 206 132 145 13

Figure S50.  Get High-res Image Gene #6: 'IDH2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'IDH2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.252 (Fisher's exact test), Q value = 0.77

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
IDH2 MUTATED 1 5 4 7
IDH2 WILD-TYPE 90 90 122 110
'IDH2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.09 (Fisher's exact test), Q value = 0.42

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
IDH2 MUTATED 0 8 9
IDH2 WILD-TYPE 83 152 177
'IDH2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.00637 (Fisher's exact test), Q value = 0.062

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 130 115 106 135 30
IDH2 MUTATED 1 1 8 9 1
IDH2 WILD-TYPE 129 114 98 126 29

Figure S51.  Get High-res Image Gene #6: 'IDH2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'IDH2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00019 (Fisher's exact test), Q value = 0.003

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 135 71 36 68 91 41 74
IDH2 MUTATED 1 0 4 1 6 0 8
IDH2 WILD-TYPE 134 71 32 67 85 41 66

Figure S52.  Get High-res Image Gene #6: 'IDH2 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'IDH2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.00886 (Fisher's exact test), Q value = 0.08

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
IDH2 MUTATED 3 0 5 12
IDH2 WILD-TYPE 137 107 78 170

Figure S53.  Get High-res Image Gene #6: 'IDH2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'IDH2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00066 (Fisher's exact test), Q value = 0.0092

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
IDH2 MUTATED 5 15 0
IDH2 WILD-TYPE 218 171 103

Figure S54.  Get High-res Image Gene #6: 'IDH2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'IDH2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0386 (Fisher's exact test), Q value = 0.24

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
IDH2 MUTATED 1 3 5 11
IDH2 WILD-TYPE 126 116 101 145

Figure S55.  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 = 0.0654 (Fisher's exact test), Q value = 0.33

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
IDH2 MUTATED 2 3 10 3 0 2
IDH2 WILD-TYPE 97 74 110 54 63 90
'PIK3R1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.615 (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 = 0.582 (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 = 0.00506 (Fisher's exact test), Q value = 0.054

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
PIK3R1 MUTATED 3 6 13
PIK3R1 WILD-TYPE 224 105 162

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 = 0.00145 (Fisher's exact test), Q value = 0.019

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
PIK3R1 MUTATED 2 6 12 2
PIK3R1 WILD-TYPE 207 130 146 11

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 = 0.946 (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 95 126 117
PIK3R1 MUTATED 5 4 5 6
PIK3R1 WILD-TYPE 86 91 121 111
'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 83 160 186
PIK3R1 MUTATED 3 9 8
PIK3R1 WILD-TYPE 80 151 178
'PIK3R1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.124 (Fisher's exact test), Q value = 0.52

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 130 115 106 135 30
PIK3R1 MUTATED 2 6 8 4 2
PIK3R1 WILD-TYPE 128 109 98 131 28
'PIK3R1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0325 (Fisher's exact test), Q value = 0.21

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 135 71 36 68 91 41 74
PIK3R1 MUTATED 3 2 1 0 9 3 4
PIK3R1 WILD-TYPE 132 69 35 68 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 = 0.09 (Fisher's exact test), Q value = 0.42

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
PIK3R1 MUTATED 6 3 8 5
PIK3R1 WILD-TYPE 134 104 75 177
'PIK3R1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.583 (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 223 186 103
PIK3R1 MUTATED 12 7 3
PIK3R1 WILD-TYPE 211 179 100
'PIK3R1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.905 (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 CLUS_4
ALL 127 119 106 156
PIK3R1 MUTATED 5 5 6 6
PIK3R1 WILD-TYPE 122 114 100 150
'PIK3R1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.696 (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 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
PIK3R1 MUTATED 3 3 5 5 2 4
PIK3R1 WILD-TYPE 96 74 115 52 61 88
'FUBP1 MUTATION STATUS' versus 'MRNA_CNMF'

P value = 0.0245 (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 = 0.00678 (Fisher's exact test), Q value = 0.065

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 = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
FUBP1 MUTATED 0 1 46
FUBP1 WILD-TYPE 227 110 129

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 = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
FUBP1 MUTATED 0 5 42 0
FUBP1 WILD-TYPE 209 131 116 13

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 = 0.65 (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 95 126 117
FUBP1 MUTATED 7 7 13 14
FUBP1 WILD-TYPE 84 88 113 103
'FUBP1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.684 (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 83 160 186
FUBP1 MUTATED 7 18 16
FUBP1 WILD-TYPE 76 142 170
'FUBP1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 2e-04

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 130 115 106 135 30
FUBP1 MUTATED 0 2 31 11 3
FUBP1 WILD-TYPE 130 113 75 124 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 = 2e-04

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 135 71 36 68 91 41 74
FUBP1 MUTATED 0 0 12 0 22 1 12
FUBP1 WILD-TYPE 135 71 24 68 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 = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
FUBP1 MUTATED 6 1 19 21
FUBP1 WILD-TYPE 134 106 64 161

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 = 0.00108 (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 223 186 103
FUBP1 MUTATED 24 22 1
FUBP1 WILD-TYPE 199 164 102

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 = 0.00015 (Fisher's exact test), Q value = 0.0024

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
FUBP1 MUTATED 6 4 21 16
FUBP1 WILD-TYPE 121 115 85 140

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 = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
FUBP1 MUTATED 0 6 15 15 0 11
FUBP1 WILD-TYPE 99 71 105 42 63 81

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 = 0.0553 (Fisher's exact test), Q value = 0.3

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
NF1 MUTATED 12 13 8
NF1 WILD-TYPE 215 98 167
'NF1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
NF1 MUTATED 1 24 7 1
NF1 WILD-TYPE 208 112 151 12

Figure S69.  Get High-res Image Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'NF1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0359 (Fisher's exact test), Q value = 0.23

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
NF1 MUTATED 1 10 6 8
NF1 WILD-TYPE 90 85 120 109

Figure S70.  Get High-res Image Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

'NF1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.184 (Fisher's exact test), Q value = 0.66

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
NF1 MUTATED 2 8 15
NF1 WILD-TYPE 81 152 171
'NF1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 2e-04

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 130 115 106 135 30
NF1 MUTATED 1 19 6 5 2
NF1 WILD-TYPE 129 96 100 130 28

Figure S71.  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 = 2e-04

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 135 71 36 68 91 41 74
NF1 MUTATED 1 16 1 3 6 4 2
NF1 WILD-TYPE 134 55 35 65 85 37 72

Figure S72.  Get High-res Image Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'NF1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.359 (Fisher's exact test), Q value = 0.87

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
NF1 MUTATED 8 11 5 9
NF1 WILD-TYPE 132 96 78 173
'NF1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
NF1 MUTATED 10 6 17
NF1 WILD-TYPE 213 180 86

Figure S73.  Get High-res Image Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'NF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.359 (Fisher's exact test), Q value = 0.87

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
NF1 MUTATED 11 10 5 7
NF1 WILD-TYPE 116 109 101 149
'NF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
NF1 MUTATED 1 4 5 2 16 5
NF1 WILD-TYPE 98 73 115 55 47 87

Figure S74.  Get High-res Image Gene #9: 'NF1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'TCF12 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.751 (Fisher's exact test), Q value = 1

Table S105.  Gene #10: 'TCF12 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
TCF12 MUTATED 7 2 6
TCF12 WILD-TYPE 220 109 169
'TCF12 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S106.  Gene #10: 'TCF12 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
TCF12 MUTATED 6 3 6 0
TCF12 WILD-TYPE 203 133 152 13
'TCF12 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.76 (Fisher's exact test), Q value = 1

Table S107.  Gene #10: 'TCF12 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
TCF12 MUTATED 3 2 5 2
TCF12 WILD-TYPE 88 93 121 115
'TCF12 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.51 (Fisher's exact test), Q value = 1

Table S108.  Gene #10: 'TCF12 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
TCF12 MUTATED 1 4 7
TCF12 WILD-TYPE 82 156 179
'TCF12 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.783 (Fisher's exact test), Q value = 1

Table S109.  Gene #10: 'TCF12 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
TCF12 MUTATED 4 3 5 3 0
TCF12 WILD-TYPE 126 112 101 132 30
'TCF12 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.479 (Fisher's exact test), Q value = 0.97

Table S110.  Gene #10: '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 135 71 36 68 91 41 74
TCF12 MUTATED 4 1 3 2 2 2 1
TCF12 WILD-TYPE 131 70 33 66 89 39 73
'TCF12 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.853 (Fisher's exact test), Q value = 1

Table S111.  Gene #10: 'TCF12 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
TCF12 MUTATED 5 2 3 5
TCF12 WILD-TYPE 135 105 80 177
'TCF12 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.518 (Fisher's exact test), Q value = 1

Table S112.  Gene #10: 'TCF12 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
TCF12 MUTATED 8 6 1
TCF12 WILD-TYPE 215 180 102
'TCF12 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.08 (Fisher's exact test), Q value = 0.39

Table S113.  Gene #10: 'TCF12 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
TCF12 MUTATED 5 0 5 5
TCF12 WILD-TYPE 122 119 101 151
'TCF12 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.359 (Fisher's exact test), Q value = 0.87

Table S114.  Gene #10: 'TCF12 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
TCF12 MUTATED 4 0 5 3 1 2
TCF12 WILD-TYPE 95 77 115 54 62 90
'PTEN MUTATION STATUS' versus 'CN_CNMF'

P value = 0.00025 (Fisher's exact test), Q value = 0.0039

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
PTEN MUTATED 9 13 2
PTEN WILD-TYPE 218 98 173

Figure S75.  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 = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
PTEN MUTATED 3 20 1 0
PTEN WILD-TYPE 206 116 157 13

Figure S76.  Get High-res Image Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'PTEN MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0115 (Fisher's exact test), Q value = 0.099

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
PTEN MUTATED 2 9 2 2
PTEN WILD-TYPE 89 86 124 115

Figure S77.  Get High-res Image Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

'PTEN MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.00237 (Fisher's exact test), Q value = 0.028

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
PTEN MUTATED 0 2 13
PTEN WILD-TYPE 83 158 173

Figure S78.  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 = 2e-04

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 130 115 106 135 30
PTEN MUTATED 3 18 1 0 2
PTEN WILD-TYPE 127 97 105 135 28

Figure S79.  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 = 2e-04

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 135 71 36 68 91 41 74
PTEN MUTATED 2 18 0 1 1 2 0
PTEN WILD-TYPE 133 53 36 67 90 39 74

Figure S80.  Get High-res Image Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'PTEN MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.00357 (Fisher's exact test), Q value = 0.04

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
PTEN MUTATED 12 8 1 3
PTEN WILD-TYPE 128 99 82 179

Figure S81.  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 = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
PTEN MUTATED 6 1 17
PTEN WILD-TYPE 217 185 86

Figure S82.  Get High-res Image Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'PTEN MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00026 (Fisher's exact test), Q value = 0.004

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
PTEN MUTATED 8 13 1 2
PTEN WILD-TYPE 119 106 105 154

Figure S83.  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 = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
PTEN MUTATED 3 1 0 1 17 2
PTEN WILD-TYPE 96 76 120 56 46 90

Figure S84.  Get High-res Image Gene #11: 'PTEN MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'ARID1A MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0552 (Fisher's exact test), Q value = 0.3

Table S125.  Gene #12: 'ARID1A MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
ARID1A MUTATED 4 4 11
ARID1A WILD-TYPE 223 107 164
'ARID1A MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0452 (Fisher's exact test), Q value = 0.27

Table S126.  Gene #12: 'ARID1A MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
ARID1A MUTATED 6 2 12 0
ARID1A WILD-TYPE 203 134 146 13

Figure S85.  Get High-res Image Gene #12: 'ARID1A MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'ARID1A MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.261 (Fisher's exact test), Q value = 0.77

Table S127.  Gene #12: 'ARID1A MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
ARID1A MUTATED 4 1 8 5
ARID1A WILD-TYPE 87 94 118 112
'ARID1A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S128.  Gene #12: 'ARID1A MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
ARID1A MUTATED 5 6 7
ARID1A WILD-TYPE 78 154 179
'ARID1A MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0229 (Fisher's exact test), Q value = 0.17

Table S129.  Gene #12: 'ARID1A MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
ARID1A MUTATED 4 1 10 5 0
ARID1A WILD-TYPE 126 114 96 130 30

Figure S86.  Get High-res Image Gene #12: 'ARID1A MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'ARID1A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.137 (Fisher's exact test), Q value = 0.55

Table S130.  Gene #12: '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 135 71 36 68 91 41 74
ARID1A MUTATED 4 0 3 2 7 1 3
ARID1A WILD-TYPE 131 71 33 66 84 40 71
'ARID1A MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.518 (Fisher's exact test), Q value = 1

Table S131.  Gene #12: 'ARID1A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
ARID1A MUTATED 6 2 5 7
ARID1A WILD-TYPE 134 105 78 175
'ARID1A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S132.  Gene #12: 'ARID1A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
ARID1A MUTATED 10 8 2
ARID1A WILD-TYPE 213 178 101
'ARID1A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00558 (Fisher's exact test), Q value = 0.058

Table S133.  Gene #12: 'ARID1A MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
ARID1A MUTATED 2 1 10 7
ARID1A WILD-TYPE 125 118 96 149

Figure S87.  Get High-res Image Gene #12: 'ARID1A MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'ARID1A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0613 (Fisher's exact test), Q value = 0.32

Table S134.  Gene #12: 'ARID1A MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
ARID1A MUTATED 2 3 3 7 1 4
ARID1A WILD-TYPE 97 74 117 50 62 88
'EGFR MUTATION STATUS' versus 'CN_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
EGFR MUTATED 8 24 3
EGFR WILD-TYPE 219 87 172

Figure S88.  Get High-res Image Gene #13: '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 = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
EGFR MUTATED 0 33 2 0
EGFR WILD-TYPE 209 103 156 13

Figure S89.  Get High-res Image Gene #13: 'EGFR MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'EGFR MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.301 (Fisher's exact test), Q value = 0.82

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
EGFR MUTATED 4 9 5 9
EGFR WILD-TYPE 87 86 121 108
'EGFR MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.055 (Fisher's exact test), Q value = 0.3

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
EGFR MUTATED 1 10 16
EGFR WILD-TYPE 82 150 170
'EGFR MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
EGFR MUTATED 0 26 2 5 2
EGFR WILD-TYPE 130 89 104 130 28

Figure S90.  Get High-res Image Gene #13: '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 = 2e-04

Table S140.  Gene #13: '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 135 71 36 68 91 41 74
EGFR MUTATED 0 25 1 6 0 1 2
EGFR WILD-TYPE 135 46 35 62 91 40 72

Figure S91.  Get High-res Image Gene #13: 'EGFR MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'EGFR MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0106 (Fisher's exact test), Q value = 0.093

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
EGFR MUTATED 11 11 0 13
EGFR WILD-TYPE 129 96 83 169

Figure S92.  Get High-res Image Gene #13: '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 = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
EGFR MUTATED 1 9 25
EGFR WILD-TYPE 222 177 78

Figure S93.  Get High-res Image Gene #13: 'EGFR MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'EGFR MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 1e-04 (Fisher's exact test), Q value = 0.0018

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
EGFR MUTATED 6 17 0 12
EGFR WILD-TYPE 121 102 106 144

Figure S94.  Get High-res Image Gene #13: '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 = 2e-04

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
EGFR MUTATED 0 1 8 0 24 2
EGFR WILD-TYPE 99 76 112 57 39 90

Figure S95.  Get High-res Image Gene #13: 'EGFR MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'GAGE2A MUTATION STATUS' versus 'CN_CNMF'

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

Table S145.  Gene #14: 'GAGE2A MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
GAGE2A MUTATED 4 1 3
GAGE2A WILD-TYPE 223 110 172
'GAGE2A MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S146.  Gene #14: 'GAGE2A MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
GAGE2A MUTATED 4 1 3 0
GAGE2A WILD-TYPE 205 135 155 13
'GAGE2A MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S147.  Gene #14: 'GAGE2A MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
GAGE2A MUTATED 1 2 3 2
GAGE2A WILD-TYPE 90 93 123 115
'GAGE2A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S148.  Gene #14: 'GAGE2A MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
GAGE2A MUTATED 1 3 4
GAGE2A WILD-TYPE 82 157 182
'GAGE2A MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S149.  Gene #14: 'GAGE2A MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
GAGE2A MUTATED 1 2 2 2 1
GAGE2A WILD-TYPE 129 113 104 133 29
'GAGE2A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.61 (Fisher's exact test), Q value = 1

Table S150.  Gene #14: '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 135 71 36 68 91 41 74
GAGE2A MUTATED 2 1 0 0 1 1 3
GAGE2A WILD-TYPE 133 70 36 68 90 40 71
'GAGE2A MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.656 (Fisher's exact test), Q value = 1

Table S151.  Gene #14: 'GAGE2A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
GAGE2A MUTATED 1 3 1 3
GAGE2A WILD-TYPE 139 104 82 179
'GAGE2A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S152.  Gene #14: 'GAGE2A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
GAGE2A MUTATED 3 3 2
GAGE2A WILD-TYPE 220 183 101
'GAGE2A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.169 (Fisher's exact test), Q value = 0.63

Table S153.  Gene #14: 'GAGE2A MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
GAGE2A MUTATED 0 4 1 3
GAGE2A WILD-TYPE 127 115 105 153
'GAGE2A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.685 (Fisher's exact test), Q value = 1

Table S154.  Gene #14: 'GAGE2A MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
GAGE2A MUTATED 1 3 2 0 1 1
GAGE2A WILD-TYPE 98 74 118 57 62 91
'NUDT11 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.857 (Fisher's exact test), Q value = 1

Table S155.  Gene #15: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
NUDT11 MUTATED 5 3 3
NUDT11 WILD-TYPE 222 108 172
'NUDT11 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.242 (Fisher's exact test), Q value = 0.76

Table S156.  Gene #15: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
NUDT11 MUTATED 5 1 4 1
NUDT11 WILD-TYPE 204 135 154 12
'NUDT11 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.444 (Fisher's exact test), Q value = 0.94

Table S157.  Gene #15: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
NUDT11 MUTATED 2 4 4 1
NUDT11 WILD-TYPE 89 91 122 116
'NUDT11 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.853 (Fisher's exact test), Q value = 1

Table S158.  Gene #15: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
NUDT11 MUTATED 2 3 6
NUDT11 WILD-TYPE 81 157 180
'NUDT11 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.257 (Fisher's exact test), Q value = 0.77

Table S159.  Gene #15: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
NUDT11 MUTATED 2 3 3 1 2
NUDT11 WILD-TYPE 128 112 103 134 28
'NUDT11 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.154 (Fisher's exact test), Q value = 0.6

Table S160.  Gene #15: '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 135 71 36 68 91 41 74
NUDT11 MUTATED 3 0 1 0 3 3 1
NUDT11 WILD-TYPE 132 71 35 68 88 38 73
'NUDT11 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0265 (Fisher's exact test), Q value = 0.19

Table S161.  Gene #15: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
NUDT11 MUTATED 1 4 4 1
NUDT11 WILD-TYPE 139 103 79 181

Figure S96.  Get High-res Image Gene #15: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'NUDT11 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.918 (Fisher's exact test), Q value = 1

Table S162.  Gene #15: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
NUDT11 MUTATED 5 3 2
NUDT11 WILD-TYPE 218 183 101
'NUDT11 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.555 (Fisher's exact test), Q value = 1

Table S163.  Gene #15: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
NUDT11 MUTATED 1 4 2 3
NUDT11 WILD-TYPE 126 115 104 153
'NUDT11 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.22 (Fisher's exact test), Q value = 0.74

Table S164.  Gene #15: 'NUDT11 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
NUDT11 MUTATED 2 3 1 0 0 4
NUDT11 WILD-TYPE 97 74 119 57 63 88
'PIK3CA MUTATION STATUS' versus 'CN_CNMF'

P value = 0.00011 (Fisher's exact test), Q value = 0.0019

Table S165.  Gene #16: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
PIK3CA MUTATED 7 12 25
PIK3CA WILD-TYPE 220 99 150

Figure S97.  Get High-res Image Gene #16: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'PIK3CA MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 1e-05 (Fisher's exact test), Q value = 2e-04

Table S166.  Gene #16: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
PIK3CA MUTATED 3 19 22 0
PIK3CA WILD-TYPE 206 117 136 13

Figure S98.  Get High-res Image Gene #16: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'PIK3CA MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.321 (Fisher's exact test), Q value = 0.83

Table S167.  Gene #16: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
PIK3CA MUTATED 9 10 6 11
PIK3CA WILD-TYPE 82 85 120 106
'PIK3CA MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.582 (Fisher's exact test), Q value = 1

Table S168.  Gene #16: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
PIK3CA MUTATED 7 16 13
PIK3CA WILD-TYPE 76 144 173
'PIK3CA MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.00154 (Fisher's exact test), Q value = 0.019

Table S169.  Gene #16: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
PIK3CA MUTATED 2 14 15 10 3
PIK3CA WILD-TYPE 128 101 91 125 27

Figure S99.  Get High-res Image Gene #16: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'PIK3CA MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 2e-05 (Fisher's exact test), Q value = 0.00037

Table S170.  Gene #16: '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 135 71 36 68 91 41 74
PIK3CA MUTATED 1 11 2 2 15 4 9
PIK3CA WILD-TYPE 134 60 34 66 76 37 65

Figure S100.  Get High-res Image Gene #16: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'PIK3CA MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0283 (Fisher's exact test), Q value = 0.19

Table S171.  Gene #16: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
PIK3CA MUTATED 6 14 11 13
PIK3CA WILD-TYPE 134 93 72 169

Figure S101.  Get High-res Image Gene #16: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'PIK3CA MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0375 (Fisher's exact test), Q value = 0.23

Table S172.  Gene #16: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
PIK3CA MUTATED 13 16 15
PIK3CA WILD-TYPE 210 170 88

Figure S102.  Get High-res Image Gene #16: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'PIK3CA MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.204 (Fisher's exact test), Q value = 0.71

Table S173.  Gene #16: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
PIK3CA MUTATED 6 10 13 15
PIK3CA WILD-TYPE 121 109 93 141
'PIK3CA MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 1e-05 (Fisher's exact test), Q value = 2e-04

Table S174.  Gene #16: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
PIK3CA MUTATED 0 4 13 13 10 4
PIK3CA WILD-TYPE 99 73 107 44 53 88

Figure S103.  Get High-res Image Gene #16: 'PIK3CA MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'STK19 MUTATION STATUS' versus 'CN_CNMF'

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

Table S175.  Gene #17: 'STK19 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
STK19 MUTATED 5 3 2
STK19 WILD-TYPE 222 108 173
'STK19 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.287 (Fisher's exact test), Q value = 0.8

Table S176.  Gene #17: 'STK19 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
STK19 MUTATED 4 5 1 0
STK19 WILD-TYPE 205 131 157 13
'STK19 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.392 (Fisher's exact test), Q value = 0.9

Table S177.  Gene #17: 'STK19 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
STK19 MUTATED 3 0 2 2
STK19 WILD-TYPE 88 95 124 115
'STK19 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S178.  Gene #17: 'STK19 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
STK19 MUTATED 2 3 2
STK19 WILD-TYPE 81 157 184
'STK19 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.334 (Fisher's exact test), Q value = 0.84

Table S179.  Gene #17: 'STK19 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
STK19 MUTATED 2 3 0 4 1
STK19 WILD-TYPE 128 112 106 131 29
'STK19 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.741 (Fisher's exact test), Q value = 1

Table S180.  Gene #17: '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 135 71 36 68 91 41 74
STK19 MUTATED 2 2 0 3 1 1 1
STK19 WILD-TYPE 133 69 36 65 90 40 73
'STK19 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.159 (Fisher's exact test), Q value = 0.61

