Correlation between gene mutation status and selected clinical features
Overview
Introduction

This pipeline computes the correlation between significantly recurrent gene mutations and selected clinical features.

Summary

Testing the association between mutation status of 174 genes and 9 clinical features across 790 patients, 91 significant findings detected with Q value < 0.25.

  • IDH1 mutation correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.

  • TP53 mutation correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.

  • ATRX mutation correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.

  • CIC mutation correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.

  • NF1 mutation correlated to 'Time to Death' and 'YEARS_TO_BIRTH'.

  • PIK3R1 mutation correlated to 'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE', and 'HISTOLOGICAL_TYPE'.

  • NOTCH1 mutation correlated to 'Time to Death',  'TUMOR_TISSUE_SITE', and 'HISTOLOGICAL_TYPE'.

  • IDH2 mutation correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE', and 'HISTOLOGICAL_TYPE'.

  • FUBP1 mutation correlated to 'Time to Death',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.

  • RB1 mutation correlated to 'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE', and 'HISTOLOGICAL_TYPE'.

  • PTEN mutation correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.

  • ARID1A mutation correlated to 'Time to Death',  'TUMOR_TISSUE_SITE', and 'HISTOLOGICAL_TYPE'.

  • NIPBL mutation correlated to 'Time to Death'.

  • NUDT11 mutation correlated to 'TUMOR_TISSUE_SITE'.

  • PLCG1 mutation correlated to 'Time to Death' and 'YEARS_TO_BIRTH'.

  • STAG2 mutation correlated to 'TUMOR_TISSUE_SITE'.

  • PDGFRA mutation correlated to 'Time to Death' and 'KARNOFSKY_PERFORMANCE_SCORE'.

  • HTRA2 mutation correlated to 'YEARS_TO_BIRTH'.

  • REN mutation correlated to 'Time to Death'.

  • BRAF mutation correlated to 'HISTOLOGICAL_TYPE'.

  • MX2 mutation correlated to 'YEARS_TO_BIRTH'.

  • DSP mutation correlated to 'YEARS_TO_BIRTH'.

  • EGFR mutation correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.

  • WRN mutation correlated to 'ETHNICITY'.

  • ATF7IP2 mutation correlated to 'KARNOFSKY_PERFORMANCE_SCORE'.

  • DNMT3A mutation correlated to 'Time to Death'.

  • PROKR2 mutation correlated to 'Time to Death'.

  • ZBTB20 mutation correlated to 'Time to Death',  'TUMOR_TISSUE_SITE', and 'HISTOLOGICAL_TYPE'.

  • PDHA1 mutation correlated to 'GENDER'.

  • FAM123C mutation correlated to 'YEARS_TO_BIRTH'.

  • GRHL3 mutation correlated to 'GENDER'.

  • SMARCA4 mutation correlated to 'Time to Death',  'TUMOR_TISSUE_SITE', and 'HISTOLOGICAL_TYPE'.

  • QKI mutation correlated to 'Time to Death'.

  • PASD1 mutation correlated to 'GENDER'.

  • TNFRSF9 mutation correlated to 'KARNOFSKY_PERFORMANCE_SCORE'.

  • C10ORF46 mutation correlated to 'RACE'.

  • GABRA6 mutation correlated to 'TUMOR_TISSUE_SITE'.

  • PAN3 mutation correlated to 'TUMOR_TISSUE_SITE'.

  • CHD8 mutation correlated to 'Time to Death',  'YEARS_TO_BIRTH', and 'TUMOR_TISSUE_SITE'.

Results
Overview of the results

Table 1.  Get Full Table Overview of the association between mutation status of 174 genes and 9 clinical features. Shown in the table are P values (Q values). Thresholded by Q value < 0.25, 91 significant findings detected.

Clinical
Features 		Time
to
Death 		YEARS
TO
BIRTH 		TUMOR
TISSUE
SITE 		GENDER RADIATION
THERAPY 		KARNOFSKY
PERFORMANCE
SCORE 		HISTOLOGICAL
TYPE 		RACE ETHNICITY
nMutated (%) nWild-Type logrank test Wilcoxon-test Fisher's exact test Fisher's exact test Fisher's exact test Wilcoxon-test Fisher's exact test Fisher's exact test Fisher's exact test
IDH1 411 (52%) 379 0
(0) 		1.26e-54
(3.96e-52) 		1.7e-96
(6.65e-94) 		0.17
(0.731) 		1.51e-08
(1.12e-06) 		2.43e-16
(3.46e-14) 		1e-05
(0.000489) 		0.0621
(0.53) 		0.0541
(0.517)
TP53 326 (41%) 464 1.04e-09
(8.54e-08) 		7.88e-19
(1.23e-16) 		6.79e-08
(4.83e-06) 		0.942
(1.00) 		0.00493
(0.11) 		0.000625
(0.0204) 		1e-05
(0.000489) 		0.314
(0.858) 		0.292
(0.858)
CIC 109 (14%) 681 1.76e-12
(1.72e-10) 		0.00121
(0.0353) 		2.82e-21
(4.91e-19) 		0.117
(0.643) 		7.51e-10
(