Table S181.  Gene #17: 'STK19 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
STK19 MUTATED 1 4 0 5
STK19 WILD-TYPE 139 103 83 177
'STK19 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.543 (Fisher's exact test), Q value = 1

Table S182.  Gene #17: 'STK19 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
STK19 MUTATED 3 4 3
STK19 WILD-TYPE 220 182 100
'STK19 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00717 (Fisher's exact test), Q value = 0.067

Table S183.  Gene #17: 'STK19 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
STK19 MUTATED 0 6 0 4
STK19 WILD-TYPE 127 113 106 152

Figure S104.  Get High-res Image Gene #17: 'STK19 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'STK19 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S184.  Gene #17: 'STK19 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
STK19 MUTATED 1 1 3 0 2 3
STK19 WILD-TYPE 98 76 117 57 61 89
'SMARCA4 MUTATION STATUS' versus 'CN_CNMF'

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

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
SMARCA4 MUTATED 14 5 7
SMARCA4 WILD-TYPE 213 106 168
'SMARCA4 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.04 (Fisher's exact test), Q value = 0.24

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
SMARCA4 MUTATED 17 2 7 0
SMARCA4 WILD-TYPE 192 134 151 13

Figure S105.  Get High-res Image Gene #18: 'SMARCA4 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'SMARCA4 MUTATION STATUS' versus 'RPPA_CNMF'

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

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
SMARCA4 MUTATED 1 4 9 5
SMARCA4 WILD-TYPE 90 91 117 112
'SMARCA4 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.954 (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 83 160 186
SMARCA4 MUTATED 3 7 9
SMARCA4 WILD-TYPE 80 153 177
'SMARCA4 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.554 (Fisher's exact test), Q value = 1

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 130 115 106 135 30
SMARCA4 MUTATED 8 3 7 6 2
SMARCA4 WILD-TYPE 122 112 99 129 28
'SMARCA4 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.46 (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 135 71 36 68 91 41 74
SMARCA4 MUTATED 11 1 2 4 4 2 2
SMARCA4 WILD-TYPE 124 70 34 64 87 39 72
'SMARCA4 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.312 (Fisher's exact test), Q value = 0.82

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
SMARCA4 MUTATED 8 2 6 9
SMARCA4 WILD-TYPE 132 105 77 173
'SMARCA4 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.241 (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 223 186 103
SMARCA4 MUTATED 14 9 2
SMARCA4 WILD-TYPE 209 177 101
'SMARCA4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0218 (Fisher's exact test), Q value = 0.17

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
SMARCA4 MUTATED 2 6 11 6
SMARCA4 WILD-TYPE 125 113 95 150

Figure S106.  Get High-res Image Gene #18: 'SMARCA4 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'SMARCA4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.179 (Fisher's exact test), Q value = 0.65

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
SMARCA4 MUTATED 9 2 4 2 1 7
SMARCA4 WILD-TYPE 90 75 116 55 62 85
'NIPBL MUTATION STATUS' versus 'CN_CNMF'

P value = 0.00043 (Fisher's exact test), Q value = 0.0063

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
NIPBL MUTATED 2 2 14
NIPBL WILD-TYPE 225 109 161

Figure S107.  Get High-res Image Gene #19: 'NIPBL MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'NIPBL MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.00062 (Fisher's exact test), Q value = 0.0089

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
NIPBL MUTATED 2 2 14 0
NIPBL WILD-TYPE 207 134 144 13

Figure S108.  Get High-res Image Gene #19: 'NIPBL MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'NIPBL MUTATION STATUS' versus 'RPPA_CNMF'

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

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
NIPBL MUTATED 3 2 7 2
NIPBL WILD-TYPE 88 93 119 115
'NIPBL MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.23 (Fisher's exact test), Q value = 0.75

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
NIPBL MUTATED 5 3 6
NIPBL WILD-TYPE 78 157 180
'NIPBL MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.00278 (Fisher's exact test), Q value = 0.032

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 130 115 106 135 30
NIPBL MUTATED 1 3 10 2 2
NIPBL WILD-TYPE 129 112 96 133 28

Figure S109.  Get High-res Image Gene #19: 'NIPBL MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'NIPBL MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0042 (Fisher's exact test), Q value = 0.046

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 135 71 36 68 91 41 74
NIPBL MUTATED 2 1 2 0 10 1 2
NIPBL WILD-TYPE 133 70 34 68 81 40 72

Figure S110.  Get High-res Image Gene #19: 'NIPBL MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'NIPBL MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.449 (Fisher's exact test), Q value = 0.94

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
NIPBL MUTATED 5 4 5 4
NIPBL WILD-TYPE 135 103 78 178
'NIPBL MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.171 (Fisher's exact test), Q value = 0.64

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
NIPBL MUTATED 12 4 2
NIPBL WILD-TYPE 211 182 101
'NIPBL MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0319 (Fisher's exact test), Q value = 0.21

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
NIPBL MUTATED 2 4 9 3
NIPBL WILD-TYPE 125 115 97 153

Figure S111.  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 = 0.0346 (Fisher's exact test), Q value = 0.22

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
NIPBL MUTATED 3 3 2 7 1 2
NIPBL WILD-TYPE 96 74 118 50 62 90

Figure S112.  Get High-res Image Gene #19: 'NIPBL MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'TRERF1 MUTATION STATUS' versus 'CN_CNMF'

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

Table S205.  Gene #20: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
TRERF1 MUTATED 4 1 1
TRERF1 WILD-TYPE 223 110 174
'TRERF1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.302 (Fisher's exact test), Q value = 0.82

Table S206.  Gene #20: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
TRERF1 MUTATED 3 3 0 0
TRERF1 WILD-TYPE 206 133 158 13
'TRERF1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.556 (Fisher's exact test), Q value = 1

Table S207.  Gene #20: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
TRERF1 MUTATED 2 0 1 2
TRERF1 WILD-TYPE 89 95 125 115
'TRERF1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.353 (Fisher's exact test), Q value = 0.87

Table S208.  Gene #20: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
TRERF1 MUTATED 2 2 1
TRERF1 WILD-TYPE 81 158 185
'TRERF1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.4 (Fisher's exact test), Q value = 0.91

Table S209.  Gene #20: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
TRERF1 MUTATED 2 2 0 1 1
TRERF1 WILD-TYPE 128 113 106 134 29
'TRERF1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.584 (Fisher's exact test), Q value = 1

Table S210.  Gene #20: '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 135 71 36 68 91 41 74
TRERF1 MUTATED 3 1 0 1 0 1 0
TRERF1 WILD-TYPE 132 70 36 67 91 40 74
'TRERF1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.369 (Fisher's exact test), Q value = 0.87

Table S211.  Gene #20: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
TRERF1 MUTATED 1 3 0 2
TRERF1 WILD-TYPE 139 104 83 180
'TRERF1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.758 (Fisher's exact test), Q value = 1

Table S212.  Gene #20: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
TRERF1 MUTATED 2 2 2
TRERF1 WILD-TYPE 221 184 101
'TRERF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.358 (Fisher's exact test), Q value = 0.87

Table S213.  Gene #20: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
TRERF1 MUTATED 1 1 0 4
TRERF1 WILD-TYPE 126 118 106 152
'TRERF1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.907 (Fisher's exact test), Q value = 1

Table S214.  Gene #20: 'TRERF1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
TRERF1 MUTATED 1 1 2 0 0 2
TRERF1 WILD-TYPE 98 76 118 57 63 90
'CREBZF MUTATION STATUS' versus 'CN_CNMF'

P value = 0.00635 (Fisher's exact test), Q value = 0.062

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
CREBZF MUTATED 0 1 6
CREBZF WILD-TYPE 227 110 169

Figure S113.  Get High-res Image Gene #21: 'CREBZF MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'CREBZF MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0484 (Fisher's exact test), Q value = 0.28

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
CREBZF MUTATED 0 2 5 0
CREBZF WILD-TYPE 209 134 153 13

Figure S114.  Get High-res Image Gene #21: 'CREBZF MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'CREBZF MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.239 (Fisher's exact test), Q value = 0.76

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
CREBZF MUTATED 0 2 1 4
CREBZF WILD-TYPE 91 93 125 113
'CREBZF MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0355 (Fisher's exact test), Q value = 0.23

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
CREBZF MUTATED 0 6 1
CREBZF WILD-TYPE 83 154 185

Figure S115.  Get High-res Image Gene #21: 'CREBZF MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'CREBZF MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.28 (Fisher's exact test), Q value = 0.79

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
CREBZF MUTATED 0 1 2 4 0
CREBZF WILD-TYPE 130 114 104 131 30
'CREBZF MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0225 (Fisher's exact test), Q value = 0.17

Table S220.  Gene #21: '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 135 71 36 68 91 41 74
CREBZF MUTATED 0 1 2 1 0 0 3
CREBZF WILD-TYPE 135 70 34 67 91 41 71

Figure S116.  Get High-res Image Gene #21: 'CREBZF MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'CREBZF MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.176 (Fisher's exact test), Q value = 0.65

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
CREBZF MUTATED 0 1 1 5
CREBZF WILD-TYPE 140 106 82 177
'CREBZF MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0143 (Fisher's exact test), Q value = 0.12

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

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
CREBZF MUTATED 0 6 1
CREBZF WILD-TYPE 223 180 102

Figure S117.  Get High-res Image Gene #21: 'CREBZF MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'CREBZF MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.265 (Fisher's exact test), Q value = 0.78

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
CREBZF MUTATED 0 1 2 4
CREBZF WILD-TYPE 127 118 104 152
'CREBZF MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.294 (Fisher's exact test), Q value = 0.81

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

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
CREBZF MUTATED 0 1 4 0 0 2
CREBZF WILD-TYPE 99 76 116 57 63 90
'DNMT3A MUTATION STATUS' versus 'CN_CNMF'

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

Table S225.  Gene #22: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
DNMT3A MUTATED 5 2 4
DNMT3A WILD-TYPE 222 109 171
'DNMT3A MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S226.  Gene #22: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
DNMT3A MUTATED 4 4 3 0
DNMT3A WILD-TYPE 205 132 155 13
'DNMT3A MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.458 (Fisher's exact test), Q value = 0.96

Table S227.  Gene #22: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
DNMT3A MUTATED 2 0 3 3
DNMT3A WILD-TYPE 89 95 123 114
'DNMT3A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.26 (Fisher's exact test), Q value = 0.77

Table S228.  Gene #22: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
DNMT3A MUTATED 0 5 3
DNMT3A WILD-TYPE 83 155 183
'DNMT3A MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.878 (Fisher's exact test), Q value = 1

Table S229.  Gene #22: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
DNMT3A MUTATED 4 2 3 2 0
DNMT3A WILD-TYPE 126 113 103 133 30
'DNMT3A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S230.  Gene #22: '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 135 71 36 68 91 41 74
DNMT3A MUTATED 3 1 1 2 1 1 2
DNMT3A WILD-TYPE 132 70 35 66 90 40 72
'DNMT3A MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.305 (Fisher's exact test), Q value = 0.82

Table S231.  Gene #22: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
DNMT3A MUTATED 1 2 1 7
DNMT3A WILD-TYPE 139 105 82 175
'DNMT3A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.03 (Fisher's exact test), Q value = 0.2

Table S232.  Gene #22: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
DNMT3A MUTATED 1 6 4
DNMT3A WILD-TYPE 222 180 99

Figure S118.  Get High-res Image Gene #22: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'DNMT3A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.738 (Fisher's exact test), Q value = 1

Table S233.  Gene #22: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
DNMT3A MUTATED 3 1 3 4
DNMT3A WILD-TYPE 124 118 103 152
'DNMT3A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S234.  Gene #22: 'DNMT3A MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
DNMT3A MUTATED 1 1 3 1 1 4
DNMT3A WILD-TYPE 98 76 117 56 62 88
'EMG1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.45 (Fisher's exact test), Q value = 0.94

Table S235.  Gene #23: 'EMG1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
EMG1 MUTATED 1 1 3
EMG1 WILD-TYPE 226 110 172
'EMG1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.461 (Fisher's exact test), Q value = 0.96

Table S236.  Gene #23: 'EMG1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
EMG1 MUTATED 2 0 3 0
EMG1 WILD-TYPE 207 136 155 13
'EMG1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.729 (Fisher's exact test), Q value = 1

Table S237.  Gene #23: 'EMG1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
EMG1 MUTATED 1 0 2 2
EMG1 WILD-TYPE 90 95 124 115
'EMG1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.846 (Fisher's exact test), Q value = 1

Table S238.  Gene #23: 'EMG1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
EMG1 MUTATED 1 1 3
EMG1 WILD-TYPE 82 159 183
'EMG1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.276 (Fisher's exact test), Q value = 0.79

Table S239.  Gene #23: 'EMG1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
EMG1 MUTATED 1 0 2 1 1
EMG1 WILD-TYPE 129 115 104 134 29
'EMG1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.433 (Fisher's exact test), Q value = 0.94

Table S240.  Gene #23: '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 135 71 36 68 91 41 74
EMG1 MUTATED 1 0 0 1 3 0 0
EMG1 WILD-TYPE 134 71 36 67 88 41 74
'EMG1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.43 (Fisher's exact test), Q value = 0.94

Table S241.  Gene #23: 'EMG1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
EMG1 MUTATED 1 0 2 2
EMG1 WILD-TYPE 139 107 81 180
'EMG1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.287 (Fisher's exact test), Q value = 0.8

Table S242.  Gene #23: 'EMG1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
EMG1 MUTATED 4 1 0
EMG1 WILD-TYPE 219 185 103
'EMG1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.192 (Fisher's exact test), Q value = 0.69

Table S243.  Gene #23: 'EMG1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
EMG1 MUTATED 1 0 3 1
EMG1 WILD-TYPE 126 119 103 155
'EMG1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.266 (Fisher's exact test), Q value = 0.78

Table S244.  Gene #23: 'EMG1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
EMG1 MUTATED 1 1 0 2 0 1
EMG1 WILD-TYPE 98 76 120 55 63 91
'IRS4 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.344 (Fisher's exact test), Q value = 0.86

Table S245.  Gene #24: 'IRS4 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
IRS4 MUTATED 4 3 1
IRS4 WILD-TYPE 223 108 174
'IRS4 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S246.  Gene #24: 'IRS4 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
IRS4 MUTATED 4 3 1 0
IRS4 WILD-TYPE 205 133 157 13
'IRS4 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.41 (Fisher's exact test), Q value = 0.92

Table S247.  Gene #24: 'IRS4 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
IRS4 MUTATED 0 3 2 2
IRS4 WILD-TYPE 91 92 124 115
'IRS4 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.37 (Fisher's exact test), Q value = 0.87

Table S248.  Gene #24: 'IRS4 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
IRS4 MUTATED 1 1 5
IRS4 WILD-TYPE 82 159 181
'IRS4 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.376 (Fisher's exact test), Q value = 0.87

Table S249.  Gene #24: 'IRS4 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
IRS4 MUTATED 2 4 0 2 0
IRS4 WILD-TYPE 128 111 106 133 30
'IRS4 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0376 (Fisher's exact test), Q value = 0.23

Table S250.  Gene #24: '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 135 71 36 68 91 41 74
IRS4 MUTATED 3 0 1 1 0 3 0
IRS4 WILD-TYPE 132 71 35 67 91 38 74

Figure S119.  Get High-res Image Gene #24: 'IRS4 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'IRS4 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.199 (Fisher's exact test), Q value = 0.7

Table S251.  Gene #24: 'IRS4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
IRS4 MUTATED 1 4 0 3
IRS4 WILD-TYPE 139 103 83 179
'IRS4 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.381 (Fisher's exact test), Q value = 0.88

Table S252.  Gene #24: 'IRS4 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
IRS4 MUTATED 2 3 3
IRS4 WILD-TYPE 221 183 100
'IRS4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.232 (Fisher's exact test), Q value = 0.75

Table S253.  Gene #24: 'IRS4 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
IRS4 MUTATED 0 3 1 4
IRS4 WILD-TYPE 127 116 105 152
'IRS4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.565 (Fisher's exact test), Q value = 1

Table S254.  Gene #24: 'IRS4 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
IRS4 MUTATED 1 3 1 0 1 2
IRS4 WILD-TYPE 98 74 119 57 62 90
'MYST4 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.00199 (Fisher's exact test), Q value = 0.024

Table S255.  Gene #25: 'MYST4 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
MYST4 MUTATED 0 5 6
MYST4 WILD-TYPE 227 106 169

Figure S120.  Get High-res Image Gene #25: 'MYST4 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'MYST4 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.142 (Fisher's exact test), Q value = 0.57

Table S256.  Gene #25: 'MYST4 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
MYST4 MUTATED 2 2 7 0
MYST4 WILD-TYPE 207 134 151 13
'MYST4 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.132 (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 95 126 117
MYST4 MUTATED 2 0 6 2
MYST4 WILD-TYPE 89 95 120 115
'MYST4 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.65 (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 83 160 186
MYST4 MUTATED 1 3 6
MYST4 WILD-TYPE 82 157 180
'MYST4 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.247 (Fisher's exact test), Q value = 0.76

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 130 115 106 135 30
MYST4 MUTATED 2 2 5 1 1
MYST4 WILD-TYPE 128 113 101 134 29
'MYST4 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

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 135 71 36 68 91 41 74
MYST4 MUTATED 2 1 2 0 4 1 1
MYST4 WILD-TYPE 133 70 34 68 87 40 73
'MYST4 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.185 (Fisher's exact test), Q value = 0.66

Table S261.  Gene #25: 'MYST4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
MYST4 MUTATED 1 3 4 3
MYST4 WILD-TYPE 139 104 79 179
'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 223 186 103
MYST4 MUTATED 5 4 2
MYST4 WILD-TYPE 218 182 101
'MYST4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0731 (Fisher's exact test), Q value = 0.36

Table S263.  Gene #25: 'MYST4 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
MYST4 MUTATED 0 2 5 4
MYST4 WILD-TYPE 127 117 101 152
'MYST4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.761 (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 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
MYST4 MUTATED 1 2 2 1 1 4
MYST4 WILD-TYPE 98 75 118 56 62 88
'MED9 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.798 (Fisher's exact test), Q value = 1

Table S265.  Gene #26: 'MED9 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
MED9 MUTATED 1 1 1
MED9 WILD-TYPE 226 110 174
'MED9 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S266.  Gene #26: 'MED9 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
MED9 MUTATED 1 1 1 0
MED9 WILD-TYPE 208 135 157 13
'MED9 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.331 (Fisher's exact test), Q value = 0.83

Table S267.  Gene #26: 'MED9 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
MED9 MUTATED 1 0 0 2
MED9 WILD-TYPE 90 95 126 115
'MED9 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.312 (Fisher's exact test), Q value = 0.82

Table S268.  Gene #26: 'MED9 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
MED9 MUTATED 1 2 0
MED9 WILD-TYPE 82 158 186
'MED9 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

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 130 115 106 135 30
MED9 MUTATED 1 0 0 2 0
MED9 WILD-TYPE 129 115 106 133 30
'MED9 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.849 (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 135 71 36 68 91 41 74
MED9 MUTATED 1 1 0 0 0 0 1
MED9 WILD-TYPE 134 70 36 68 91 41 73
'MED9 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.876 (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 140 107 83 182
MED9 MUTATED 1 0 0 2
MED9 WILD-TYPE 139 107 83 180
'MED9 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.793 (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 223 186 103
MED9 MUTATED 1 1 1
MED9 WILD-TYPE 222 185 102
'MED9 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 1 (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 CLUS_4
ALL 127 119 106 156
MED9 MUTATED 1 1 0 1
MED9 WILD-TYPE 126 118 106 155
'MED9 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.768 (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 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
MED9 MUTATED 0 0 1 0 1 1
MED9 WILD-TYPE 99 77 119 57 62 91
'FAM47C MUTATION STATUS' versus 'CN_CNMF'

P value = 0.757 (Fisher's exact test), Q value = 1

Table S275.  Gene #27: 'FAM47C MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
FAM47C MUTATED 8 3 8
FAM47C WILD-TYPE 219 108 167
'FAM47C MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S276.  Gene #27: 'FAM47C MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
FAM47C MUTATED 6 5 7 1
FAM47C WILD-TYPE 203 131 151 12
'FAM47C MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.318 (Fisher's exact test), Q value = 0.82

Table S277.  Gene #27: 'FAM47C MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
FAM47C MUTATED 1 3 5 7
FAM47C WILD-TYPE 90 92 121 110
'FAM47C MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.207 (Fisher's exact test), Q value = 0.71

Table S278.  Gene #27: 'FAM47C MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
FAM47C MUTATED 5 7 4
FAM47C WILD-TYPE 78 153 182
'FAM47C MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.152 (Fisher's exact test), Q value = 0.6

Table S279.  Gene #27: 'FAM47C MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
FAM47C MUTATED 2 2 5 9 1
FAM47C WILD-TYPE 128 113 101 126 29
'FAM47C MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00638 (Fisher's exact test), Q value = 0.062

Table S280.  Gene #27: '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 135 71 36 68 91 41 74
FAM47C MUTATED 0 2 0 5 5 1 6
FAM47C WILD-TYPE 135 69 36 63 86 40 68

Figure S121.  Get High-res Image Gene #27: 'FAM47C MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'FAM47C MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.438 (Fisher's exact test), Q value = 0.94

Table S281.  Gene #27: 'FAM47C MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
FAM47C MUTATED 3 4 2 10
FAM47C WILD-TYPE 137 103 81 172
'FAM47C MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0629 (Fisher's exact test), Q value = 0.33

Table S282.  Gene #27: 'FAM47C MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
FAM47C MUTATED 5 12 2
FAM47C WILD-TYPE 218 174 101
'FAM47C MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.00069 (Fisher's exact test), Q value = 0.0095

Table S283.  Gene #27: 'FAM47C MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
FAM47C MUTATED 0 2 4 13
FAM47C WILD-TYPE 127 117 102 143

Figure S122.  Get High-res Image Gene #27: 'FAM47C MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'FAM47C MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00581 (Fisher's exact test), Q value = 0.059

Table S284.  Gene #27: 'FAM47C MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
FAM47C MUTATED 0 1 8 1 1 8
FAM47C WILD-TYPE 99 76 112 56 62 84

Figure S123.  Get High-res Image Gene #27: 'FAM47C MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'NRAS MUTATION STATUS' versus 'CN_CNMF'

P value = 0.113 (Fisher's exact test), Q value = 0.49

Table S285.  Gene #28: 'NRAS MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
NRAS MUTATED 0 1 3
NRAS WILD-TYPE 227 110 172
'NRAS MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.306 (Fisher's exact test), Q value = 0.82

Table S286.  Gene #28: 'NRAS MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
NRAS MUTATED 1 0 3 0
NRAS WILD-TYPE 208 136 155 13
'NRAS MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S287.  Gene #28: 'NRAS MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
NRAS MUTATED 1 1 1 1
NRAS WILD-TYPE 90 94 125 116
'NRAS MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.326 (Fisher's exact test), Q value = 0.83

Table S288.  Gene #28: 'NRAS MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
NRAS MUTATED 2 1 1
NRAS WILD-TYPE 81 159 185
'NRAS MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S289.  Gene #28: 'NRAS MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
NRAS MUTATED 0 1 1 2 0
NRAS WILD-TYPE 130 114 105 133 30
'NRAS MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.108 (Fisher's exact test), Q value = 0.47

Table S290.  Gene #28: '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 135 71 36 68 91 41 74
NRAS MUTATED 0 0 1 1 0 1 1
NRAS WILD-TYPE 135 71 35 67 91 40 73
'NRAS MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.17 (Fisher's exact test), Q value = 0.64

Table S291.  Gene #28: 'NRAS MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
NRAS MUTATED 0 0 2 2
NRAS WILD-TYPE 140 107 81 180
'NRAS MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S292.  Gene #28: 'NRAS MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
NRAS MUTATED 1 2 1
NRAS WILD-TYPE 222 184 102
'NRAS MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.783 (Fisher's exact test), Q value = 1

Table S293.  Gene #28: 'NRAS MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
NRAS MUTATED 0 1 1 2
NRAS WILD-TYPE 127 118 105 154
'NRAS MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.495 (Fisher's exact test), Q value = 1

Table S294.  Gene #28: 'NRAS MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
NRAS MUTATED 0 2 1 0 0 1
NRAS WILD-TYPE 99 75 119 57 63 91
'PLXNA3 MUTATION STATUS' versus 'CN_CNMF'

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

Table S295.  Gene #29: 'PLXNA3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
PLXNA3 MUTATED 3 3 3
PLXNA3 WILD-TYPE 224 108 172
'PLXNA3 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S296.  Gene #29: 'PLXNA3 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
PLXNA3 MUTATED 2 3 4 0
PLXNA3 WILD-TYPE 207 133 154 13
'PLXNA3 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.156 (Fisher's exact test), Q value = 0.6

Table S297.  Gene #29: 'PLXNA3 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
PLXNA3 MUTATED 2 2 5 0
PLXNA3 WILD-TYPE 89 93 121 117
'PLXNA3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.218 (Fisher's exact test), Q value = 0.74

Table S298.  Gene #29: 'PLXNA3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
PLXNA3 MUTATED 2 1 6
PLXNA3 WILD-TYPE 81 159 180
'PLXNA3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.2 (Fisher's exact test), Q value = 0.7

Table S299.  Gene #29: 'PLXNA3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
PLXNA3 MUTATED 2 3 3 0 1
PLXNA3 WILD-TYPE 128 112 103 135 29
'PLXNA3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.299 (Fisher's exact test), Q value = 0.82

Table S300.  Gene #29: '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 135 71 36 68 91 41 74
PLXNA3 MUTATED 2 2 0 0 4 1 0
PLXNA3 WILD-TYPE 133 69 36 68 87 40 74
'PLXNA3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.354 (Fisher's exact test), Q value = 0.87

Table S301.  Gene #29: 'PLXNA3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
PLXNA3 MUTATED 3 3 2 1
PLXNA3 WILD-TYPE 137 104 81 181
'PLXNA3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.227 (Fisher's exact test), Q value = 0.75

Table S302.  Gene #29: 'PLXNA3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
PLXNA3 MUTATED 5 1 3
PLXNA3 WILD-TYPE 218 185 100
'PLXNA3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.55 (Fisher's exact test), Q value = 1

Table S303.  Gene #29: 'PLXNA3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
PLXNA3 MUTATED 3 3 2 1
PLXNA3 WILD-TYPE 124 116 104 155
'PLXNA3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.273 (Fisher's exact test), Q value = 0.79

Table S304.  Gene #29: 'PLXNA3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
PLXNA3 MUTATED 1 2 0 1 2 3
PLXNA3 WILD-TYPE 98 75 120 56 61 89
'TNRC18 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.659 (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 227 111 175
TNRC18 MUTATED 6 2 2
TNRC18 WILD-TYPE 221 109 173
'TNRC18 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.448 (Fisher's exact test), Q value = 0.94

Table S306.  Gene #30: 'TNRC18 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
TNRC18 MUTATED 5 4 1 0
TNRC18 WILD-TYPE 204 132 157 13
'TNRC18 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.343 (Fisher's exact test), Q value = 0.86

Table S307.  Gene #30: 'TNRC18 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
TNRC18 MUTATED 0 1 4 3
TNRC18 WILD-TYPE 91 94 122 114
'TNRC18 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.421 (Fisher's exact test), Q value = 0.94

Table S308.  Gene #30: 'TNRC18 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
TNRC18 MUTATED 0 3 5
TNRC18 WILD-TYPE 83 157 181
'TNRC18 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.446 (Fisher's exact test), Q value = 0.94

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 130 115 106 135 30
TNRC18 MUTATED 3 3 0 4 0
TNRC18 WILD-TYPE 127 112 106 131 30
'TNRC18 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.661 (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 135 71 36 68 91 41 74
TNRC18 MUTATED 3 2 0 2 0 1 2
TNRC18 WILD-TYPE 132 69 36 66 91 40 72
'TNRC18 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.538 (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 140 107 83 182
TNRC18 MUTATED 4 2 0 4
TNRC18 WILD-TYPE 136 105 83 178
'TNRC18 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.543 (Fisher's exact test), Q value = 1

Table S312.  Gene #30: 'TNRC18 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
TNRC18 MUTATED 3 4 3
TNRC18 WILD-TYPE 220 182 100
'TNRC18 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.36 (Fisher's exact test), Q value = 0.87

Table S313.  Gene #30: 'TNRC18 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
TNRC18 MUTATED 4 2 0 3
TNRC18 WILD-TYPE 123 117 106 153
'TNRC18 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.8 (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 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
TNRC18 MUTATED 1 1 4 0 1 2
TNRC18 WILD-TYPE 98 76 116 57 62 90
'HTRA2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.3 (Fisher's exact test), Q value = 0.82

Table S315.  Gene #31: 'HTRA2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
HTRA2 MUTATED 4 0 1
HTRA2 WILD-TYPE 223 111 174
'HTRA2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.878 (Fisher's exact test), Q value = 1

Table S316.  Gene #31: 'HTRA2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
HTRA2 MUTATED 3 1 1 0
HTRA2 WILD-TYPE 206 135 157 13
'HTRA2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S317.  Gene #31: 'HTRA2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
HTRA2 MUTATED 1 1 1 1
HTRA2 WILD-TYPE 90 94 125 116
'HTRA2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S318.  Gene #31: 'HTRA2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
HTRA2 MUTATED 1 1 2
HTRA2 WILD-TYPE 82 159 184
'HTRA2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.952 (Fisher's exact test), Q value = 1

Table S319.  Gene #31: 'HTRA2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
HTRA2 MUTATED 2 1 1 1 0
HTRA2 WILD-TYPE 128 114 105 134 30
'HTRA2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.632 (Fisher's exact test), Q value = 1

Table S320.  Gene #31: '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 135 71 36 68 91 41 74
HTRA2 MUTATED 2 1 1 0 0 0 1
HTRA2 WILD-TYPE 133 70 35 68 91 41 73
'HTRA2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.348 (Fisher's exact test), Q value = 0.86

Table S321.  Gene #31: 'HTRA2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
HTRA2 MUTATED 3 0 1 1
HTRA2 WILD-TYPE 137 107 82 181
'HTRA2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S322.  Gene #31: 'HTRA2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
HTRA2 MUTATED 3 2 0
HTRA2 WILD-TYPE 220 184 103
'HTRA2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S323.  Gene #31: 'HTRA2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
HTRA2 MUTATED 1 2 0 1
HTRA2 WILD-TYPE 126 117 106 155
'HTRA2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.745 (Fisher's exact test), Q value = 1

Table S324.  Gene #31: 'HTRA2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
HTRA2 MUTATED 2 1 1 0 0 0
HTRA2 WILD-TYPE 97 76 119 57 63 92
'ZMIZ1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0886 (Fisher's exact test), Q value = 0.42

Table S325.  Gene #32: 'ZMIZ1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
ZMIZ1 MUTATED 1 3 5
ZMIZ1 WILD-TYPE 226 108 170
'ZMIZ1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.394 (Fisher's exact test), Q value = 0.9

Table S326.  Gene #32: 'ZMIZ1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
ZMIZ1 MUTATED 2 2 5 0
ZMIZ1 WILD-TYPE 207 134 153 13
'ZMIZ1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.18 (Fisher's exact test), Q value = 0.66

Table S327.  Gene #32: 'ZMIZ1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
ZMIZ1 MUTATED 2 0 2 5
ZMIZ1 WILD-TYPE 89 95 124 112
'ZMIZ1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S328.  Gene #32: 'ZMIZ1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
ZMIZ1 MUTATED 1 6 2
ZMIZ1 WILD-TYPE 82 154 184
'ZMIZ1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.493 (Fisher's exact test), Q value = 1

Table S329.  Gene #32: 'ZMIZ1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
ZMIZ1 MUTATED 1 1 3 3 1
ZMIZ1 WILD-TYPE 129 114 103 132 29
'ZMIZ1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.303 (Fisher's exact test), Q value = 0.82

Table S330.  Gene #32: '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 135 71 36 68 91 41 74
ZMIZ1 MUTATED 1 0 0 2 4 1 1
ZMIZ1 WILD-TYPE 134 71 36 66 87 40 73
'ZMIZ1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.445 (Fisher's exact test), Q value = 0.94

Table S331.  Gene #32: 'ZMIZ1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
ZMIZ1 MUTATED 1 2 3 3
ZMIZ1 WILD-TYPE 139 105 80 179
'ZMIZ1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.678 (Fisher's exact test), Q value = 1

Table S332.  Gene #32: 'ZMIZ1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
ZMIZ1 MUTATED 5 2 2
ZMIZ1 WILD-TYPE 218 184 101
'ZMIZ1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0848 (Fisher's exact test), Q value = 0.4

Table S333.  Gene #32: 'ZMIZ1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
ZMIZ1 MUTATED 0 1 4 4
ZMIZ1 WILD-TYPE 127 118 102 152
'ZMIZ1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.138 (Fisher's exact test), Q value = 0.56

Table S334.  Gene #32: 'ZMIZ1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
ZMIZ1 MUTATED 0 1 1 3 1 3
ZMIZ1 WILD-TYPE 99 76 119 54 62 89
'CUL4B MUTATION STATUS' versus 'CN_CNMF'

P value = 0.554 (Fisher's exact test), Q value = 1

Table S335.  Gene #33: 'CUL4B MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
CUL4B MUTATED 3 3 4
CUL4B WILD-TYPE 224 108 171
'CUL4B MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.194 (Fisher's exact test), Q value = 0.69

Table S336.  Gene #33: 'CUL4B MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
CUL4B MUTATED 2 4 3 1
CUL4B WILD-TYPE 207 132 155 12
'CUL4B MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.269 (Fisher's exact test), Q value = 0.78

Table S337.  Gene #33: 'CUL4B MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
CUL4B MUTATED 2 3 2 0
CUL4B WILD-TYPE 89 92 124 117
'CUL4B MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.369 (Fisher's exact test), Q value = 0.87

Table S338.  Gene #33: 'CUL4B MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
CUL4B MUTATED 1 1 5
CUL4B WILD-TYPE 82 159 181
'CUL4B MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.117 (Fisher's exact test), Q value = 0.5

Table S339.  Gene #33: 'CUL4B MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
CUL4B MUTATED 1 6 2 1 0
CUL4B WILD-TYPE 129 109 104 134 30
'CUL4B MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0677 (Fisher's exact test), Q value = 0.34

Table S340.  Gene #33: '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 135 71 36 68 91 41 74
CUL4B MUTATED 1 3 1 0 1 3 1
CUL4B WILD-TYPE 134 68 35 68 90 38 73
'CUL4B MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.174 (Fisher's exact test), Q value = 0.64

Table S341.  Gene #33: 'CUL4B MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
CUL4B MUTATED 1 5 1 3
CUL4B WILD-TYPE 139 102 82 179
'CUL4B MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0075 (Fisher's exact test), Q value = 0.068

Table S342.  Gene #33: 'CUL4B MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
CUL4B MUTATED 1 3 6
CUL4B WILD-TYPE 222 183 97

Figure S124.  Get High-res Image Gene #33: 'CUL4B MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'CUL4B MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0343 (Fisher's exact test), Q value = 0.22

Table S343.  Gene #33: 'CUL4B MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
CUL4B MUTATED 1 6 0 3
CUL4B WILD-TYPE 126 113 106 153

Figure S125.  Get High-res Image Gene #33: 'CUL4B MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'CUL4B MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.316 (Fisher's exact test), Q value = 0.82

Table S344.  Gene #33: 'CUL4B MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
CUL4B MUTATED 1 4 2 0 2 1
CUL4B WILD-TYPE 98 73 118 57 61 91
'DLX6 MUTATION STATUS' versus 'CN_CNMF'

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

Table S345.  Gene #34: 'DLX6 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
DLX6 MUTATED 2 1 1
DLX6 WILD-TYPE 225 110 174
'DLX6 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S346.  Gene #34: 'DLX6 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
DLX6 MUTATED 1 2 1 0
DLX6 WILD-TYPE 208 134 157 13
'DLX6 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S347.  Gene #34: 'DLX6 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
DLX6 MUTATED 1 0 1 2
DLX6 WILD-TYPE 90 95 125 115
'DLX6 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S348.  Gene #34: 'DLX6 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
DLX6 MUTATED 2 1 1
DLX6 WILD-TYPE 81 159 185
'DLX6 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.312 (Fisher's exact test), Q value = 0.82

Table S349.  Gene #34: 'DLX6 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
DLX6 MUTATED 1 1 1 0 1
DLX6 WILD-TYPE 129 114 105 135 29
'DLX6 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.275 (Fisher's exact test), Q value = 0.79

Table S350.  Gene #34: 'DLX6 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 135 71 36 68 91 41 74
DLX6 MUTATED 0 1 0 1 0 1 1
DLX6 WILD-TYPE 135 70 36 67 91 40 73
'DLX6 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.438 (Fisher's exact test), Q value = 0.94

Table S351.  Gene #34: 'DLX6 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
DLX6 MUTATED 0 1 0 3
DLX6 WILD-TYPE 140 106 83 179
'DLX6 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0758 (Fisher's exact test), Q value = 0.37

Table S352.  Gene #34: 'DLX6 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
DLX6 MUTATED 0 2 2
DLX6 WILD-TYPE 223 184 101
'DLX6 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0254 (Fisher's exact test), Q value = 0.18

Table S353.  Gene #34: 'DLX6 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
DLX6 MUTATED 0 0 0 4
DLX6 WILD-TYPE 127 119 106 152

Figure S126.  Get High-res Image Gene #34: 'DLX6 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'DLX6 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.446 (Fisher's exact test), Q value = 0.94

Table S354.  Gene #34: 'DLX6 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
DLX6 MUTATED 0 0 2 0 0 2
DLX6 WILD-TYPE 99 77 118 57 63 90
'RB1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0541 (Fisher's exact test), Q value = 0.3

Table S355.  Gene #35: 'RB1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
RB1 MUTATED 1 4 1
RB1 WILD-TYPE 226 107 174
'RB1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0178 (Fisher's exact test), Q value = 0.14

Table S356.  Gene #35: 'RB1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
RB1 MUTATED 0 5 1 0
RB1 WILD-TYPE 209 131 157 13

Figure S127.  Get High-res Image Gene #35: 'RB1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'RB1 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S357.  Gene #35: 'RB1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
RB1 MUTATED 1 2 1 1
RB1 WILD-TYPE 90 93 125 116
'RB1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.846 (Fisher's exact test), Q value = 1

Table S358.  Gene #35: 'RB1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
RB1 MUTATED 1 1 3
RB1 WILD-TYPE 82 159 183
'RB1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0025 (Fisher's exact test), Q value = 0.029

Table S359.  Gene #35: 'RB1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
RB1 MUTATED 0 5 0 0 1
RB1 WILD-TYPE 130 110 106 135 29

Figure S128.  Get High-res Image Gene #35: 'RB1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'RB1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0985 (Fisher's exact test), Q value = 0.45

Table S360.  Gene #35: '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 135 71 36 68 91 41 74
RB1 MUTATED 0 3 0 1 1 1 0
RB1 WILD-TYPE 135 68 36 67 90 40 74
'RB1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.599 (Fisher's exact test), Q value = 1

Table S361.  Gene #35: 'RB1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
RB1 MUTATED 3 1 1 1
RB1 WILD-TYPE 137 106 82 181
'RB1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0329 (Fisher's exact test), Q value = 0.21

Table S362.  Gene #35: 'RB1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
RB1 MUTATED 1 1 4
RB1 WILD-TYPE 222 185 99

Figure S129.  Get High-res Image Gene #35: 'RB1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'RB1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.702 (Fisher's exact test), Q value = 1

Table S363.  Gene #35: 'RB1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
RB1 MUTATED 2 2 0 2
RB1 WILD-TYPE 125 117 106 154
'RB1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.093 (Fisher's exact test), Q value = 0.43

Table S364.  Gene #35: 'RB1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
RB1 MUTATED 0 0 1 1 3 1
RB1 WILD-TYPE 99 77 119 56 60 91
'ROBO3 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.721 (Fisher's exact test), Q value = 1

Table S365.  Gene #36: 'ROBO3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
ROBO3 MUTATED 3 0 2
ROBO3 WILD-TYPE 224 111 173
'ROBO3 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S366.  Gene #36: 'ROBO3 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
ROBO3 MUTATED 3 0 2 0
ROBO3 WILD-TYPE 206 136 156 13
'ROBO3 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.844 (Fisher's exact test), Q value = 1

Table S367.  Gene #36: 'ROBO3 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
ROBO3 MUTATED 1 0 2 1
ROBO3 WILD-TYPE 90 95 124 116
'ROBO3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.535 (Fisher's exact test), Q value = 1

Table S368.  Gene #36: 'ROBO3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
ROBO3 MUTATED 0 1 3
ROBO3 WILD-TYPE 83 159 183
'ROBO3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.799 (Fisher's exact test), Q value = 1

Table S369.  Gene #36: 'ROBO3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
ROBO3 MUTATED 2 0 1 2 0
ROBO3 WILD-TYPE 128 115 105 133 30
'ROBO3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.702 (Fisher's exact test), Q value = 1

Table S370.  Gene #36: '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 135 71 36 68 91 41 74
ROBO3 MUTATED 2 0 1 1 1 0 0
ROBO3 WILD-TYPE 133 71 35 67 90 41 74
'ROBO3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S371.  Gene #36: 'ROBO3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
ROBO3 MUTATED 1 1 1 2
ROBO3 WILD-TYPE 139 106 82 180
'ROBO3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.288 (Fisher's exact test), Q value = 0.8

Table S372.  Gene #36: 'ROBO3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
ROBO3 MUTATED 4 1 0
ROBO3 WILD-TYPE 219 185 103
'ROBO3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S373.  Gene #36: 'ROBO3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
ROBO3 MUTATED 2 1 1 1
ROBO3 WILD-TYPE 125 118 105 155
'ROBO3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S374.  Gene #36: 'ROBO3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
ROBO3 MUTATED 1 1 1 1 0 1
ROBO3 WILD-TYPE 98 76 119 56 63 91
'SRPX MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0779 (Fisher's exact test), Q value = 0.38

Table S375.  Gene #37: 'SRPX MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
SRPX MUTATED 0 2 2
SRPX WILD-TYPE 227 109 173
'SRPX MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.258 (Fisher's exact test), Q value = 0.77

Table S376.  Gene #37: 'SRPX MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
SRPX MUTATED 0 2 2 0
SRPX WILD-TYPE 209 134 156 13
'SRPX MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S377.  Gene #37: 'SRPX MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
SRPX MUTATED 1 1 2 0
SRPX WILD-TYPE 90 94 124 117
'SRPX MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S378.  Gene #37: 'SRPX MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
SRPX MUTATED 1 0 3
SRPX WILD-TYPE 82 160 183
'SRPX MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.222 (Fisher's exact test), Q value = 0.74

Table S379.  Gene #37: 'SRPX MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
SRPX MUTATED 0 2 2 0 0
SRPX WILD-TYPE 130 113 104 135 30
'SRPX MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.134 (Fisher's exact test), Q value = 0.54

Table S380.  Gene #37: '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 135 71 36 68 91 41 74
SRPX MUTATED 0 2 1 0 1 0 0
SRPX WILD-TYPE 135 69 35 68 90 41 74
'SRPX MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.336 (Fisher's exact test), Q value = 0.84

Table S381.  Gene #37: 'SRPX MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
SRPX MUTATED 2 1 1 0
SRPX WILD-TYPE 138 106 82 182
'SRPX MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.195 (Fisher's exact test), Q value = 0.69

Table S382.  Gene #37: 'SRPX MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
SRPX MUTATED 2 0 2
SRPX WILD-TYPE 221 186 101
'SRPX MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.452 (Fisher's exact test), Q value = 0.95

Table S383.  Gene #37: 'SRPX MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
SRPX MUTATED 2 1 1 0
SRPX WILD-TYPE 125 118 105 156
'SRPX MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0085 (Fisher's exact test), Q value = 0.077

Table S384.  Gene #37: 'SRPX MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
SRPX MUTATED 0 0 0 2 2 0
SRPX WILD-TYPE 99 77 120 55 61 92

Figure S130.  Get High-res Image Gene #37: 'SRPX MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'RBPJ MUTATION STATUS' versus 'CN_CNMF'

P value = 0.157 (Fisher's exact test), Q value = 0.6

Table S385.  Gene #38: 'RBPJ MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
RBPJ MUTATED 2 0 5
RBPJ WILD-TYPE 225 111 170
'RBPJ MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.00727 (Fisher's exact test), Q value = 0.067

Table S386.  Gene #38: 'RBPJ MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
RBPJ MUTATED 0 1 5 1
RBPJ WILD-TYPE 209 135 153 12

Figure S131.  Get High-res Image Gene #38: 'RBPJ MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'RBPJ MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.106 (Fisher's exact test), Q value = 0.47

Table S387.  Gene #38: 'RBPJ MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
RBPJ MUTATED 0 3 2 0
RBPJ WILD-TYPE 91 92 124 117
'RBPJ MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0499 (Fisher's exact test), Q value = 0.28

Table S388.  Gene #38: 'RBPJ MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
RBPJ MUTATED 0 0 5
RBPJ WILD-TYPE 83 160 181

Figure S132.  Get High-res Image Gene #38: 'RBPJ MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'RBPJ MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.405 (Fisher's exact test), Q value = 0.92

Table S389.  Gene #38: 'RBPJ MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
RBPJ MUTATED 0 2 3 2 0
RBPJ WILD-TYPE 130 113 103 133 30
'RBPJ MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 5e-05 (Fisher's exact test), Q value = 9e-04

Table S390.  Gene #38: '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 135 71 36 68 91 41 74
RBPJ MUTATED 0 0 4 0 1 2 0
RBPJ WILD-TYPE 135 71 32 68 90 39 74

Figure S133.  Get High-res Image Gene #38: 'RBPJ MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'RBPJ MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.302 (Fisher's exact test), Q value = 0.82

Table S391.  Gene #38: 'RBPJ MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
RBPJ MUTATED 0 2 1 4
RBPJ WILD-TYPE 140 105 82 178
'RBPJ MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0287 (Fisher's exact test), Q value = 0.19

Table S392.  Gene #38: 'RBPJ MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
RBPJ MUTATED 0 5 2
RBPJ WILD-TYPE 223 181 101

Figure S134.  Get High-res Image Gene #38: 'RBPJ MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'RBPJ MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.378 (Fisher's exact test), Q value = 0.87

Table S393.  Gene #38: 'RBPJ MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
RBPJ MUTATED 1 2 0 4
RBPJ WILD-TYPE 126 117 106 152
'RBPJ MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.232 (Fisher's exact test), Q value = 0.75

Table S394.  Gene #38: 'RBPJ MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
RBPJ MUTATED 0 3 2 0 0 2
RBPJ WILD-TYPE 99 74 118 57 63 90
'TMEM216 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.234 (Fisher's exact test), Q value = 0.75

Table S395.  Gene #39: 'TMEM216 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
TMEM216 MUTATED 0 1 2
TMEM216 WILD-TYPE 227 110 173
'TMEM216 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.801 (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 209 136 158 13
TMEM216 MUTATED 2 0 1 0
TMEM216 WILD-TYPE 207 136 157 13
'TMEM216 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.704 (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 95 126 117
TMEM216 MUTATED 1 1 0 1
TMEM216 WILD-TYPE 90 94 126 116
'TMEM216 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.601 (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 83 160 186
TMEM216 MUTATED 0 2 1
TMEM216 WILD-TYPE 83 158 185
'TMEM216 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.91 (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 130 115 106 135 30
TMEM216 MUTATED 1 0 1 1 0
TMEM216 WILD-TYPE 129 115 105 134 30
'TMEM216 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.448 (Fisher's exact test), Q value = 0.94

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 135 71 36 68 91 41 74
TMEM216 MUTATED 1 0 1 0 0 0 1
TMEM216 WILD-TYPE 134 71 35 68 91 41 73
'TMEM216 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.521 (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 140 107 83 182
TMEM216 MUTATED 0 1 1 1
TMEM216 WILD-TYPE 140 106 82 181
'TMEM216 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.599 (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 223 186 103
TMEM216 MUTATED 1 2 0
TMEM216 WILD-TYPE 222 184 103
'TMEM216 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.377 (Fisher's exact test), Q value = 0.87

Table S403.  Gene #39: 'TMEM216 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
TMEM216 MUTATED 0 2 0 1
TMEM216 WILD-TYPE 127 117 106 155
'TMEM216 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.909 (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 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
TMEM216 MUTATED 0 1 1 0 0 1
TMEM216 WILD-TYPE 99 76 119 57 63 91
'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 227 111 175
ARID2 MUTATED 5 3 3
ARID2 WILD-TYPE 222 108 172
'ARID2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.272 (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 209 136 158 13
ARID2 MUTATED 4 4 2 1
ARID2 WILD-TYPE 205 132 156 12
'ARID2 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.781 (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 95 126 117
ARID2 MUTATED 1 3 2 2
ARID2 WILD-TYPE 90 92 124 115
'ARID2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.643 (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 83 160 186
ARID2 MUTATED 1 2 5
ARID2 WILD-TYPE 82 158 181
'ARID2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.503 (Fisher's exact test), Q value = 1

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 130 115 106 135 30
ARID2 MUTATED 3 4 2 1 1
ARID2 WILD-TYPE 127 111 104 134 29
'ARID2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.647 (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 135 71 36 68 91 41 74
ARID2 MUTATED 3 2 1 1 2 2 0
ARID2 WILD-TYPE 132 69 35 67 89 39 74
'ARID2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.591 (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 140 107 83 182
ARID2 MUTATED 2 4 1 3
ARID2 WILD-TYPE 138 103 82 179
'ARID2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.343 (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 223 186 103
ARID2 MUTATED 3 3 4
ARID2 WILD-TYPE 220 183 99
'ARID2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S413.  Gene #40: 'ARID2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
ARID2 MUTATED 2 3 1 4
ARID2 WILD-TYPE 125 116 105 152
'ARID2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.933 (Fisher's exact test), Q value = 1

Table S414.  Gene #40: 'ARID2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
ARID2 MUTATED 1 1 3 1 1 3
ARID2 WILD-TYPE 98 76 117 56 62 89
'SLC6A3 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.258 (Fisher's exact test), Q value = 0.77

Table S415.  Gene #41: 'SLC6A3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
SLC6A3 MUTATED 3 4 2
SLC6A3 WILD-TYPE 224 107 173
'SLC6A3 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S416.  Gene #41: 'SLC6A3 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
SLC6A3 MUTATED 4 2 3 0
SLC6A3 WILD-TYPE 205 134 155 13
'SLC6A3 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.312 (Fisher's exact test), Q value = 0.82

Table S417.  Gene #41: 'SLC6A3 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
SLC6A3 MUTATED 0 2 4 1
SLC6A3 WILD-TYPE 91 93 122 116
'SLC6A3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.00986 (Fisher's exact test), Q value = 0.087

Table S418.  Gene #41: 'SLC6A3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
SLC6A3 MUTATED 0 0 7
SLC6A3 WILD-TYPE 83 160 179

Figure S135.  Get High-res Image Gene #41: 'SLC6A3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'SLC6A3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S419.  Gene #41: 'SLC6A3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
SLC6A3 MUTATED 3 2 3 1 0
SLC6A3 WILD-TYPE 127 113 103 134 30
'SLC6A3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.49 (Fisher's exact test), Q value = 0.99

Table S420.  Gene #41: '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 135 71 36 68 91 41 74
SLC6A3 MUTATED 3 1 2 1 1 1 0
SLC6A3 WILD-TYPE 132 70 34 67 90 40 74
'SLC6A3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.184 (Fisher's exact test), Q value = 0.66

Table S421.  Gene #41: 'SLC6A3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
SLC6A3 MUTATED 2 4 2 1
SLC6A3 WILD-TYPE 138 103 81 181
'SLC6A3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.504 (Fisher's exact test), Q value = 1

Table S422.  Gene #41: 'SLC6A3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
SLC6A3 MUTATED 4 2 3
SLC6A3 WILD-TYPE 219 184 100
'SLC6A3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.791 (Fisher's exact test), Q value = 1

Table S423.  Gene #41: 'SLC6A3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
SLC6A3 MUTATED 2 1 2 4
SLC6A3 WILD-TYPE 125 118 104 152
'SLC6A3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.217 (Fisher's exact test), Q value = 0.74

Table S424.  Gene #41: 'SLC6A3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
SLC6A3 MUTATED 3 0 1 0 1 4
SLC6A3 WILD-TYPE 96 77 119 57 62 88
'PDGFRA MUTATION STATUS' versus 'CN_CNMF'

P value = 0.376 (Fisher's exact test), Q value = 0.87

Table S425.  Gene #42: 'PDGFRA MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
PDGFRA MUTATED 4 4 2
PDGFRA WILD-TYPE 223 107 173
'PDGFRA MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.00032 (Fisher's exact test), Q value = 0.0048

Table S426.  Gene #42: 'PDGFRA MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
PDGFRA MUTATED 1 4 2 3
PDGFRA WILD-TYPE 208 132 156 10

Figure S136.  Get High-res Image Gene #42: 'PDGFRA MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'PDGFRA MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.125 (Fisher's exact test), Q value = 0.52

Table S427.  Gene #42: 'PDGFRA MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
PDGFRA MUTATED 2 4 2 0
PDGFRA WILD-TYPE 89 91 124 117
'PDGFRA MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.198 (Fisher's exact test), Q value = 0.7

Table S428.  Gene #42: 'PDGFRA MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
PDGFRA MUTATED 1 1 6
PDGFRA WILD-TYPE 82 159 180
'PDGFRA MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.00944 (Fisher's exact test), Q value = 0.084

Table S429.  Gene #42: 'PDGFRA MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
PDGFRA MUTATED 1 7 2 0 0
PDGFRA WILD-TYPE 129 108 104 135 30

Figure S137.  Get High-res Image Gene #42: 'PDGFRA MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'PDGFRA MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S430.  Gene #42: '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 135 71 36 68 91 41 74
PDGFRA MUTATED 0 3 1 0 1 5 0
PDGFRA WILD-TYPE 135 68 35 68 90 36 74

Figure S138.  Get High-res Image Gene #42: 'PDGFRA MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'PDGFRA MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.00081 (Fisher's exact test), Q value = 0.011

Table S431.  Gene #42: 'PDGFRA MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
PDGFRA MUTATED 1 7 2 0
PDGFRA WILD-TYPE 139 100 81 182

Figure S139.  Get High-res Image Gene #42: 'PDGFRA MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'PDGFRA MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S432.  Gene #42: 'PDGFRA MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
PDGFRA MUTATED 2 1 7
PDGFRA WILD-TYPE 221 185 96

Figure S140.  Get High-res Image Gene #42: 'PDGFRA MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'PDGFRA MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.897 (Fisher's exact test), Q value = 1

Table S433.  Gene #42: 'PDGFRA MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
PDGFRA MUTATED 3 3 2 2
PDGFRA WILD-TYPE 124 116 104 154
'PDGFRA MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0573 (Fisher's exact test), Q value = 0.31

Table S434.  Gene #42: 'PDGFRA MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
PDGFRA MUTATED 0 5 1 1 1 2
PDGFRA WILD-TYPE 99 72 119 56 62 90
'PTPN11 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0725 (Fisher's exact test), Q value = 0.36

Table S435.  Gene #43: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
PTPN11 MUTATED 4 3 0
PTPN11 WILD-TYPE 223 108 175
'PTPN11 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.085 (Fisher's exact test), Q value = 0.4

Table S436.  Gene #43: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
PTPN11 MUTATED 1 5 1 0
PTPN11 WILD-TYPE 208 131 157 13
'PTPN11 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S437.  Gene #43: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
PTPN11 MUTATED 1 2 2 0
PTPN11 WILD-TYPE 90 93 124 117
'PTPN11 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.844 (Fisher's exact test), Q value = 1

Table S438.  Gene #43: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
PTPN11 MUTATED 1 1 3
PTPN11 WILD-TYPE 82 159 183
'PTPN11 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.082 (Fisher's exact test), Q value = 0.39

Table S439.  Gene #43: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
PTPN11 MUTATED 1 5 0 1 0
PTPN11 WILD-TYPE 129 110 106 134 30
'PTPN11 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.229 (Fisher's exact test), Q value = 0.75

Table S440.  Gene #43: '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 135 71 36 68 91 41 74
PTPN11 MUTATED 1 3 0 2 0 0 1
PTPN11 WILD-TYPE 134 68 36 66 91 41 73
'PTPN11 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.229 (Fisher's exact test), Q value = 0.75

Table S441.  Gene #43: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
PTPN11 MUTATED 3 3 0 1
PTPN11 WILD-TYPE 137 104 83 181
'PTPN11 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00541 (Fisher's exact test), Q value = 0.056

Table S442.  Gene #43: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
PTPN11 MUTATED 1 1 5
PTPN11 WILD-TYPE 222 185 98

Figure S141.  Get High-res Image Gene #43: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'PTPN11 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.185 (Fisher's exact test), Q value = 0.66

Table S443.  Gene #43: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
PTPN11 MUTATED 4 2 0 1
PTPN11 WILD-TYPE 123 117 106 155
'PTPN11 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00162 (Fisher's exact test), Q value = 0.02

Table S444.  Gene #43: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
PTPN11 MUTATED 1 0 1 0 5 0
PTPN11 WILD-TYPE 98 77 119 57 58 92

Figure S142.  Get High-res Image Gene #43: 'PTPN11 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'MYT1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.105 (Fisher's exact test), Q value = 0.46

Table S445.  Gene #44: 'MYT1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
MYT1 MUTATED 5 1 0
MYT1 WILD-TYPE 222 110 175
'MYT1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.141 (Fisher's exact test), Q value = 0.57

Table S446.  Gene #44: 'MYT1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
MYT1 MUTATED 2 4 0 0
MYT1 WILD-TYPE 207 132 158 13
'MYT1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S447.  Gene #44: 'MYT1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
MYT1 MUTATED 2 3 0 1 0
MYT1 WILD-TYPE 128 112 106 134 30
'MYT1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0338 (Fisher's exact test), Q value = 0.22

Table S448.  Gene #44: '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 135 71 36 68 91 41 74
MYT1 MUTATED 2 0 0 1 0 3 0
MYT1 WILD-TYPE 133 71 36 67 91 38 74

Figure S143.  Get High-res Image Gene #44: 'MYT1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'MYT1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.407 (Fisher's exact test), Q value = 0.92

Table S449.  Gene #44: 'MYT1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
MYT1 MUTATED 0 2 1 3
MYT1 WILD-TYPE 140 105 82 179
'MYT1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S450.  Gene #44: 'MYT1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
MYT1 MUTATED 2 2 2
MYT1 WILD-TYPE 221 184 101
'MYT1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.855 (Fisher's exact test), Q value = 1

Table S451.  Gene #44: 'MYT1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
MYT1 MUTATED 1 1 1 3
MYT1 WILD-TYPE 126 118 105 153
'MYT1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.949 (Fisher's exact test), Q value = 1

Table S452.  Gene #44: 'MYT1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
MYT1 MUTATED 2 1 2 0 0 1
MYT1 WILD-TYPE 97 76 118 57 63 91
'ZNF292 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0427 (Fisher's exact test), Q value = 0.26

Table S453.  Gene #45: 'ZNF292 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
ZNF292 MUTATED 2 4 8
ZNF292 WILD-TYPE 225 107 167

Figure S144.  Get High-res Image Gene #45: 'ZNF292 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'ZNF292 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0697 (Fisher's exact test), Q value = 0.35

Table S454.  Gene #45: 'ZNF292 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
ZNF292 MUTATED 3 2 8 1
ZNF292 WILD-TYPE 206 134 150 12
'ZNF292 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.472 (Fisher's exact test), Q value = 0.97

Table S455.  Gene #45: 'ZNF292 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
ZNF292 MUTATED 1 3 4 6
ZNF292 WILD-TYPE 90 92 122 111
'ZNF292 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.462 (Fisher's exact test), Q value = 0.96

Table S456.  Gene #45: 'ZNF292 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
ZNF292 MUTATED 1 7 6
ZNF292 WILD-TYPE 82 153 180
'ZNF292 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.7 (Fisher's exact test), Q value = 1

Table S457.  Gene #45: 'ZNF292 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
ZNF292 MUTATED 3 2 5 4 0
ZNF292 WILD-TYPE 127 113 101 131 30
'ZNF292 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.054 (Fisher's exact test), Q value = 0.3

Table S458.  Gene #45: 'ZNF292 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 135 71 36 68 91 41 74
ZNF292 MUTATED 3 0 3 0 2 2 4
ZNF292 WILD-TYPE 132 71 33 68 89 39 70
'ZNF292 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.398 (Fisher's exact test), Q value = 0.91

Table S459.  Gene #45: 'ZNF292 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
ZNF292 MUTATED 2 3 1 8
ZNF292 WILD-TYPE 138 104 82 174
'ZNF292 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.31 (Fisher's exact test), Q value = 0.82

Table S460.  Gene #45: 'ZNF292 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
ZNF292 MUTATED 4 8 2
ZNF292 WILD-TYPE 219 178 101
'ZNF292 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.155 (Fisher's exact test), Q value = 0.6

Table S461.  Gene #45: 'ZNF292 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
ZNF292 MUTATED 1 2 3 8
ZNF292 WILD-TYPE 126 117 103 148
'ZNF292 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0464 (Fisher's exact test), Q value = 0.27

Table S462.  Gene #45: 'ZNF292 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
ZNF292 MUTATED 0 2 5 1 0 6
ZNF292 WILD-TYPE 99 75 115 56 63 86

Figure S145.  Get High-res Image Gene #45: 'ZNF292 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'PPL MUTATION STATUS' versus 'CN_CNMF'

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

Table S463.  Gene #46: 'PPL MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
PPL MUTATED 3 1 2
PPL WILD-TYPE 224 110 173
'PPL MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S464.  Gene #46: 'PPL MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
PPL MUTATED 3 1 2 0
PPL WILD-TYPE 206 135 156 13
'PPL MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.202 (Fisher's exact test), Q value = 0.7

Table S465.  Gene #46: 'PPL MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
PPL MUTATED 1 1 4 0
PPL WILD-TYPE 90 94 122 117
'PPL MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S466.  Gene #46: 'PPL MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
PPL MUTATED 1 1 4
PPL WILD-TYPE 82 159 182
'PPL MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S467.  Gene #46: 'PPL MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
PPL MUTATED 1 2 2 1 0
PPL WILD-TYPE 129 113 104 134 30
'PPL MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.247 (Fisher's exact test), Q value = 0.76

Table S468.  Gene #46: '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 135 71 36 68 91 41 74
PPL MUTATED 1 0 0 1 2 2 0
PPL WILD-TYPE 134 71 36 67 89 39 74
'PPL MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.137 (Fisher's exact test), Q value = 0.55

Table S469.  Gene #46: 'PPL MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
PPL MUTATED 0 3 0 3
PPL WILD-TYPE 140 104 83 179
'PPL MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S470.  Gene #46: 'PPL MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
PPL MUTATED 2 2 2
PPL WILD-TYPE 221 184 101
'PPL MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.735 (Fisher's exact test), Q value = 1

Table S471.  Gene #46: 'PPL MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
PPL MUTATED 1 2 2 1
PPL WILD-TYPE 126 117 104 155
'PPL MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.125 (Fisher's exact test), Q value = 0.52

Table S472.  Gene #46: 'PPL MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
PPL MUTATED 1 3 0 0 0 2
PPL WILD-TYPE 98 74 120 57 63 90
'CIB1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.824 (Fisher's exact test), Q value = 1

Table S473.  Gene #47: 'CIB1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
CIB1 MUTATED 2 0 2
CIB1 WILD-TYPE 225 111 173
'CIB1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.842 (Fisher's exact test), Q value = 1

Table S474.  Gene #47: 'CIB1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
CIB1 MUTATED 1 1 2 0
CIB1 WILD-TYPE 208 135 156 13
'CIB1 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S475.  Gene #47: 'CIB1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
CIB1 MUTATED 0 2 1 1
CIB1 WILD-TYPE 91 93 125 116
'CIB1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S476.  Gene #47: 'CIB1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
CIB1 MUTATED 0 1 3
CIB1 WILD-TYPE 83 159 183
'CIB1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S477.  Gene #47: 'CIB1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
CIB1 MUTATED 0 1 2 1 0
CIB1 WILD-TYPE 130 114 104 134 30
'CIB1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.174 (Fisher's exact test), Q value = 0.64

Table S478.  Gene #47: '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 135 71 36 68 91 41 74
CIB1 MUTATED 0 0 1 0 1 1 1
CIB1 WILD-TYPE 135 71 35 68 90 40 73
'CIB1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.216 (Fisher's exact test), Q value = 0.74

Table S479.  Gene #47: 'CIB1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
CIB1 MUTATED 0 1 2 1
CIB1 WILD-TYPE 140 106 81 181
'CIB1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0433 (Fisher's exact test), Q value = 0.26

Table S480.  Gene #47: 'CIB1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
CIB1 MUTATED 0 4 0
CIB1 WILD-TYPE 223 182 103

Figure S146.  Get High-res Image Gene #47: 'CIB1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'CIB1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S481.  Gene #47: 'CIB1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
CIB1 MUTATED 0 2 1 1
CIB1 WILD-TYPE 127 117 105 155
'CIB1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.26 (Fisher's exact test), Q value = 0.77

Table S482.  Gene #47: 'CIB1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
CIB1 MUTATED 0 2 1 1 0 0
CIB1 WILD-TYPE 99 75 119 56 63 92
'ANKRD36 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.103 (Fisher's exact test), Q value = 0.46

Table S483.  Gene #48: 'ANKRD36 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
ANKRD36 MUTATED 5 2 0
ANKRD36 WILD-TYPE 222 109 175
'ANKRD36 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.111 (Fisher's exact test), Q value = 0.48

Table S484.  Gene #48: 'ANKRD36 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
ANKRD36 MUTATED 6 1 0 0
ANKRD36 WILD-TYPE 203 135 158 13
'ANKRD36 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.42 (Fisher's exact test), Q value = 0.94

Table S485.  Gene #48: 'ANKRD36 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
ANKRD36 MUTATED 2 2 2 0
ANKRD36 WILD-TYPE 89 93 124 117
'ANKRD36 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.173 (Fisher's exact test), Q value = 0.64

Table S486.  Gene #48: 'ANKRD36 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
ANKRD36 MUTATED 3 1 2
ANKRD36 WILD-TYPE 80 159 184
'ANKRD36 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.62 (Fisher's exact test), Q value = 1

Table S487.  Gene #48: 'ANKRD36 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
ANKRD36 MUTATED 3 2 0 2 0
ANKRD36 WILD-TYPE 127 113 106 133 30
'ANKRD36 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.467 (Fisher's exact test), Q value = 0.96

Table S488.  Gene #48: '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 135 71 36 68 91 41 74
ANKRD36 MUTATED 3 1 0 2 0 1 0
ANKRD36 WILD-TYPE 132 70 36 66 91 40 74
'ANKRD36 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.738 (Fisher's exact test), Q value = 1

Table S489.  Gene #48: 'ANKRD36 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
ANKRD36 MUTATED 1 1 2 3
ANKRD36 WILD-TYPE 139 106 81 179
'ANKRD36 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S490.  Gene #48: 'ANKRD36 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
ANKRD36 MUTATED 3 3 1
ANKRD36 WILD-TYPE 220 183 102
'ANKRD36 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S491.  Gene #48: 'ANKRD36 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
ANKRD36 MUTATED 2 2 1 2
ANKRD36 WILD-TYPE 125 117 105 154
'ANKRD36 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.869 (Fisher's exact test), Q value = 1

Table S492.  Gene #48: 'ANKRD36 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
ANKRD36 MUTATED 2 2 1 0 1 1
ANKRD36 WILD-TYPE 97 75 119 57 62 91
'NAP1L2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.274 (Fisher's exact test), Q value = 0.79

Table S493.  Gene #49: 'NAP1L2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
NAP1L2 MUTATED 1 0 3
NAP1L2 WILD-TYPE 226 111 172
'NAP1L2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.616 (Fisher's exact test), Q value = 1

Table S494.  Gene #49: 'NAP1L2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
NAP1L2 MUTATED 2 0 2 0
NAP1L2 WILD-TYPE 207 136 156 13
'NAP1L2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S495.  Gene #49: 'NAP1L2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
NAP1L2 MUTATED 1 0 1 1
NAP1L2 WILD-TYPE 90 95 125 116
'NAP1L2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0491 (Fisher's exact test), Q value = 0.28

Table S496.  Gene #49: 'NAP1L2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
NAP1L2 MUTATED 2 1 0
NAP1L2 WILD-TYPE 81 159 186

Figure S147.  Get High-res Image Gene #49: 'NAP1L2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'NAP1L2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.294 (Fisher's exact test), Q value = 0.81

Table S497.  Gene #49: 'NAP1L2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
NAP1L2 MUTATED 2 0 2 0 0
NAP1L2 WILD-TYPE 128 115 104 135 30
'NAP1L2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0629 (Fisher's exact test), Q value = 0.33

Table S498.  Gene #49: '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 135 71 36 68 91 41 74
NAP1L2 MUTATED 2 0 2 0 0 0 0
NAP1L2 WILD-TYPE 133 71 34 68 91 41 74
'NAP1L2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S499.  Gene #49: 'NAP1L2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
NAP1L2 MUTATED 1 1 0 2
NAP1L2 WILD-TYPE 139 106 83 180
'NAP1L2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.832 (Fisher's exact test), Q value = 1

Table S500.  Gene #49: 'NAP1L2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
NAP1L2 MUTATED 2 2 0
NAP1L2 WILD-TYPE 221 184 103
'NAP1L2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S501.  Gene #49: 'NAP1L2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
NAP1L2 MUTATED 2 0 1 1
NAP1L2 WILD-TYPE 125 119 105 155
'NAP1L2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S502.  Gene #49: 'NAP1L2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
NAP1L2 MUTATED 2 0 1 0 0 1
NAP1L2 WILD-TYPE 97 77 119 57 63 91
'SMOC1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.45 (Fisher's exact test), Q value = 0.94

Table S503.  Gene #50: 'SMOC1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
SMOC1 MUTATED 2 1 0
SMOC1 WILD-TYPE 225 110 175
'SMOC1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.652 (Fisher's exact test), Q value = 1

Table S504.  Gene #50: 'SMOC1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
SMOC1 MUTATED 2 1 0 0
SMOC1 WILD-TYPE 207 135 158 13
'SMOC1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.417 (Fisher's exact test), Q value = 0.93

Table S505.  Gene #50: 'SMOC1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
SMOC1 MUTATED 0 2 0 1 0
SMOC1 WILD-TYPE 130 113 106 134 30
'SMOC1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.789 (Fisher's exact test), Q value = 1

Table S506.  Gene #50: '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 135 71 36 68 91 41 74
SMOC1 MUTATED 2 0 0 0 0 0 1
SMOC1 WILD-TYPE 133 71 36 68 91 41 73
'SMOC1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.677 (Fisher's exact test), Q value = 1

Table S507.  Gene #50: 'SMOC1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
SMOC1 MUTATED 2 0 0 1
SMOC1 WILD-TYPE 138 107 83 181
'SMOC1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S508.  Gene #50: 'SMOC1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
SMOC1 MUTATED 2 1 0
SMOC1 WILD-TYPE 221 185 103
'SMOC1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.376 (Fisher's exact test), Q value = 0.87

Table S509.  Gene #50: 'SMOC1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
SMOC1 MUTATED 0 2 0 1
SMOC1 WILD-TYPE 127 117 106 155
'SMOC1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S510.  Gene #50: 'SMOC1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
SMOC1 MUTATED 2 0 1 0 0 0
SMOC1 WILD-TYPE 97 77 119 57 63 92
'ABCA7 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0688 (Fisher's exact test), Q value = 0.35

Table S511.  Gene #51: 'ABCA7 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
ABCA7 MUTATED 4 5 1
ABCA7 WILD-TYPE 223 106 174
'ABCA7 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S512.  Gene #51: 'ABCA7 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
ABCA7 MUTATED 3 4 2 1
ABCA7 WILD-TYPE 206 132 156 12
'ABCA7 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.257 (Fisher's exact test), Q value = 0.77

Table S513.  Gene #51: 'ABCA7 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
ABCA7 MUTATED 3 2 2 0
ABCA7 WILD-TYPE 88 93 124 117
'ABCA7 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.279 (Fisher's exact test), Q value = 0.79

Table S514.  Gene #51: 'ABCA7 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
ABCA7 MUTATED 3 2 2
ABCA7 WILD-TYPE 80 158 184
'ABCA7 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.085 (Fisher's exact test), Q value = 0.4

Table S515.  Gene #51: 'ABCA7 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
ABCA7 MUTATED 2 6 0 2 0
ABCA7 WILD-TYPE 128 109 106 133 30
'ABCA7 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S516.  Gene #51: '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 135 71 36 68 91 41 74
ABCA7 MUTATED 2 1 0 1 1 3 2
ABCA7 WILD-TYPE 133 70 36 67 90 38 72
'ABCA7 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S517.  Gene #51: 'ABCA7 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
ABCA7 MUTATED 3 2 1 4
ABCA7 WILD-TYPE 137 105 82 178
'ABCA7 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0918 (Fisher's exact test), Q value = 0.43

Table S518.  Gene #51: 'ABCA7 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
ABCA7 MUTATED 3 2 5
ABCA7 WILD-TYPE 220 184 98
'ABCA7 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.286 (Fisher's exact test), Q value = 0.8

Table S519.  Gene #51: 'ABCA7 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
ABCA7 MUTATED 2 3 0 5
ABCA7 WILD-TYPE 125 116 106 151
'ABCA7 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.931 (Fisher's exact test), Q value = 1

Table S520.  Gene #51: 'ABCA7 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
ABCA7 MUTATED 1 2 2 1 2 2
ABCA7 WILD-TYPE 98 75 118 56 61 90
'ZNF512B MUTATION STATUS' versus 'CN_CNMF'

P value = 0.62 (Fisher's exact test), Q value = 1

Table S521.  Gene #52: 'ZNF512B MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
ZNF512B MUTATED 2 2 1
ZNF512B WILD-TYPE 225 109 174
'ZNF512B MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.878 (Fisher's exact test), Q value = 1

Table S522.  Gene #52: 'ZNF512B MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
ZNF512B MUTATED 3 1 1 0
ZNF512B WILD-TYPE 206 135 157 13
'ZNF512B MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.931 (Fisher's exact test), Q value = 1

Table S523.  Gene #52: 'ZNF512B MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
ZNF512B MUTATED 1 1 1 2
ZNF512B WILD-TYPE 90 94 125 115
'ZNF512B MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.43 (Fisher's exact test), Q value = 0.94

Table S524.  Gene #52: 'ZNF512B MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
ZNF512B MUTATED 2 1 2
ZNF512B WILD-TYPE 81 159 184
'ZNF512B MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S525.  Gene #52: 'ZNF512B MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
ZNF512B MUTATED 1 1 1 2 0
ZNF512B WILD-TYPE 129 114 105 133 30
'ZNF512B MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.861 (Fisher's exact test), Q value = 1

Table S526.  Gene #52: '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 135 71 36 68 91 41 74
ZNF512B MUTATED 1 0 0 1 1 1 1
ZNF512B WILD-TYPE 134 71 36 67 90 40 73
'ZNF512B MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S527.  Gene #52: 'ZNF512B MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
ZNF512B MUTATED 1 1 1 2
ZNF512B WILD-TYPE 139 106 82 180
'ZNF512B MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S528.  Gene #52: 'ZNF512B MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
ZNF512B MUTATED 2 2 1
ZNF512B WILD-TYPE 221 184 102
'ZNF512B MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.466 (Fisher's exact test), Q value = 0.96

Table S529.  Gene #52: 'ZNF512B MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
ZNF512B MUTATED 0 1 1 3
ZNF512B WILD-TYPE 127 118 105 153
'ZNF512B MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.759 (Fisher's exact test), Q value = 1

Table S530.  Gene #52: 'ZNF512B MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
ZNF512B MUTATED 1 0 2 0 0 2
ZNF512B WILD-TYPE 98 77 118 57 63 90
'PRX MUTATION STATUS' versus 'CN_CNMF'

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

Table S531.  Gene #53: 'PRX MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
PRX MUTATED 4 4 2
PRX WILD-TYPE 223 107 173
'PRX MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.163 (Fisher's exact test), Q value = 0.61

Table S532.  Gene #53: 'PRX MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
PRX MUTATED 2 6 2 0
PRX WILD-TYPE 207 130 156 13
'PRX MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S533.  Gene #53: 'PRX MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
PRX MUTATED 2 2 2 4
PRX WILD-TYPE 89 93 124 113
'PRX MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.841 (Fisher's exact test), Q value = 1

Table S534.  Gene #53: 'PRX MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
PRX MUTATED 1 4 5
PRX WILD-TYPE 82 156 181
'PRX MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.104 (Fisher's exact test), Q value = 0.46

Table S535.  Gene #53: 'PRX MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
PRX MUTATED 1 5 0 3 1
PRX WILD-TYPE 129 110 106 132 29
'PRX MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0615 (Fisher's exact test), Q value = 0.32

Table S536.  Gene #53: '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 135 71 36 68 91 41 74
PRX MUTATED 1 4 0 2 0 2 1
PRX WILD-TYPE 134 67 36 66 91 39 73
'PRX MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.503 (Fisher's exact test), Q value = 1

Table S537.  Gene #53: 'PRX MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
PRX MUTATED 1 3 1 5
PRX WILD-TYPE 139 104 82 177
'PRX MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00117 (Fisher's exact test), Q value = 0.015

Table S538.  Gene #53: 'PRX MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
PRX MUTATED 1 2 7
PRX WILD-TYPE 222 184 96

Figure S148.  Get High-res Image Gene #53: 'PRX MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'PRX MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.1 (Fisher's exact test), Q value = 0.45

Table S539.  Gene #53: 'PRX MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
PRX MUTATED 0 4 1 5
PRX WILD-TYPE 127 115 105 151
'PRX MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.494 (Fisher's exact test), Q value = 1

Table S540.  Gene #53: 'PRX MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
PRX MUTATED 1 2 3 0 3 1
PRX WILD-TYPE 98 75 117 57 60 91
'SMARCB1 MUTATION STATUS' versus 'CN_CNMF'

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

Table S541.  Gene #54: 'SMARCB1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
SMARCB1 MUTATED 2 1 1
SMARCB1 WILD-TYPE 225 110 174
'SMARCB1 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S542.  Gene #54: 'SMARCB1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
SMARCB1 MUTATED 2 1 1 0
SMARCB1 WILD-TYPE 207 135 157 13
'SMARCB1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0642 (Fisher's exact test), Q value = 0.33

Table S543.  Gene #54: 'SMARCB1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
SMARCB1 MUTATED 0 0 3 0
SMARCB1 WILD-TYPE 91 95 123 117
'SMARCB1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.23 (Fisher's exact test), Q value = 0.75

Table S544.  Gene #54: 'SMARCB1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
SMARCB1 MUTATED 0 0 3
SMARCB1 WILD-TYPE 83 160 183
'SMARCB1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.927 (Fisher's exact test), Q value = 1

Table S545.  Gene #54: 'SMARCB1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
SMARCB1 MUTATED 1 1 0 2 0
SMARCB1 WILD-TYPE 129 114 106 133 30
'SMARCB1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.573 (Fisher's exact test), Q value = 1

Table S546.  Gene #54: '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 135 71 36 68 91 41 74
SMARCB1 MUTATED 2 0 0 0 0 1 1
SMARCB1 WILD-TYPE 133 71 36 68 91 40 73
'SMARCB1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.438 (Fisher's exact test), Q value = 0.94

Table S547.  Gene #54: 'SMARCB1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
SMARCB1 MUTATED 0 1 0 3
SMARCB1 WILD-TYPE 140 106 83 179
'SMARCB1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.684 (Fisher's exact test), Q value = 1

Table S548.  Gene #54: 'SMARCB1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
SMARCB1 MUTATED 1 2 1
SMARCB1 WILD-TYPE 222 184 102
'SMARCB1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.286 (Fisher's exact test), Q value = 0.8

Table S549.  Gene #54: 'SMARCB1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
SMARCB1 MUTATED 1 0 0 3
SMARCB1 WILD-TYPE 126 119 106 153
'SMARCB1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.779 (Fisher's exact test), Q value = 1

Table S550.  Gene #54: 'SMARCB1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
SMARCB1 MUTATED 1 0 1 0 0 2
SMARCB1 WILD-TYPE 98 77 119 57 63 90
'C9ORF79 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.41 (Fisher's exact test), Q value = 0.92

Table S551.  Gene #55: 'C9ORF79 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
C9ORF79 MUTATED 3 4 3
C9ORF79 WILD-TYPE 224 107 172
'C9ORF79 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S552.  Gene #55: 'C9ORF79 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
C9ORF79 MUTATED 2 4 4 0
C9ORF79 WILD-TYPE 207 132 154 13
'C9ORF79 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S553.  Gene #55: 'C9ORF79 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
C9ORF79 MUTATED 3 2 4 1
C9ORF79 WILD-TYPE 88 93 122 116
'C9ORF79 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.211 (Fisher's exact test), Q value = 0.72

Table S554.  Gene #55: 'C9ORF79 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
C9ORF79 MUTATED 4 2 4
C9ORF79 WILD-TYPE 79 158 182
'C9ORF79 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.664 (Fisher's exact test), Q value = 1

Table S555.  Gene #55: 'C9ORF79 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
C9ORF79 MUTATED 1 3 2 3 1
C9ORF79 WILD-TYPE 129 112 104 132 29
'C9ORF79 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S556.  Gene #55: 'C9ORF79 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 135 71 36 68 91 41 74
C9ORF79 MUTATED 2 2 0 0 2 1 3
C9ORF79 WILD-TYPE 133 69 36 68 89 40 71
'C9ORF79 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.8 (Fisher's exact test), Q value = 1

Table S557.  Gene #55: 'C9ORF79 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
C9ORF79 MUTATED 2 3 2 3
C9ORF79 WILD-TYPE 138 104 81 179
'C9ORF79 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S558.  Gene #55: 'C9ORF79 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
C9ORF79 MUTATED 4 3 3
C9ORF79 WILD-TYPE 219 183 100
'C9ORF79 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.707 (Fisher's exact test), Q value = 1

Table S559.  Gene #55: 'C9ORF79 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
C9ORF79 MUTATED 1 3 2 4
C9ORF79 WILD-TYPE 126 116 104 152
'C9ORF79 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S560.  Gene #55: 'C9ORF79 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
C9ORF79 MUTATED 1 1 3 2 2 1
C9ORF79 WILD-TYPE 98 76 117 55 61 91
'KRT3 MUTATION STATUS' versus 'CN_CNMF'

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

Table S561.  Gene #56: 'KRT3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
KRT3 MUTATED 2 1 1
KRT3 WILD-TYPE 225 110 174
'KRT3 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S562.  Gene #56: 'KRT3 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
KRT3 MUTATED 2 1 1 0
KRT3 WILD-TYPE 207 135 157 13
'KRT3 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S563.  Gene #56: 'KRT3 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
KRT3 MUTATED 1 1 1 0
KRT3 WILD-TYPE 90 94 125 117
'KRT3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.23 (Fisher's exact test), Q value = 0.75

Table S564.  Gene #56: 'KRT3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
KRT3 MUTATED 0 0 3
KRT3 WILD-TYPE 83 160 183
'KRT3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.674 (Fisher's exact test), Q value = 1

Table S565.  Gene #56: 'KRT3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
KRT3 MUTATED 2 1 1 0 0
KRT3 WILD-TYPE 128 114 105 135 30
'KRT3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S566.  Gene #56: '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 135 71 36 68 91 41 74
KRT3 MUTATED 1 1 0 0 1 1 0
KRT3 WILD-TYPE 134 70 36 68 90 40 74
'KRT3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.337 (Fisher's exact test), Q value = 0.84

Table S567.  Gene #56: 'KRT3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
KRT3 MUTATED 2 1 1 0
KRT3 WILD-TYPE 138 106 82 182
'KRT3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.195 (Fisher's exact test), Q value = 0.69

Table S568.  Gene #56: 'KRT3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
KRT3 MUTATED 2 0 2
KRT3 WILD-TYPE 221 186 101
'KRT3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.107 (Fisher's exact test), Q value = 0.47

Table S569.  Gene #56: 'KRT3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
KRT3 MUTATED 3 1 0 0
KRT3 WILD-TYPE 124 118 106 156
'KRT3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.428 (Fisher's exact test), Q value = 0.94

Table S570.  Gene #56: 'KRT3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
KRT3 MUTATED 2 0 0 0 1 1
KRT3 WILD-TYPE 97 77 120 57 62 91
'ELF4 MUTATION STATUS' versus 'CN_CNMF'

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

Table S571.  Gene #57: 'ELF4 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
ELF4 MUTATED 1 1 2
ELF4 WILD-TYPE 226 110 173
'ELF4 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.84 (Fisher's exact test), Q value = 1

Table S572.  Gene #57: 'ELF4 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
ELF4 MUTATED 1 1 2 0
ELF4 WILD-TYPE 208 135 156 13
'ELF4 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.513 (Fisher's exact test), Q value = 1

Table S573.  Gene #57: 'ELF4 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
ELF4 MUTATED 1 1 2 0 0
ELF4 WILD-TYPE 129 114 104 135 30
'ELF4 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.16 (Fisher's exact test), Q value = 0.61

Table S574.  Gene #57: 'ELF4 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 135 71 36 68 91 41 74
ELF4 MUTATED 0 0 1 1 1 1 0
ELF4 WILD-TYPE 135 71 35 67 90 40 74
'ELF4 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S575.  Gene #57: 'ELF4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
ELF4 MUTATED 1 1 1 1
ELF4 WILD-TYPE 139 106 82 181
'ELF4 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S576.  Gene #57: 'ELF4 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
ELF4 MUTATED 2 1 1
ELF4 WILD-TYPE 221 185 102
'ELF4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.532 (Fisher's exact test), Q value = 1

Table S577.  Gene #57: 'ELF4 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
ELF4 MUTATED 1 0 2 1
ELF4 WILD-TYPE 126 119 104 155
'ELF4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0311 (Fisher's exact test), Q value = 0.21

Table S578.  Gene #57: 'ELF4 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
ELF4 MUTATED 0 0 0 1 0 3
ELF4 WILD-TYPE 99 77 120 56 63 89

Figure S149.  Get High-res Image Gene #57: 'ELF4 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'NEU2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.316 (Fisher's exact test), Q value = 0.82

Table S579.  Gene #58: 'NEU2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
NEU2 MUTATED 2 3 1
NEU2 WILD-TYPE 225 108 174
'NEU2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.802 (Fisher's exact test), Q value = 1

Table S580.  Gene #58: 'NEU2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
NEU2 MUTATED 3 2 1 0
NEU2 WILD-TYPE 206 134 157 13
'NEU2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S581.  Gene #58: 'NEU2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
NEU2 MUTATED 1 2 2 1
NEU2 WILD-TYPE 90 93 124 116
'NEU2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S582.  Gene #58: 'NEU2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
NEU2 MUTATED 1 2 3
NEU2 WILD-TYPE 82 158 183
'NEU2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.202 (Fisher's exact test), Q value = 0.7

Table S583.  Gene #58: 'NEU2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
NEU2 MUTATED 3 1 1 0 1
NEU2 WILD-TYPE 127 114 105 135 29
'NEU2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S584.  Gene #58: '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 135 71 36 68 91 41 74
NEU2 MUTATED 3 1 0 0 1 1 0
NEU2 WILD-TYPE 132 70 36 68 90 40 74
'NEU2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.253 (Fisher's exact test), Q value = 0.77

Table S585.  Gene #58: 'NEU2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
NEU2 MUTATED 0 2 2 2
NEU2 WILD-TYPE 140 105 81 180
'NEU2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.757 (Fisher's exact test), Q value = 1

Table S586.  Gene #58: 'NEU2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
NEU2 MUTATED 2 2 2
NEU2 WILD-TYPE 221 184 101
'NEU2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.442 (Fisher's exact test), Q value = 0.94

Table S587.  Gene #58: 'NEU2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
NEU2 MUTATED 1 0 2 3
NEU2 WILD-TYPE 126 119 104 153
'NEU2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.249 (Fisher's exact test), Q value = 0.77

Table S588.  Gene #58: 'NEU2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
NEU2 MUTATED 0 0 2 1 0 3
NEU2 WILD-TYPE 99 77 118 56 63 89
'ZNF709 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.601 (Fisher's exact test), Q value = 1

Table S589.  Gene #59: 'ZNF709 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
ZNF709 MUTATED 1 0 2
ZNF709 WILD-TYPE 226 111 173
'ZNF709 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0266 (Fisher's exact test), Q value = 0.19

Table S590.  Gene #59: 'ZNF709 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
ZNF709 MUTATED 0 1 1 1
ZNF709 WILD-TYPE 209 135 157 12

Figure S150.  Get High-res Image Gene #59: 'ZNF709 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'ZNF709 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.893 (Fisher's exact test), Q value = 1

Table S591.  Gene #59: 'ZNF709 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
ZNF709 MUTATED 1 0 1 1
ZNF709 WILD-TYPE 90 95 125 116
'ZNF709 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.313 (Fisher's exact test), Q value = 0.82

Table S592.  Gene #59: 'ZNF709 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
ZNF709 MUTATED 1 2 0
ZNF709 WILD-TYPE 82 158 186
'ZNF709 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0672 (Fisher's exact test), Q value = 0.34

Table S593.  Gene #59: 'ZNF709 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
ZNF709 MUTATED 0 0 0 2 1
ZNF709 WILD-TYPE 130 115 106 133 29
'ZNF709 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.345 (Fisher's exact test), Q value = 0.86

Table S594.  Gene #59: '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 135 71 36 68 91 41 74
ZNF709 MUTATED 0 0 0 0 2 0 1
ZNF709 WILD-TYPE 135 71 36 68 89 41 73
'ZNF709 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.878 (Fisher's exact test), Q value = 1

Table S595.  Gene #59: 'ZNF709 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
ZNF709 MUTATED 1 0 0 2
ZNF709 WILD-TYPE 139 107 83 180
'ZNF709 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.598 (Fisher's exact test), Q value = 1

Table S596.  Gene #59: 'ZNF709 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
ZNF709 MUTATED 1 2 0
ZNF709 WILD-TYPE 222 184 103
'ZNF709 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.432 (Fisher's exact test), Q value = 0.94

Table S597.  Gene #59: 'ZNF709 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
ZNF709 MUTATED 2 0 0 1
ZNF709 WILD-TYPE 125 119 106 155
'ZNF709 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.567 (Fisher's exact test), Q value = 1

Table S598.  Gene #59: 'ZNF709 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
ZNF709 MUTATED 0 1 2 0 0 0
ZNF709 WILD-TYPE 99 76 118 57 63 92
'R3HDM1 MUTATION STATUS' versus 'CN_CNMF'

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

Table S599.  Gene #60: 'R3HDM1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
R3HDM1 MUTATED 3 2 2
R3HDM1 WILD-TYPE 224 109 173
'R3HDM1 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S600.  Gene #60: 'R3HDM1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
R3HDM1 MUTATED 3 2 2 0
R3HDM1 WILD-TYPE 206 134 156 13
'R3HDM1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.289 (Fisher's exact test), Q value = 0.8

Table S601.  Gene #60: 'R3HDM1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
R3HDM1 MUTATED 0 0 3 2
R3HDM1 WILD-TYPE 91 95 123 115
'R3HDM1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.728 (Fisher's exact test), Q value = 1

Table S602.  Gene #60: 'R3HDM1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
R3HDM1 MUTATED 0 2 3
R3HDM1 WILD-TYPE 83 158 183
'R3HDM1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.819 (Fisher's exact test), Q value = 1

Table S603.  Gene #60: 'R3HDM1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
R3HDM1 MUTATED 1 1 2 3 0
R3HDM1 WILD-TYPE 129 114 104 132 30
'R3HDM1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.639 (Fisher's exact test), Q value = 1

Table S604.  Gene #60: '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 135 71 36 68 91 41 74
R3HDM1 MUTATED 1 0 0 2 2 1 1
R3HDM1 WILD-TYPE 134 71 36 66 89 40 73
'R3HDM1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.738 (Fisher's exact test), Q value = 1

Table S605.  Gene #60: 'R3HDM1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
R3HDM1 MUTATED 1 1 2 3
R3HDM1 WILD-TYPE 139 106 81 179
'R3HDM1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S606.  Gene #60: 'R3HDM1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
R3HDM1 MUTATED 3 2 2
R3HDM1 WILD-TYPE 220 184 101
'R3HDM1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.24 (Fisher's exact test), Q value = 0.76

Table S607.  Gene #60: 'R3HDM1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
R3HDM1 MUTATED 0 1 3 3
R3HDM1 WILD-TYPE 127 118 103 153
'R3HDM1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.917 (Fisher's exact test), Q value = 1

Table S608.  Gene #60: 'R3HDM1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
R3HDM1 MUTATED 1 2 1 1 1 1
R3HDM1 WILD-TYPE 98 75 119 56 62 91
'PLCG1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.00107 (Fisher's exact test), Q value = 0.014

Table S609.  Gene #61: 'PLCG1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
PLCG1 MUTATED 0 5 1
PLCG1 WILD-TYPE 227 106 174

Figure S151.  Get High-res Image Gene #61: 'PLCG1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'PLCG1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.215 (Fisher's exact test), Q value = 0.73

Table S610.  Gene #61: 'PLCG1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
PLCG1 MUTATED 1 4 1 0
PLCG1 WILD-TYPE 208 132 157 13
'PLCG1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.0936 (Fisher's exact test), Q value = 0.43

Table S611.  Gene #61: 'PLCG1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
PLCG1 MUTATED 2 2 0 0
PLCG1 WILD-TYPE 89 93 126 117
'PLCG1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S612.  Gene #61: 'PLCG1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
PLCG1 MUTATED 0 2 2
PLCG1 WILD-TYPE 83 158 184
'PLCG1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0248 (Fisher's exact test), Q value = 0.18

Table S613.  Gene #61: 'PLCG1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
PLCG1 MUTATED 1 4 0 0 1
PLCG1 WILD-TYPE 129 111 106 135 29

Figure S152.  Get High-res Image Gene #61: 'PLCG1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'PLCG1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.374 (Fisher's exact test), Q value = 0.87

Table S614.  Gene #61: 'PLCG1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 135 71 36 68 91 41 74
PLCG1 MUTATED 1 3 0 1 1 0 0
PLCG1 WILD-TYPE 134 68 36 67 90 41 74
'PLCG1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0318 (Fisher's exact test), Q value = 0.21

Table S615.  Gene #61: 'PLCG1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
PLCG1 MUTATED 5 0 0 1
PLCG1 WILD-TYPE 135 107 83 181

Figure S153.  Get High-res Image Gene #61: 'PLCG1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

'PLCG1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0636 (Fisher's exact test), Q value = 0.33

Table S616.  Gene #61: 'PLCG1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
PLCG1 MUTATED 3 0 3
PLCG1 WILD-TYPE 220 186 100
'PLCG1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0458 (Fisher's exact test), Q value = 0.27

Table S617.  Gene #61: 'PLCG1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
PLCG1 MUTATED 3 3 0 0
PLCG1 WILD-TYPE 124 116 106 156

Figure S154.  Get High-res Image Gene #61: 'PLCG1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'PLCG1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0216 (Fisher's exact test), Q value = 0.17

Table S618.  Gene #61: 'PLCG1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
PLCG1 MUTATED 0 2 0 0 3 1
PLCG1 WILD-TYPE 99 75 120 57 60 91

Figure S155.  Get High-res Image Gene #61: 'PLCG1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'C14ORF4 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.799 (Fisher's exact test), Q value = 1

Table S619.  Gene #62: 'C14ORF4 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
C14ORF4 MUTATED 1 1 1
C14ORF4 WILD-TYPE 226 110 174
'C14ORF4 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.411 (Fisher's exact test), Q value = 0.92

Table S620.  Gene #62: 'C14ORF4 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
C14ORF4 MUTATED 1 2 0 0
C14ORF4 WILD-TYPE 208 134 158 13
'C14ORF4 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S621.  Gene #62: 'C14ORF4 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
C14ORF4 MUTATED 1 1 0 1 0
C14ORF4 WILD-TYPE 129 114 106 134 30
'C14ORF4 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S622.  Gene #62: '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 135 71 36 68 91 41 74
C14ORF4 MUTATED 1 1 0 0 0 0 1
C14ORF4 WILD-TYPE 134 70 36 68 91 41 73
'C14ORF4 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S623.  Gene #62: 'C14ORF4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
C14ORF4 MUTATED 1 1 0 1
C14ORF4 WILD-TYPE 139 106 83 181
'C14ORF4 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S624.  Gene #62: 'C14ORF4 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
C14ORF4 MUTATED 1 1 1
C14ORF4 WILD-TYPE 222 185 102
'C14ORF4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S625.  Gene #62: 'C14ORF4 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
C14ORF4 MUTATED 1 1 0 1
C14ORF4 WILD-TYPE 126 118 106 155
'C14ORF4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.867 (Fisher's exact test), Q value = 1

Table S626.  Gene #62: 'C14ORF4 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
C14ORF4 MUTATED 1 0 1 0 1 0
C14ORF4 WILD-TYPE 98 77 119 57 62 92
'ZBTB20 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.00029 (Fisher's exact test), Q value = 0.0044

Table S627.  Gene #63: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
ZBTB20 MUTATED 3 2 16
ZBTB20 WILD-TYPE 224 109 159

Figure S156.  Get High-res Image Gene #63: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'ZBTB20 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.00219 (Fisher's exact test), Q value = 0.026

Table S628.  Gene #63: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
ZBTB20 MUTATED 2 5 14 0
ZBTB20 WILD-TYPE 207 131 144 13

Figure S157.  Get High-res Image Gene #63: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'ZBTB20 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.849 (Fisher's exact test), Q value = 1

Table S629.  Gene #63: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
ZBTB20 MUTATED 4 2 5 5
ZBTB20 WILD-TYPE 87 93 121 112
'ZBTB20 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.294 (Fisher's exact test), Q value = 0.81

Table S630.  Gene #63: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
ZBTB20 MUTATED 4 8 4
ZBTB20 WILD-TYPE 79 152 182
'ZBTB20 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0137 (Fisher's exact test), Q value = 0.11

Table S631.  Gene #63: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
ZBTB20 MUTATED 1 2 5 11 2
ZBTB20 WILD-TYPE 129 113 101 124 28

Figure S158.  Get High-res Image Gene #63: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'ZBTB20 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00379 (Fisher's exact test), Q value = 0.042

Table S632.  Gene #63: '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 135 71 36 68 91 41 74
ZBTB20 MUTATED 1 0 4 2 6 2 6
ZBTB20 WILD-TYPE 134 71 32 66 85 39 68

Figure S159.  Get High-res Image Gene #63: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'ZBTB20 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.144 (Fisher's exact test), Q value = 0.57

Table S633.  Gene #63: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
ZBTB20 MUTATED 3 2 4 12
ZBTB20 WILD-TYPE 137 105 79 170
'ZBTB20 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0203 (Fisher's exact test), Q value = 0.16

Table S634.  Gene #63: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
ZBTB20 MUTATED 5 14 2
ZBTB20 WILD-TYPE 218 172 101

Figure S160.  Get High-res Image Gene #63: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'ZBTB20 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0133 (Fisher's exact test), Q value = 0.11

Table S635.  Gene #63: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
ZBTB20 MUTATED 3 1 4 13
ZBTB20 WILD-TYPE 124 118 102 143

Figure S161.  Get High-res Image Gene #63: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'ZBTB20 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.147 (Fisher's exact test), Q value = 0.58

Table S636.  Gene #63: 'ZBTB20 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
ZBTB20 MUTATED 1 4 9 1 1 5
ZBTB20 WILD-TYPE 98 73 111 56 62 87
'C4BPA MUTATION STATUS' versus 'CN_CNMF'

P value = 0.315 (Fisher's exact test), Q value = 0.82

Table S637.  Gene #64: 'C4BPA MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
C4BPA MUTATED 2 3 1
C4BPA WILD-TYPE 225 108 174
'C4BPA MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.578 (Fisher's exact test), Q value = 1

Table S638.  Gene #64: 'C4BPA MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
C4BPA MUTATED 2 3 1 0
C4BPA WILD-TYPE 207 133 157 13
'C4BPA MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.311 (Fisher's exact test), Q value = 0.82

Table S639.  Gene #64: 'C4BPA MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
C4BPA MUTATED 0 0 3 1
C4BPA WILD-TYPE 91 95 123 116
'C4BPA MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.538 (Fisher's exact test), Q value = 1

Table S640.  Gene #64: 'C4BPA MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
C4BPA MUTATED 0 1 3
C4BPA WILD-TYPE 83 159 183
'C4BPA MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.93 (Fisher's exact test), Q value = 1

Table S641.  Gene #64: 'C4BPA MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
C4BPA MUTATED 2 2 1 1 0
C4BPA WILD-TYPE 128 113 105 134 30
'C4BPA MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.384 (Fisher's exact test), Q value = 0.88

Table S642.  Gene #64: '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 135 71 36 68 91 41 74
C4BPA MUTATED 1 1 0 1 1 2 0
C4BPA WILD-TYPE 134 70 36 67 90 39 74
'C4BPA MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S643.  Gene #64: 'C4BPA MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
C4BPA MUTATED 2 2 1 1
C4BPA WILD-TYPE 138 105 82 181
'C4BPA MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.505 (Fisher's exact test), Q value = 1

Table S644.  Gene #64: 'C4BPA MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
C4BPA MUTATED 3 1 2
C4BPA WILD-TYPE 220 185 101
'C4BPA MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S645.  Gene #64: 'C4BPA MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
C4BPA MUTATED 1 1 2 2
C4BPA WILD-TYPE 126 118 104 154
'C4BPA MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.853 (Fisher's exact test), Q value = 1

Table S646.  Gene #64: 'C4BPA MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
C4BPA MUTATED 2 0 1 1 1 1
C4BPA WILD-TYPE 97 77 119 56 62 91
'ENGASE MUTATION STATUS' versus 'CN_CNMF'

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

Table S647.  Gene #65: 'ENGASE MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
ENGASE MUTATED 2 2 1
ENGASE WILD-TYPE 225 109 174
'ENGASE MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.768 (Fisher's exact test), Q value = 1

Table S648.  Gene #65: 'ENGASE MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
ENGASE MUTATED 2 2 1 0
ENGASE WILD-TYPE 207 134 157 13
'ENGASE MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S649.  Gene #65: 'ENGASE MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
ENGASE MUTATED 0 2 1 1 1
ENGASE WILD-TYPE 130 113 105 134 29
'ENGASE MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.251 (Fisher's exact test), Q value = 0.77

Table S650.  Gene #65: 'ENGASE MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 135 71 36 68 91 41 74
ENGASE MUTATED 1 0 0 1 1 2 0
ENGASE WILD-TYPE 134 71 36 67 90 39 74
'ENGASE MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.59 (Fisher's exact test), Q value = 1

Table S651.  Gene #65: 'ENGASE MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
ENGASE MUTATED 2 2 0 1
ENGASE WILD-TYPE 138 105 83 181
'ENGASE MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.441 (Fisher's exact test), Q value = 0.94

Table S652.  Gene #65: 'ENGASE MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
ENGASE MUTATED 2 1 2
ENGASE WILD-TYPE 221 185 101
'ENGASE MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S653.  Gene #65: 'ENGASE MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
ENGASE MUTATED 1 2 1 1
ENGASE WILD-TYPE 126 117 105 155
'ENGASE MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S654.  Gene #65: 'ENGASE MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
ENGASE MUTATED 1 1 1 1 0 1
ENGASE WILD-TYPE 98 76 119 56 63 91
'DLC1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0562 (Fisher's exact test), Q value = 0.3

Table S655.  Gene #66: 'DLC1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
DLC1 MUTATED 1 4 1
DLC1 WILD-TYPE 226 107 174
'DLC1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.578 (Fisher's exact test), Q value = 1

Table S656.  Gene #66: 'DLC1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
DLC1 MUTATED 2 3 1 0
DLC1 WILD-TYPE 207 133 157 13
'DLC1 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S657.  Gene #66: 'DLC1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
DLC1 MUTATED 1 1 2 0
DLC1 WILD-TYPE 90 94 124 117
'DLC1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.835 (Fisher's exact test), Q value = 1

Table S658.  Gene #66: 'DLC1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
DLC1 MUTATED 0 2 2
DLC1 WILD-TYPE 83 158 184
'DLC1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.507 (Fisher's exact test), Q value = 1

Table S659.  Gene #66: 'DLC1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
DLC1 MUTATED 2 3 0 1 0
DLC1 WILD-TYPE 128 112 106 134 30
'DLC1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S660.  Gene #66: '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 135 71 36 68 91 41 74
DLC1 MUTATED 2 2 0 0 0 1 1
DLC1 WILD-TYPE 133 69 36 68 91 40 73
'DLC1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.891 (Fisher's exact test), Q value = 1

Table S661.  Gene #66: 'DLC1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
DLC1 MUTATED 1 2 1 2
DLC1 WILD-TYPE 139 105 82 180
'DLC1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.149 (Fisher's exact test), Q value = 0.59

Table S662.  Gene #66: 'DLC1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
DLC1 MUTATED 1 2 3
DLC1 WILD-TYPE 222 184 100
'DLC1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.645 (Fisher's exact test), Q value = 1

Table S663.  Gene #66: 'DLC1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
DLC1 MUTATED 2 1 0 3
DLC1 WILD-TYPE 125 118 106 153
'DLC1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00717 (Fisher's exact test), Q value = 0.067

Table S664.  Gene #66: 'DLC1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
DLC1 MUTATED 0 0 0 0 2 4
DLC1 WILD-TYPE 99 77 120 57 61 88

Figure S162.  Get High-res Image Gene #66: 'DLC1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'G6PC MUTATION STATUS' versus 'CN_CNMF'

P value = 0.163 (Fisher's exact test), Q value = 0.61

Table S665.  Gene #67: 'G6PC MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
G6PC MUTATED 1 3 2
G6PC WILD-TYPE 226 108 173
'G6PC MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.475 (Fisher's exact test), Q value = 0.97

Table S666.  Gene #67: 'G6PC MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
G6PC MUTATED 1 3 2 0
G6PC WILD-TYPE 208 133 156 13
'G6PC MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.899 (Fisher's exact test), Q value = 1

Table S667.  Gene #67: 'G6PC MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
G6PC MUTATED 2 1 2 1
G6PC WILD-TYPE 89 94 124 116
'G6PC MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S668.  Gene #67: 'G6PC MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
G6PC MUTATED 1 2 3
G6PC WILD-TYPE 82 158 183
'G6PC MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.584 (Fisher's exact test), Q value = 1

Table S669.  Gene #67: 'G6PC MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
G6PC MUTATED 1 1 2 1 1
G6PC WILD-TYPE 129 114 104 134 29
'G6PC MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0805 (Fisher's exact test), Q value = 0.39

Table S670.  Gene #67: '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 135 71 36 68 91 41 74
G6PC MUTATED 0 1 1 1 1 2 0
G6PC WILD-TYPE 135 70 35 67 90 39 74
'G6PC MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.406 (Fisher's exact test), Q value = 0.92

Table S671.  Gene #67: 'G6PC MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
G6PC MUTATED 0 2 1 3
G6PC WILD-TYPE 140 105 82 179
'G6PC MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.149 (Fisher's exact test), Q value = 0.59

Table S672.  Gene #67: 'G6PC MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
G6PC MUTATED 1 2 3
G6PC WILD-TYPE 222 184 100
'G6PC MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.31 (Fisher's exact test), Q value = 0.82

Table S673.  Gene #67: 'G6PC MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
G6PC MUTATED 1 0 1 4
G6PC WILD-TYPE 126 119 105 152
'G6PC MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.736 (Fisher's exact test), Q value = 1

Table S674.  Gene #67: 'G6PC MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
G6PC MUTATED 1 0 3 1 0 1
G6PC WILD-TYPE 98 77 117 56 63 91
'SLC12A7 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0573 (Fisher's exact test), Q value = 0.31

Table S675.  Gene #68: 'SLC12A7 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
SLC12A7 MUTATED 1 4 2
SLC12A7 WILD-TYPE 226 107 173
'SLC12A7 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.639 (Fisher's exact test), Q value = 1

Table S676.  Gene #68: 'SLC12A7 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
SLC12A7 MUTATED 2 3 2 0
SLC12A7 WILD-TYPE 207 133 156 13
'SLC12A7 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.385 (Fisher's exact test), Q value = 0.89

Table S677.  Gene #68: 'SLC12A7 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
SLC12A7 MUTATED 0 1 4 2
SLC12A7 WILD-TYPE 91 94 122 115
'SLC12A7 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.323 (Fisher's exact test), Q value = 0.83

Table S678.  Gene #68: 'SLC12A7 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
SLC12A7 MUTATED 0 2 5
SLC12A7 WILD-TYPE 83 158 181
'SLC12A7 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S679.  Gene #68: 'SLC12A7 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
SLC12A7 MUTATED 2 2 2 1 0
SLC12A7 WILD-TYPE 128 113 104 134 30
'SLC12A7 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.849 (Fisher's exact test), Q value = 1

Table S680.  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 135 71 36 68 91 41 74
SLC12A7 MUTATED 2 1 1 0 1 1 1
SLC12A7 WILD-TYPE 133 70 35 68 90 40 73
'SLC12A7 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.444 (Fisher's exact test), Q value = 0.94

Table S681.  Gene #68: 'SLC12A7 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
SLC12A7 MUTATED 3 1 2 1
SLC12A7 WILD-TYPE 137 106 81 181
'SLC12A7 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S682.  Gene #68: 'SLC12A7 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
SLC12A7 MUTATED 3 2 2
SLC12A7 WILD-TYPE 220 184 101
'SLC12A7 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.625 (Fisher's exact test), Q value = 1

Table S683.  Gene #68: 'SLC12A7 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
SLC12A7 MUTATED 1 1 3 2
SLC12A7 WILD-TYPE 126 118 103 154
'SLC12A7 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.953 (Fisher's exact test), Q value = 1

Table S684.  Gene #68: 'SLC12A7 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
SLC12A7 MUTATED 1 1 1 1 1 2
SLC12A7 WILD-TYPE 98 76 119 56 62 90
'RET MUTATION STATUS' versus 'CN_CNMF'

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

Table S685.  Gene #69: 'RET MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
RET MUTATED 2 2 3
RET WILD-TYPE 225 109 172
'RET MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.639 (Fisher's exact test), Q value = 1

Table S686.  Gene #69: 'RET MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
RET MUTATED 2 3 2 0
RET WILD-TYPE 207 133 156 13
'RET MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S687.  Gene #69: 'RET MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
RET MUTATED 0 2 1 1
RET WILD-TYPE 91 93 125 116
'RET MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.835 (Fisher's exact test), Q value = 1

Table S688.  Gene #69: 'RET MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
RET MUTATED 0 2 2
RET WILD-TYPE 83 158 184
'RET MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.475 (Fisher's exact test), Q value = 0.97

Table S689.  Gene #69: 'RET MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
RET MUTATED 1 3 0 3 0
RET WILD-TYPE 129 112 106 132 30
'RET MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.443 (Fisher's exact test), Q value = 0.94

Table S690.  Gene #69: '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 135 71 36 68 91 41 74
RET MUTATED 1 2 1 1 0 1 1
RET WILD-TYPE 134 69 35 67 91 40 73
'RET MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.684 (Fisher's exact test), Q value = 1

Table S691.  Gene #69: 'RET MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
RET MUTATED 2 1 0 4
RET WILD-TYPE 138 106 83 178
'RET MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.153 (Fisher's exact test), Q value = 0.6

Table S692.  Gene #69: 'RET MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
RET MUTATED 1 3 3
RET WILD-TYPE 222 183 100
'RET MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.43 (Fisher's exact test), Q value = 0.94

Table S693.  Gene #69: 'RET MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
RET MUTATED 2 1 0 4
RET WILD-TYPE 125 118 106 152
'RET MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.633 (Fisher's exact test), Q value = 1

Table S694.  Gene #69: 'RET MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
RET MUTATED 1 0 2 0 2 2
RET WILD-TYPE 98 77 118 57 61 90
'SETD2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0696 (Fisher's exact test), Q value = 0.35

Table S695.  Gene #70: 'SETD2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
SETD2 MUTATED 4 5 1
SETD2 WILD-TYPE 223 106 174
'SETD2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.018 (Fisher's exact test), Q value = 0.14

Table S696.  Gene #70: 'SETD2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
SETD2 MUTATED 1 6 2 1
SETD2 WILD-TYPE 208 130 156 12

Figure S163.  Get High-res Image Gene #70: 'SETD2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'SETD2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S697.  Gene #70: 'SETD2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
SETD2 MUTATED 2 2 2 2
SETD2 WILD-TYPE 89 93 124 115
'SETD2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S698.  Gene #70: 'SETD2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
SETD2 MUTATED 2 3 3
SETD2 WILD-TYPE 81 157 183
'SETD2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.00011 (Fisher's exact test), Q value = 0.0019

Table S699.  Gene #70: 'SETD2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
SETD2 MUTATED 0 6 1 0 3
SETD2 WILD-TYPE 130 109 105 135 27

Figure S164.  Get High-res Image Gene #70: 'SETD2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'SETD2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0524 (Fisher's exact test), Q value = 0.29

Table S700.  Gene #70: '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 135 71 36 68 91 41 74
SETD2 MUTATED 1 2 0 1 1 4 1
SETD2 WILD-TYPE 134 69 36 67 90 37 73
'SETD2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.366 (Fisher's exact test), Q value = 0.87

Table S701.  Gene #70: 'SETD2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
SETD2 MUTATED 1 4 2 3
SETD2 WILD-TYPE 139 103 81 179
'SETD2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0908 (Fisher's exact test), Q value = 0.42

Table S702.  Gene #70: 'SETD2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
SETD2 MUTATED 3 2 5
SETD2 WILD-TYPE 220 184 98
'SETD2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S703.  Gene #70: 'SETD2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
SETD2 MUTATED 2 4 0 4
SETD2 WILD-TYPE 125 115 106 152
'SETD2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.811 (Fisher's exact test), Q value = 1

Table S704.  Gene #70: 'SETD2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
SETD2 MUTATED 1 3 3 1 1 1
SETD2 WILD-TYPE 98 74 117 56 62 91
'ZC3H11A MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0192 (Fisher's exact test), Q value = 0.15

Table S705.  Gene #71: 'ZC3H11A MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
ZC3H11A MUTATED 2 4 0
ZC3H11A WILD-TYPE 225 107 175

Figure S165.  Get High-res Image Gene #71: 'ZC3H11A MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'ZC3H11A MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0268 (Fisher's exact test), Q value = 0.19

Table S706.  Gene #71: 'ZC3H11A MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
ZC3H11A MUTATED 1 5 0 0
ZC3H11A WILD-TYPE 208 131 158 13

Figure S166.  Get High-res Image Gene #71: 'ZC3H11A MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'ZC3H11A MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.447 (Fisher's exact test), Q value = 0.94

Table S707.  Gene #71: 'ZC3H11A MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
ZC3H11A MUTATED 2 1 2 0
ZC3H11A WILD-TYPE 89 94 124 117
'ZC3H11A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0497 (Fisher's exact test), Q value = 0.28

Table S708.  Gene #71: 'ZC3H11A MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
ZC3H11A MUTATED 0 0 5
ZC3H11A WILD-TYPE 83 160 181

Figure S167.  Get High-res Image Gene #71: 'ZC3H11A MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

'ZC3H11A MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0158 (Fisher's exact test), Q value = 0.13

Table S709.  Gene #71: 'ZC3H11A MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
ZC3H11A MUTATED 1 5 0 0 0
ZC3H11A WILD-TYPE 129 110 106 135 30

Figure S168.  Get High-res Image Gene #71: 'ZC3H11A MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'ZC3H11A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0239 (Fisher's exact test), Q value = 0.18

Table S710.  Gene #71: 'ZC3H11A MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 135 71 36 68 91 41 74
ZC3H11A MUTATED 1 4 0 0 0 1 0
ZC3H11A WILD-TYPE 134 67 36 68 91 40 74

Figure S169.  Get High-res Image Gene #71: 'ZC3H11A MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'ZC3H11A MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.267 (Fisher's exact test), Q value = 0.78

Table S711.  Gene #71: 'ZC3H11A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
ZC3H11A MUTATED 2 3 0 1
ZC3H11A WILD-TYPE 138 104 83 181
'ZC3H11A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0113 (Fisher's exact test), Q value = 0.098

Table S712.  Gene #71: 'ZC3H11A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
ZC3H11A MUTATED 2 0 4
ZC3H11A WILD-TYPE 221 186 99

Figure S170.  Get High-res Image Gene #71: 'ZC3H11A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'ZC3H11A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.1 (Fisher's exact test), Q value = 0.45

Table S713.  Gene #71: 'ZC3H11A MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
ZC3H11A MUTATED 1 4 0 1
ZC3H11A WILD-TYPE 126 115 106 155
'ZC3H11A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0542 (Fisher's exact test), Q value = 0.3

Table S714.  Gene #71: 'ZC3H11A MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
ZC3H11A MUTATED 2 0 0 0 3 1
ZC3H11A WILD-TYPE 97 77 120 57 60 91
'USP6 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.616 (Fisher's exact test), Q value = 1

Table S715.  Gene #72: 'USP6 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
USP6 MUTATED 4 2 1
USP6 WILD-TYPE 223 109 174
'USP6 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S716.  Gene #72: 'USP6 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
USP6 MUTATED 3 3 1 0
USP6 WILD-TYPE 206 133 157 13
'USP6 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S717.  Gene #72: 'USP6 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
USP6 MUTATED 1 2 2 1
USP6 WILD-TYPE 90 93 124 116
'USP6 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S718.  Gene #72: 'USP6 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
USP6 MUTATED 1 2 3
USP6 WILD-TYPE 82 158 183
'USP6 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.443 (Fisher's exact test), Q value = 0.94

Table S719.  Gene #72: 'USP6 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
USP6 MUTATED 3 3 0 1 0
USP6 WILD-TYPE 127 112 106 134 30
'USP6 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.225 (Fisher's exact test), Q value = 0.75

Table S720.  Gene #72: 'USP6 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 135 71 36 68 91 41 74
USP6 MUTATED 2 1 1 1 0 2 0
USP6 WILD-TYPE 133 70 35 67 91 39 74
'USP6 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.609 (Fisher's exact test), Q value = 1

Table S721.  Gene #72: 'USP6 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
USP6 MUTATED 3 2 1 1
USP6 WILD-TYPE 137 105 82 181
'USP6 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S722.  Gene #72: 'USP6 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
USP6 MUTATED 3 1 3
USP6 WILD-TYPE 220 185 100
'USP6 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.777 (Fisher's exact test), Q value = 1

Table S723.  Gene #72: 'USP6 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
USP6 MUTATED 3 1 1 2
USP6 WILD-TYPE 124 118 105 154
'USP6 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.422 (Fisher's exact test), Q value = 0.94

Table S724.  Gene #72: 'USP6 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
USP6 MUTATED 2 2 0 0 1 2
USP6 WILD-TYPE 97 75 120 57 62 90
'RBBP6 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0442 (Fisher's exact test), Q value = 0.26

Table S725.  Gene #73: 'RBBP6 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
RBBP6 MUTATED 0 2 4
RBBP6 WILD-TYPE 227 109 171

Figure S171.  Get High-res Image Gene #73: 'RBBP6 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'RBBP6 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0159 (Fisher's exact test), Q value = 0.13

Table S726.  Gene #73: 'RBBP6 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
RBBP6 MUTATED 0 1 4 1
RBBP6 WILD-TYPE 209 135 154 12

Figure S172.  Get High-res Image Gene #73: 'RBBP6 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'RBBP6 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S727.  Gene #73: 'RBBP6 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
RBBP6 MUTATED 1 1 2 2
RBBP6 WILD-TYPE 90 94 124 115
'RBBP6 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.0974 (Fisher's exact test), Q value = 0.44

Table S728.  Gene #73: 'RBBP6 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
RBBP6 MUTATED 0 5 1
RBBP6 WILD-TYPE 83 155 185
'RBBP6 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0286 (Fisher's exact test), Q value = 0.19

Table S729.  Gene #73: 'RBBP6 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
RBBP6 MUTATED 0 2 4 0 0
RBBP6 WILD-TYPE 130 113 102 135 30

Figure S173.  Get High-res Image Gene #73: 'RBBP6 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'RBBP6 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.00521 (Fisher's exact test), Q value = 0.055

Table S730.  Gene #73: '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 135 71 36 68 91 41 74
RBBP6 MUTATED 0 0 0 0 4 2 0
RBBP6 WILD-TYPE 135 71 36 68 87 39 74

Figure S174.  Get High-res Image Gene #73: 'RBBP6 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'RBBP6 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.283 (Fisher's exact test), Q value = 0.8

Table S731.  Gene #73: 'RBBP6 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
RBBP6 MUTATED 0 1 2 3
RBBP6 WILD-TYPE 140 106 81 179
'RBBP6 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.0645 (Fisher's exact test), Q value = 0.33

Table S732.  Gene #73: 'RBBP6 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
RBBP6 MUTATED 3 0 3
RBBP6 WILD-TYPE 220 186 100
'RBBP6 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0224 (Fisher's exact test), Q value = 0.17

Table S733.  Gene #73: 'RBBP6 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
RBBP6 MUTATED 0 0 4 2
RBBP6 WILD-TYPE 127 119 102 154

Figure S175.  Get High-res Image Gene #73: 'RBBP6 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'RBBP6 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.0273 (Fisher's exact test), Q value = 0.19

Table S734.  Gene #73: 'RBBP6 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
RBBP6 MUTATED 0 1 0 1 0 4
RBBP6 WILD-TYPE 99 76 120 56 63 88

Figure S176.  Get High-res Image Gene #73: 'RBBP6 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'SLFN11 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.131 (Fisher's exact test), Q value = 0.54

Table S735.  Gene #74: 'SLFN11 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
SLFN11 MUTATED 4 2 0
SLFN11 WILD-TYPE 223 109 175
'SLFN11 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S736.  Gene #74: 'SLFN11 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
SLFN11 MUTATED 4 1 1 0
SLFN11 WILD-TYPE 205 135 157 13
'SLFN11 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S737.  Gene #74: 'SLFN11 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
SLFN11 MUTATED 1 1 2 2
SLFN11 WILD-TYPE 90 94 124 115
'SLFN11 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.362 (Fisher's exact test), Q value = 0.87

Table S738.  Gene #74: 'SLFN11 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
SLFN11 MUTATED 0 4 2
SLFN11 WILD-TYPE 83 156 184
'SLFN11 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.633 (Fisher's exact test), Q value = 1

Table S739.  Gene #74: 'SLFN11 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
SLFN11 MUTATED 1 2 1 1 1
SLFN11 WILD-TYPE 129 113 105 134 29
'SLFN11 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.37 (Fisher's exact test), Q value = 0.87

Table S740.  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 135 71 36 68 91 41 74
SLFN11 MUTATED 2 0 0 1 1 2 0
SLFN11 WILD-TYPE 133 71 36 67 90 39 74
'SLFN11 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.369 (Fisher's exact test), Q value = 0.87

Table S741.  Gene #74: 'SLFN11 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
SLFN11 MUTATED 1 3 0 2
SLFN11 WILD-TYPE 139 104 83 180
'SLFN11 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.119 (Fisher's exact test), Q value = 0.5

Table S742.  Gene #74: 'SLFN11 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
SLFN11 MUTATED 4 0 2
SLFN11 WILD-TYPE 219 186 101
'SLFN11 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.529 (Fisher's exact test), Q value = 1

Table S743.  Gene #74: 'SLFN11 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
SLFN11 MUTATED 3 1 0 2
SLFN11 WILD-TYPE 124 118 106 154
'SLFN11 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.27 (Fisher's exact test), Q value = 0.78

Table S744.  Gene #74: 'SLFN11 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
SLFN11 MUTATED 1 1 0 1 0 3
SLFN11 WILD-TYPE 98 76 120 56 63 89
'ASXL2 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.236 (Fisher's exact test), Q value = 0.75

Table S745.  Gene #75: 'ASXL2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
ASXL2 MUTATED 0 1 2
ASXL2 WILD-TYPE 227 110 173
'ASXL2 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.324 (Fisher's exact test), Q value = 0.83

Table S746.  Gene #75: 'ASXL2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
ASXL2 MUTATED 0 1 2 0
ASXL2 WILD-TYPE 209 135 156 13
'ASXL2 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S747.  Gene #75: 'ASXL2 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
ASXL2 MUTATED 0 0 2 1
ASXL2 WILD-TYPE 91 95 124 116
'ASXL2 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.602 (Fisher's exact test), Q value = 1

Table S748.  Gene #75: 'ASXL2 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
ASXL2 MUTATED 0 2 1
ASXL2 WILD-TYPE 83 158 185
'ASXL2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.832 (Fisher's exact test), Q value = 1

Table S749.  Gene #75: 'ASXL2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
ASXL2 MUTATED 0 1 1 1 0
ASXL2 WILD-TYPE 130 114 105 134 30
'ASXL2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.305 (Fisher's exact test), Q value = 0.82

Table S750.  Gene #75: '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 135 71 36 68 91 41 74
ASXL2 MUTATED 0 0 0 0 1 1 1
ASXL2 WILD-TYPE 135 71 36 68 90 40 73
'ASXL2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S751.  Gene #75: 'ASXL2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
ASXL2 MUTATED 0 1 1 1
ASXL2 WILD-TYPE 140 106 82 181
'ASXL2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S752.  Gene #75: 'ASXL2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
ASXL2 MUTATED 1 1 1
ASXL2 WILD-TYPE 222 185 102
'ASXL2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.49 (Fisher's exact test), Q value = 0.99

Table S753.  Gene #75: 'ASXL2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
ASXL2 MUTATED 0 0 1 2
ASXL2 WILD-TYPE 127 119 105 154
'ASXL2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.12 (Fisher's exact test), Q value = 0.5

Table S754.  Gene #75: 'ASXL2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
ASXL2 MUTATED 0 0 0 1 0 2
ASXL2 WILD-TYPE 99 77 120 56 63 90
'KRT15 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.162 (Fisher's exact test), Q value = 0.61

Table S755.  Gene #76: 'KRT15 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
KRT15 MUTATED 1 3 2
KRT15 WILD-TYPE 226 108 173
'KRT15 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S756.  Gene #76: 'KRT15 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
KRT15 MUTATED 2 1 2 1
KRT15 WILD-TYPE 207 135 156 12
'KRT15 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S757.  Gene #76: 'KRT15 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
KRT15 MUTATED 0 1 1 1
KRT15 WILD-TYPE 91 94 125 116
'KRT15 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.79 (Fisher's exact test), Q value = 1

Table S758.  Gene #76: 'KRT15 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
KRT15 MUTATED 1 1 1
KRT15 WILD-TYPE 82 159 185
'KRT15 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S759.  Gene #76: 'KRT15 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
KRT15 MUTATED 0 2 1 3 0
KRT15 WILD-TYPE 130 113 105 132 30
'KRT15 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.462 (Fisher's exact test), Q value = 0.96

Table S760.  Gene #76: '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 135 71 36 68 91 41 74
KRT15 MUTATED 0 1 0 1 2 1 1
KRT15 WILD-TYPE 135 70 36 67 89 40 73
'KRT15 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.515 (Fisher's exact test), Q value = 1

Table S761.  Gene #76: 'KRT15 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
KRT15 MUTATED 3 0 1 2
KRT15 WILD-TYPE 137 107 82 180
'KRT15 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.867 (Fisher's exact test), Q value = 1

Table S762.  Gene #76: 'KRT15 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
KRT15 MUTATED 2 3 1
KRT15 WILD-TYPE 221 183 102
'KRT15 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.948 (Fisher's exact test), Q value = 1

Table S763.  Gene #76: 'KRT15 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
KRT15 MUTATED 1 2 1 2
KRT15 WILD-TYPE 126 117 105 154
'KRT15 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.863 (Fisher's exact test), Q value = 1

Table S764.  Gene #76: 'KRT15 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
KRT15 MUTATED 1 1 2 1 1 0
KRT15 WILD-TYPE 98 76 118 56 62 92
'FMR1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.851 (Fisher's exact test), Q value = 1

Table S765.  Gene #77: 'FMR1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
FMR1 MUTATED 3 1 1
FMR1 WILD-TYPE 224 110 174
'FMR1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.248 (Fisher's exact test), Q value = 0.77

Table S766.  Gene #77: 'FMR1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
FMR1 MUTATED 2 3 0 0
FMR1 WILD-TYPE 207 133 158 13
'FMR1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.326 (Fisher's exact test), Q value = 0.83

Table S767.  Gene #77: 'FMR1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
FMR1 MUTATED 2 2 1 0
FMR1 WILD-TYPE 89 93 125 117
'FMR1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.35 (Fisher's exact test), Q value = 0.86

Table S768.  Gene #77: 'FMR1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
FMR1 MUTATED 2 2 1
FMR1 WILD-TYPE 81 158 185
'FMR1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.183 (Fisher's exact test), Q value = 0.66

Table S769.  Gene #77: 'FMR1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
FMR1 MUTATED 2 3 0 0 0
FMR1 WILD-TYPE 128 112 106 135 30
'FMR1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.449 (Fisher's exact test), Q value = 0.94

Table S770.  Gene #77: 'FMR1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 135 71 36 68 91 41 74
FMR1 MUTATED 3 1 0 0 0 1 0
FMR1 WILD-TYPE 132 70 36 68 91 40 74
'FMR1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.242 (Fisher's exact test), Q value = 0.76

Table S771.  Gene #77: 'FMR1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
FMR1 MUTATED 1 3 0 1
FMR1 WILD-TYPE 139 104 83 181
'FMR1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.354 (Fisher's exact test), Q value = 0.87

Table S772.  Gene #77: 'FMR1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
FMR1 MUTATED 1 2 2
FMR1 WILD-TYPE 222 184 101
'FMR1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.73 (Fisher's exact test), Q value = 1

Table S773.  Gene #77: 'FMR1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
FMR1 MUTATED 1 2 0 2
FMR1 WILD-TYPE 126 117 106 154
'FMR1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.311 (Fisher's exact test), Q value = 0.82

Table S774.  Gene #77: 'FMR1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
FMR1 MUTATED 1 2 0 0 0 2
FMR1 WILD-TYPE 98 75 120 57 63 90
'DDX5 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.374 (Fisher's exact test), Q value = 0.87

Table S775.  Gene #78: 'DDX5 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
DDX5 MUTATED 1 2 2
DDX5 WILD-TYPE 226 109 173
'DDX5 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S776.  Gene #78: 'DDX5 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
DDX5 MUTATED 2 1 2 0
DDX5 WILD-TYPE 207 135 156 13
'DDX5 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S777.  Gene #78: 'DDX5 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
DDX5 MUTATED 1 1 2 1
DDX5 WILD-TYPE 90 94 124 116
'DDX5 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S778.  Gene #78: 'DDX5 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
DDX5 MUTATED 0 3 2
DDX5 WILD-TYPE 83 157 184
'DDX5 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S779.  Gene #78: 'DDX5 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
DDX5 MUTATED 2 1 2 0 0
DDX5 WILD-TYPE 128 114 104 135 30
'DDX5 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.473 (Fisher's exact test), Q value = 0.97

Table S780.  Gene #78: '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 135 71 36 68 91 41 74
DDX5 MUTATED 2 0 1 0 1 1 0
DDX5 WILD-TYPE 133 71 35 68 90 40 74
'DDX5 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.261 (Fisher's exact test), Q value = 0.77

Table S781.  Gene #78: 'DDX5 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
DDX5 MUTATED 0 2 0 3
DDX5 WILD-TYPE 140 105 83 179
'DDX5 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.528 (Fisher's exact test), Q value = 1

Table S782.  Gene #78: 'DDX5 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
DDX5 MUTATED 1 3 1
DDX5 WILD-TYPE 222 183 102
'DDX5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.657 (Fisher's exact test), Q value = 1

Table S783.  Gene #78: 'DDX5 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
DDX5 MUTATED 1 1 0 3
DDX5 WILD-TYPE 126 118 106 153
'DDX5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.291 (Fisher's exact test), Q value = 0.81

Table S784.  Gene #78: 'DDX5 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
DDX5 MUTATED 0 1 1 0 0 3
DDX5 WILD-TYPE 99 76 119 57 63 89
'SCN4A MUTATION STATUS' versus 'CN_CNMF'

P value = 0.235 (Fisher's exact test), Q value = 0.75

Table S785.  Gene #79: 'SCN4A MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
SCN4A MUTATED 1 1 4
SCN4A WILD-TYPE 226 110 171
'SCN4A MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S786.  Gene #79: 'SCN4A MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
SCN4A MUTATED 1 2 3 0
SCN4A WILD-TYPE 208 134 155 13
'SCN4A MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.565 (Fisher's exact test), Q value = 1

Table S787.  Gene #79: 'SCN4A MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
SCN4A MUTATED 0 1 2 3
SCN4A WILD-TYPE 91 94 124 114
'SCN4A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.866 (Fisher's exact test), Q value = 1

Table S788.  Gene #79: 'SCN4A MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
SCN4A MUTATED 1 3 2
SCN4A WILD-TYPE 82 157 184
'SCN4A MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.466 (Fisher's exact test), Q value = 0.96

Table S789.  Gene #79: 'SCN4A MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
SCN4A MUTATED 0 1 2 3 0
SCN4A WILD-TYPE 130 114 104 132 30
'SCN4A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.11 (Fisher's exact test), Q value = 0.48

Table S790.  Gene #79: '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 135 71 36 68 91 41 74
SCN4A MUTATED 0 0 0 1 1 1 3
SCN4A WILD-TYPE 135 71 36 67 90 40 71
'SCN4A MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.568 (Fisher's exact test), Q value = 1

Table S791.  Gene #79: 'SCN4A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
SCN4A MUTATED 1 1 0 4
SCN4A WILD-TYPE 139 106 83 178
'SCN4A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S792.  Gene #79: 'SCN4A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
SCN4A MUTATED 2 3 1
SCN4A WILD-TYPE 221 183 102
'SCN4A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.109 (Fisher's exact test), Q value = 0.47

Table S793.  Gene #79: 'SCN4A MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
SCN4A MUTATED 0 2 0 4
SCN4A WILD-TYPE 127 117 106 152
'SCN4A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.398 (Fisher's exact test), Q value = 0.91

Table S794.  Gene #79: 'SCN4A MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
SCN4A MUTATED 0 2 3 0 0 1
SCN4A WILD-TYPE 99 75 117 57 63 91
'CCDC135 MUTATION STATUS' versus 'CN_CNMF'

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

Table S795.  Gene #80: 'CCDC135 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
CCDC135 MUTATED 3 1 3
CCDC135 WILD-TYPE 224 110 172
'CCDC135 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S796.  Gene #80: 'CCDC135 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
CCDC135 MUTATED 2 2 3 0
CCDC135 WILD-TYPE 207 134 155 13
'CCDC135 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.392 (Fisher's exact test), Q value = 0.9

Table S797.  Gene #80: 'CCDC135 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
CCDC135 MUTATED 1 1 3 0
CCDC135 WILD-TYPE 90 94 123 117
'CCDC135 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.431 (Fisher's exact test), Q value = 0.94

Table S798.  Gene #80: 'CCDC135 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
CCDC135 MUTATED 2 1 2
CCDC135 WILD-TYPE 81 159 184
'CCDC135 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.366 (Fisher's exact test), Q value = 0.87

Table S799.  Gene #80: 'CCDC135 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
CCDC135 MUTATED 0 3 1 3 0
CCDC135 WILD-TYPE 130 112 105 132 30
'CCDC135 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0267 (Fisher's exact test), Q value = 0.19

Table S800.  Gene #80: '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 135 71 36 68 91 41 74
CCDC135 MUTATED 0 0 0 2 3 2 0
CCDC135 WILD-TYPE 135 71 36 66 88 39 74

Figure S177.  Get High-res Image Gene #80: 'CCDC135 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'CCDC135 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.657 (Fisher's exact test), Q value = 1

Table S801.  Gene #80: 'CCDC135 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
CCDC135 MUTATED 1 2 2 2
CCDC135 WILD-TYPE 139 105 81 180
'CCDC135 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S802.  Gene #80: 'CCDC135 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
CCDC135 MUTATED 3 3 1
CCDC135 WILD-TYPE 220 183 102
'CCDC135 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.917 (Fisher's exact test), Q value = 1

Table S803.  Gene #80: 'CCDC135 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
CCDC135 MUTATED 2 1 1 3
CCDC135 WILD-TYPE 125 118 105 153
'CCDC135 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.518 (Fisher's exact test), Q value = 1

Table S804.  Gene #80: 'CCDC135 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
CCDC135 MUTATED 1 0 2 2 0 2
CCDC135 WILD-TYPE 98 77 118 55 63 90
'MYOCD MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0357 (Fisher's exact test), Q value = 0.23

Table S805.  Gene #81: 'MYOCD MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
MYOCD MUTATED 5 4 0
MYOCD WILD-TYPE 222 107 175

Figure S178.  Get High-res Image Gene #81: 'MYOCD MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'MYOCD MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.0378 (Fisher's exact test), Q value = 0.23

Table S806.  Gene #81: 'MYOCD MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
MYOCD MUTATED 3 6 0 0
MYOCD WILD-TYPE 206 130 158 13

Figure S179.  Get High-res Image Gene #81: 'MYOCD MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

'MYOCD MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.749 (Fisher's exact test), Q value = 1

Table S807.  Gene #81: 'MYOCD MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
MYOCD MUTATED 3 1 3 2
MYOCD WILD-TYPE 88 94 123 115
'MYOCD MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.552 (Fisher's exact test), Q value = 1

Table S808.  Gene #81: 'MYOCD MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
MYOCD MUTATED 3 3 3
MYOCD WILD-TYPE 80 157 183
'MYOCD MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0783 (Fisher's exact test), Q value = 0.38

Table S809.  Gene #81: 'MYOCD MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
MYOCD MUTATED 2 5 0 1 1
MYOCD WILD-TYPE 128 110 106 134 29
'MYOCD MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0144 (Fisher's exact test), Q value = 0.12

Table S810.  Gene #81: 'MYOCD MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 135 71 36 68 91 41 74
MYOCD MUTATED 1 5 0 2 0 1 0
MYOCD WILD-TYPE 134 66 36 66 91 40 74

Figure S180.  Get High-res Image Gene #81: 'MYOCD MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'MYOCD MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.279 (Fisher's exact test), Q value = 0.79

Table S811.  Gene #81: 'MYOCD MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
MYOCD MUTATED 1 3 0 5
MYOCD WILD-TYPE 139 104 83 177
'MYOCD MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00063 (Fisher's exact test), Q value = 0.0089

Table S812.  Gene #81: 'MYOCD MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
MYOCD MUTATED 0 3 6
MYOCD WILD-TYPE 223 183 97

Figure S181.  Get High-res Image Gene #81: 'MYOCD MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'MYOCD MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.142 (Fisher's exact test), Q value = 0.57

Table S813.  Gene #81: 'MYOCD MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
MYOCD MUTATED 5 1 0 3
MYOCD WILD-TYPE 122 118 106 153
'MYOCD MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.111 (Fisher's exact test), Q value = 0.48

Table S814.  Gene #81: 'MYOCD MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
MYOCD MUTATED 1 0 2 0 4 2
MYOCD WILD-TYPE 98 77 118 57 59 90
'TMEM184A MUTATION STATUS' versus 'CN_CNMF'

P value = 0.236 (Fisher's exact test), Q value = 0.75

Table S815.  Gene #82: 'TMEM184A MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
TMEM184A MUTATED 0 1 2
TMEM184A WILD-TYPE 227 110 173
'TMEM184A MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.323 (Fisher's exact test), Q value = 0.83

Table S816.  Gene #82: 'TMEM184A MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
TMEM184A MUTATED 0 1 2 0
TMEM184A WILD-TYPE 209 135 156 13
'TMEM184A MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S817.  Gene #82: 'TMEM184A MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
TMEM184A MUTATED 1 0 1 1
TMEM184A WILD-TYPE 90 95 125 116
'TMEM184A MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S818.  Gene #82: 'TMEM184A MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
TMEM184A MUTATED 0 1 2
TMEM184A WILD-TYPE 83 159 184
'TMEM184A MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.586 (Fisher's exact test), Q value = 1

Table S819.  Gene #82: 'TMEM184A MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
TMEM184A MUTATED 0 1 0 2 0
TMEM184A WILD-TYPE 130 114 106 133 30
'TMEM184A MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.172 (Fisher's exact test), Q value = 0.64

Table S820.  Gene #82: '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 135 71 36 68 91 41 74
TMEM184A MUTATED 0 1 0 0 0 0 2
TMEM184A WILD-TYPE 135 70 36 68 91 41 72
'TMEM184A MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S821.  Gene #82: 'TMEM184A MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
TMEM184A MUTATED 1 0 0 2
TMEM184A WILD-TYPE 139 107 83 180
'TMEM184A MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S822.  Gene #82: 'TMEM184A MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
TMEM184A MUTATED 0 2 1
TMEM184A WILD-TYPE 223 184 102
'TMEM184A MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S823.  Gene #82: 'TMEM184A MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
TMEM184A MUTATED 1 0 0 2
TMEM184A WILD-TYPE 126 119 106 154
'TMEM184A MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.449 (Fisher's exact test), Q value = 0.94

Table S824.  Gene #82: 'TMEM184A MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
TMEM184A MUTATED 0 0 2 0 1 0
TMEM184A WILD-TYPE 99 77 118 57 62 92
'KTELC1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.852 (Fisher's exact test), Q value = 1

Table S825.  Gene #83: 'KTELC1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
KTELC1 MUTATED 3 1 1
KTELC1 WILD-TYPE 224 110 174
'KTELC1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.324 (Fisher's exact test), Q value = 0.83

Table S826.  Gene #83: 'KTELC1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
KTELC1 MUTATED 4 0 1 0
KTELC1 WILD-TYPE 205 136 157 13
'KTELC1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.311 (Fisher's exact test), Q value = 0.82

Table S827.  Gene #83: 'KTELC1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
KTELC1 MUTATED 0 0 3 1
KTELC1 WILD-TYPE 91 95 123 116
'KTELC1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S828.  Gene #83: 'KTELC1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
KTELC1 MUTATED 0 1 3
KTELC1 WILD-TYPE 83 159 183
'KTELC1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.953 (Fisher's exact test), Q value = 1

Table S829.  Gene #83: 'KTELC1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
KTELC1 MUTATED 2 1 1 1 0
KTELC1 WILD-TYPE 128 114 105 134 30
'KTELC1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

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

Table S830.  Gene #83: '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 135 71 36 68 91 41 74
KTELC1 MUTATED 2 0 0 1 1 1 0
KTELC1 WILD-TYPE 133 71 36 67 90 40 74
'KTELC1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.118 (Fisher's exact test), Q value = 0.5

Table S831.  Gene #83: 'KTELC1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
KTELC1 MUTATED 0 3 1 1
KTELC1 WILD-TYPE 140 104 82 181
'KTELC1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00673 (Fisher's exact test), Q value = 0.065

Table S832.  Gene #83: 'KTELC1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
KTELC1 MUTATED 1 0 4
KTELC1 WILD-TYPE 222 186 99

Figure S182.  Get High-res Image Gene #83: 'KTELC1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'KTELC1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.93 (Fisher's exact test), Q value = 1

Table S833.  Gene #83: 'KTELC1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
KTELC1 MUTATED 2 1 1 1
KTELC1 WILD-TYPE 125 118 105 155
'KTELC1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.504 (Fisher's exact test), Q value = 1

Table S834.  Gene #83: 'KTELC1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
KTELC1 MUTATED 1 1 0 1 0 2
KTELC1 WILD-TYPE 98 76 120 56 63 90
'GPR133 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.436 (Fisher's exact test), Q value = 0.94

Table S835.  Gene #84: 'GPR133 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
GPR133 MUTATED 1 2 1
GPR133 WILD-TYPE 226 109 174
'GPR133 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.718 (Fisher's exact test), Q value = 1

Table S836.  Gene #84: 'GPR133 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
GPR133 MUTATED 1 2 1 0
GPR133 WILD-TYPE 208 134 157 13
'GPR133 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.313 (Fisher's exact test), Q value = 0.82

Table S837.  Gene #84: 'GPR133 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
GPR133 MUTATED 0 0 3 1
GPR133 WILD-TYPE 91 95 123 116
'GPR133 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.328 (Fisher's exact test), Q value = 0.83

Table S838.  Gene #84: 'GPR133 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
GPR133 MUTATED 2 1 1
GPR133 WILD-TYPE 81 159 185
'GPR133 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0196 (Fisher's exact test), Q value = 0.15

Table S839.  Gene #84: 'GPR133 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
GPR133 MUTATED 0 1 0 1 2
GPR133 WILD-TYPE 130 114 106 134 28

Figure S183.  Get High-res Image Gene #84: 'GPR133 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'GPR133 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.585 (Fisher's exact test), Q value = 1

Table S840.  Gene #84: 'GPR133 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 135 71 36 68 91 41 74
GPR133 MUTATED 1 0 0 1 0 1 1
GPR133 WILD-TYPE 134 71 36 67 91 40 73
'GPR133 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S841.  Gene #84: 'GPR133 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
GPR133 MUTATED 1 1 0 2
GPR133 WILD-TYPE 139 106 83 180
'GPR133 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.685 (Fisher's exact test), Q value = 1

Table S842.  Gene #84: 'GPR133 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
GPR133 MUTATED 1 2 1
GPR133 WILD-TYPE 222 184 102
'GPR133 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.258 (Fisher's exact test), Q value = 0.77

Table S843.  Gene #84: 'GPR133 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
GPR133 MUTATED 0 1 0 3
GPR133 WILD-TYPE 127 118 106 153
'GPR133 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.799 (Fisher's exact test), Q value = 1

Table S844.  Gene #84: 'GPR133 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
GPR133 MUTATED 0 1 2 0 0 1
GPR133 WILD-TYPE 99 76 118 57 63 91
'CDH3 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.799 (Fisher's exact test), Q value = 1

Table S845.  Gene #85: 'CDH3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
CDH3 MUTATED 1 1 1
CDH3 WILD-TYPE 226 110 174
'CDH3 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S846.  Gene #85: 'CDH3 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
CDH3 MUTATED 1 1 1 0
CDH3 WILD-TYPE 208 135 157 13
'CDH3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.83 (Fisher's exact test), Q value = 1

Table S847.  Gene #85: 'CDH3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
CDH3 MUTATED 0 1 1 1 0
CDH3 WILD-TYPE 130 114 105 134 30
'CDH3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.281 (Fisher's exact test), Q value = 0.8

Table S848.  Gene #85: 'CDH3 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 135 71 36 68 91 41 74
CDH3 MUTATED 0 0 0 1 1 1 0
CDH3 WILD-TYPE 135 71 36 67 90 40 74
'CDH3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S849.  Gene #85: 'CDH3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
CDH3 MUTATED 1 1 0 1
CDH3 WILD-TYPE 139 106 83 181
'CDH3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S850.  Gene #85: 'CDH3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
CDH3 MUTATED 1 1 1
CDH3 WILD-TYPE 222 185 102
'CDH3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.495 (Fisher's exact test), Q value = 1

Table S851.  Gene #85: 'CDH3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
CDH3 MUTATED 0 0 1 2
CDH3 WILD-TYPE 127 119 105 154
'CDH3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.674 (Fisher's exact test), Q value = 1

Table S852.  Gene #85: 'CDH3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
CDH3 MUTATED 0 0 1 1 0 1
CDH3 WILD-TYPE 99 77 119 56 63 91
'SLC25A5 MUTATION STATUS' versus 'CN_CNMF'

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

Table S853.  Gene #86: 'SLC25A5 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
SLC25A5 MUTATED 2 1 1
SLC25A5 WILD-TYPE 225 110 174
'SLC25A5 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.371 (Fisher's exact test), Q value = 0.87

Table S854.  Gene #86: 'SLC25A5 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
SLC25A5 MUTATED 2 2 0 0
SLC25A5 WILD-TYPE 207 134 158 13
'SLC25A5 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.927 (Fisher's exact test), Q value = 1

Table S855.  Gene #86: 'SLC25A5 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
SLC25A5 MUTATED 1 1 0 2 0
SLC25A5 WILD-TYPE 129 114 106 133 30
'SLC25A5 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.444 (Fisher's exact test), Q value = 0.94

Table S856.  Gene #86: '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 135 71 36 68 91 41 74
SLC25A5 MUTATED 1 0 0 2 0 0 1
SLC25A5 WILD-TYPE 134 71 36 66 91 41 73
'SLC25A5 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.832 (Fisher's exact test), Q value = 1

Table S857.  Gene #86: 'SLC25A5 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
SLC25A5 MUTATED 1 0 1 2
SLC25A5 WILD-TYPE 139 107 82 180
'SLC25A5 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.681 (Fisher's exact test), Q value = 1

Table S858.  Gene #86: 'SLC25A5 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
SLC25A5 MUTATED 1 2 1
SLC25A5 WILD-TYPE 222 184 102
'SLC25A5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S859.  Gene #86: 'SLC25A5 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
SLC25A5 MUTATED 1 1 0 2
SLC25A5 WILD-TYPE 126 118 106 154
'SLC25A5 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.726 (Fisher's exact test), Q value = 1

Table S860.  Gene #86: 'SLC25A5 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
SLC25A5 MUTATED 1 0 2 0 1 0
SLC25A5 WILD-TYPE 98 77 118 57 62 92
'LAMA4 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.435 (Fisher's exact test), Q value = 0.94

Table S861.  Gene #87: 'LAMA4 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
LAMA4 MUTATED 1 2 1
LAMA4 WILD-TYPE 226 109 174
'LAMA4 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S862.  Gene #87: 'LAMA4 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
LAMA4 MUTATED 1 2 1 0
LAMA4 WILD-TYPE 208 134 157 13
'LAMA4 MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S863.  Gene #87: 'LAMA4 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
LAMA4 MUTATED 1 1 1 1
LAMA4 WILD-TYPE 90 94 125 116
'LAMA4 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.328 (Fisher's exact test), Q value = 0.83

Table S864.  Gene #87: 'LAMA4 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
LAMA4 MUTATED 2 1 1
LAMA4 WILD-TYPE 81 159 185
'LAMA4 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.124 (Fisher's exact test), Q value = 0.52

Table S865.  Gene #87: 'LAMA4 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
LAMA4 MUTATED 0 2 0 1 1
LAMA4 WILD-TYPE 130 113 106 134 29
'LAMA4 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.512 (Fisher's exact test), Q value = 1

Table S866.  Gene #87: '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 135 71 36 68 91 41 74
LAMA4 MUTATED 1 2 0 0 0 0 1
LAMA4 WILD-TYPE 134 69 36 68 91 41 73
'LAMA4 MUTATION STATUS' versus 'MIRSEQ_CNMF'

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

Table S867.  Gene #87: 'LAMA4 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
LAMA4 MUTATED 2 0 0 2
LAMA4 WILD-TYPE 138 107 83 180
'LAMA4 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S868.  Gene #87: 'LAMA4 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
LAMA4 MUTATED 2 1 1
LAMA4 WILD-TYPE 221 185 102
'LAMA4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S869.  Gene #87: 'LAMA4 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
LAMA4 MUTATED 1 1 0 2
LAMA4 WILD-TYPE 126 118 106 154
'LAMA4 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S870.  Gene #87: 'LAMA4 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
LAMA4 MUTATED 1 1 1 0 1 0
LAMA4 WILD-TYPE 98 76 119 57 62 92
'NKD2 MUTATION STATUS' versus 'CN_CNMF'

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

Table S871.  Gene #88: 'NKD2 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
NKD2 MUTATED 2 1 1
NKD2 WILD-TYPE 225 110 174
'NKD2 MUTATION STATUS' versus 'METHLYATION_CNMF'

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

Table S872.  Gene #88: 'NKD2 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
NKD2 MUTATED 2 1 1 0
NKD2 WILD-TYPE 207 135 157 13
'NKD2 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S873.  Gene #88: 'NKD2 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
NKD2 MUTATED 2 1 1 0 0
NKD2 WILD-TYPE 128 114 105 135 30
'NKD2 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.468 (Fisher's exact test), Q value = 0.96

Table S874.  Gene #88: '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 135 71 36 68 91 41 74
NKD2 MUTATED 1 1 1 1 0 0 0
NKD2 WILD-TYPE 134 70 35 67 91 41 74
'NKD2 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.307 (Fisher's exact test), Q value = 0.82

Table S875.  Gene #88: 'NKD2 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
NKD2 MUTATED 0 2 1 1
NKD2 WILD-TYPE 140 105 82 181
'NKD2 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S876.  Gene #88: 'NKD2 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
NKD2 MUTATED 2 1 1
NKD2 WILD-TYPE 221 185 102
'NKD2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

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

Table S877.  Gene #88: 'NKD2 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
NKD2 MUTATED 1 1 1 1
NKD2 WILD-TYPE 126 118 105 155
'NKD2 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.697 (Fisher's exact test), Q value = 1

Table S878.  Gene #88: 'NKD2 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
NKD2 MUTATED 1 0 1 1 1 0
NKD2 WILD-TYPE 98 77 119 56 62 92
'WRN MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0396 (Fisher's exact test), Q value = 0.24

Table S879.  Gene #89: 'WRN MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
WRN MUTATED 0 1 4
WRN WILD-TYPE 227 110 171

Figure S184.  Get High-res Image Gene #89: 'WRN MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'WRN MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.103 (Fisher's exact test), Q value = 0.46

Table S880.  Gene #89: 'WRN MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
WRN MUTATED 0 1 4 0
WRN WILD-TYPE 209 135 154 13
'WRN MUTATION STATUS' versus 'RPPA_CNMF'

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

Table S881.  Gene #89: 'WRN MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
WRN MUTATED 0 1 2 1
WRN WILD-TYPE 91 94 124 116
'WRN MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S882.  Gene #89: 'WRN MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
WRN MUTATED 0 1 3
WRN WILD-TYPE 83 159 183
'WRN MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0271 (Fisher's exact test), Q value = 0.19

Table S883.  Gene #89: 'WRN MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
WRN MUTATED 0 1 4 0 0
WRN WILD-TYPE 130 114 102 135 30

Figure S185.  Get High-res Image Gene #89: 'WRN MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'WRN MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.0143 (Fisher's exact test), Q value = 0.12

Table S884.  Gene #89: '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 135 71 36 68 91 41 74
WRN MUTATED 0 0 2 0 2 1 0
WRN WILD-TYPE 135 71 34 68 89 40 74

Figure S186.  Get High-res Image Gene #89: 'WRN MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'WRN MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.0566 (Fisher's exact test), Q value = 0.3

Table S885.  Gene #89: 'WRN MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
WRN MUTATED 0 1 3 1
WRN WILD-TYPE 140 106 80 181
'WRN MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

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

Table S886.  Gene #89: 'WRN MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
WRN MUTATED 2 2 1
WRN WILD-TYPE 221 184 102
'WRN MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.0117 (Fisher's exact test), Q value = 0.1

Table S887.  Gene #89: 'WRN MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
WRN MUTATED 0 0 4 1
WRN WILD-TYPE 127 119 102 155

Figure S187.  Get High-res Image Gene #89: 'WRN MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

'WRN MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00464 (Fisher's exact test), Q value = 0.05

Table S888.  Gene #89: 'WRN MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
WRN MUTATED 0 0 0 3 0 2
WRN WILD-TYPE 99 77 120 54 63 90

Figure S188.  Get High-res Image Gene #89: 'WRN MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'PHF3 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0208 (Fisher's exact test), Q value = 0.16

Table S889.  Gene #90: 'PHF3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
PHF3 MUTATED 1 5 2
PHF3 WILD-TYPE 226 106 173

Figure S189.  Get High-res Image Gene #90: 'PHF3 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

'PHF3 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.85 (Fisher's exact test), Q value = 1

Table S890.  Gene #90: 'PHF3 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
PHF3 MUTATED 3 3 2 0
PHF3 WILD-TYPE 206 133 156 13
'PHF3 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.777 (Fisher's exact test), Q value = 1

Table S891.  Gene #90: 'PHF3 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
PHF3 MUTATED 1 1 3 1
PHF3 WILD-TYPE 90 94 123 116
'PHF3 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.502 (Fisher's exact test), Q value = 1

Table S892.  Gene #90: 'PHF3 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
PHF3 MUTATED 0 2 4
PHF3 WILD-TYPE 83 158 182
'PHF3 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.799 (Fisher's exact test), Q value = 1

Table S893.  Gene #90: 'PHF3 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
PHF3 MUTATED 2 3 2 1 0
PHF3 WILD-TYPE 128 112 104 134 30
'PHF3 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.59 (Fisher's exact test), Q value = 1

Table S894.  Gene #90: 'PHF3 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 135 71 36 68 91 41 74
PHF3 MUTATED 2 1 0 1 2 2 0
PHF3 WILD-TYPE 133 70 36 67 89 39 74
'PHF3 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.106 (Fisher's exact test), Q value = 0.47

Table S895.  Gene #90: 'PHF3 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
PHF3 MUTATED 5 2 0 1
PHF3 WILD-TYPE 135 105 83 181
'PHF3 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.265 (Fisher's exact test), Q value = 0.78

Table S896.  Gene #90: 'PHF3 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
PHF3 MUTATED 4 1 3
PHF3 WILD-TYPE 219 185 100
'PHF3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.474 (Fisher's exact test), Q value = 0.97

Table S897.  Gene #90: 'PHF3 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
PHF3 MUTATED 2 3 0 2
PHF3 WILD-TYPE 125 116 106 154
'PHF3 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.846 (Fisher's exact test), Q value = 1

Table S898.  Gene #90: 'PHF3 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
PHF3 MUTATED 1 1 1 1 2 1
PHF3 WILD-TYPE 98 76 119 56 61 91
'AGBL1 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.623 (Fisher's exact test), Q value = 1

Table S899.  Gene #91: 'AGBL1 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
AGBL1 MUTATED 2 2 1
AGBL1 WILD-TYPE 225 109 174
'AGBL1 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.37 (Fisher's exact test), Q value = 0.87

Table S900.  Gene #91: 'AGBL1 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
AGBL1 MUTATED 1 3 1 0
AGBL1 WILD-TYPE 208 133 157 13
'AGBL1 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.162 (Fisher's exact test), Q value = 0.61

Table S901.  Gene #91: 'AGBL1 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
AGBL1 MUTATED 0 2 3 0
AGBL1 WILD-TYPE 91 93 123 117
'AGBL1 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

P value = 0.051 (Fisher's exact test), Q value = 0.29

Table S902.  Gene #91: 'AGBL1 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
AGBL1 MUTATED 0 0 5
AGBL1 WILD-TYPE 83 160 181
'AGBL1 MUTATION STATUS' versus 'MRNASEQ_CNMF'

P value = 0.0409 (Fisher's exact test), Q value = 0.25

Table S903.  Gene #91: 'AGBL1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
AGBL1 MUTATED 0 4 1 0 0
AGBL1 WILD-TYPE 130 111 105 135 30

Figure S190.  Get High-res Image Gene #91: 'AGBL1 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

'AGBL1 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.042 (Fisher's exact test), Q value = 0.25

Table S904.  Gene #91: '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 135 71 36 68 91 41 74
AGBL1 MUTATED 0 2 0 0 1 2 0
AGBL1 WILD-TYPE 135 69 36 68 90 39 74

Figure S191.  Get High-res Image Gene #91: 'AGBL1 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

'AGBL1 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.21 (Fisher's exact test), Q value = 0.72

Table S905.  Gene #91: 'AGBL1 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
AGBL1 MUTATED 2 2 1 0
AGBL1 WILD-TYPE 138 105 82 182
'AGBL1 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.00621 (Fisher's exact test), Q value = 0.062

Table S906.  Gene #91: 'AGBL1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
AGBL1 MUTATED 1 0 4
AGBL1 WILD-TYPE 222 186 99

Figure S192.  Get High-res Image Gene #91: 'AGBL1 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

'AGBL1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.37 (Fisher's exact test), Q value = 0.87

Table S907.  Gene #91: 'AGBL1 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
AGBL1 MUTATED 2 2 1 0
AGBL1 WILD-TYPE 125 117 105 156
'AGBL1 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

P value = 0.00731 (Fisher's exact test), Q value = 0.067

Table S908.  Gene #91: 'AGBL1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
AGBL1 MUTATED 0 3 0 0 2 0
AGBL1 WILD-TYPE 99 74 120 57 61 92

Figure S193.  Get High-res Image Gene #91: 'AGBL1 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

'ZNF148 MUTATION STATUS' versus 'CN_CNMF'

P value = 0.0809 (Fisher's exact test), Q value = 0.39

Table S909.  Gene #92: 'ZNF148 MUTATION STATUS' versus Molecular Subtype #3: 'CN_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 227 111 175
ZNF148 MUTATED 0 2 2
ZNF148 WILD-TYPE 227 109 173
'ZNF148 MUTATION STATUS' versus 'METHLYATION_CNMF'

P value = 0.219 (Fisher's exact test), Q value = 0.74

Table S910.  Gene #92: 'ZNF148 MUTATION STATUS' versus Molecular Subtype #4: 'METHLYATION_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 209 136 158 13
ZNF148 MUTATED 0 1 3 0
ZNF148 WILD-TYPE 209 135 155 13
'ZNF148 MUTATION STATUS' versus 'RPPA_CNMF'

P value = 0.789 (Fisher's exact test), Q value = 1

Table S911.  Gene #92: 'ZNF148 MUTATION STATUS' versus Molecular Subtype #5: 'RPPA_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 91 95 126 117
ZNF148 MUTATED 1 1 1 0
ZNF148 WILD-TYPE 90 94 125 117
'ZNF148 MUTATION STATUS' versus 'RPPA_CHIERARCHICAL'

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

Table S912.  Gene #92: 'ZNF148 MUTATION STATUS' versus Molecular Subtype #6: 'RPPA_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 83 160 186
ZNF148 MUTATED 0 1 2
ZNF148 WILD-TYPE 83 159 184
'ZNF148 MUTATION STATUS' versus 'MRNASEQ_CNMF'

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

Table S913.  Gene #92: 'ZNF148 MUTATION STATUS' versus Molecular Subtype #7: 'MRNASEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
ALL 130 115 106 135 30
ZNF148 MUTATED 0 1 2 1 0
ZNF148 WILD-TYPE 130 114 104 134 30
'ZNF148 MUTATION STATUS' versus 'MRNASEQ_CHIERARCHICAL'

P value = 0.22 (Fisher's exact test), Q value = 0.74

Table S914.  Gene #92: 'ZNF148 MUTATION STATUS' versus Molecular Subtype #8: 'MRNASEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
ALL 135 71 36 68 91 41 74
ZNF148 MUTATED 0 0 0 0 2 1 1
ZNF148 WILD-TYPE 135 71 36 68 89 40 73
'ZNF148 MUTATION STATUS' versus 'MIRSEQ_CNMF'

P value = 0.536 (Fisher's exact test), Q value = 1

Table S915.  Gene #92: 'ZNF148 MUTATION STATUS' versus Molecular Subtype #9: 'MIRSEQ_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 140 107 83 182
ZNF148 MUTATED 1 2 0 1
ZNF148 WILD-TYPE 139 105 83 181
'ZNF148 MUTATION STATUS' versus 'MIRSEQ_CHIERARCHICAL'

P value = 0.262 (Fisher's exact test), Q value = 0.77

Table S916.  Gene #92: 'ZNF148 MUTATION STATUS' versus Molecular Subtype #10: 'MIRSEQ_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3
ALL 223 186 103
ZNF148 MUTATED 3 0 1
ZNF148 WILD-TYPE 220 186 102
'ZNF148 MUTATION STATUS' versus 'MIRSEQ_MATURE_CNMF'

P value = 0.841 (Fisher's exact test), Q value = 1

Table S917.  Gene #92: 'ZNF148 MUTATION STATUS' versus Molecular Subtype #11: 'MIRSEQ_MATURE_CNMF'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4
ALL 127 119 106 156
ZNF148 MUTATED 1 0 1 2
ZNF148 WILD-TYPE 126 119 105 154
'ZNF148 MUTATION STATUS' versus 'MIRSEQ_MATURE_CHIERARCHICAL'

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

Table S918.  Gene #92: 'ZNF148 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

nPatients CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
ALL 99 77 120 57 63 92
ZNF148 MUTATED 0 0 0 2 0 2
ZNF148 WILD-TYPE 99 77 120 55 63 90

Figure S194.  Get High-res Image Gene #92: 'ZNF148 MUTATION STATUS' versus Molecular Subtype #12: 'MIRSEQ_MATURE_CHIERARCHICAL'

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/22813362/transformed.cor.cli.txt

  • Molecular subtypes file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/LGG-TP/22553887/LGG-TP.transferedmergedcluster.txt

  • Number of patients = 516

  • Number of significantly mutated genes = 92

  • 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.

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)
Made with Nozzle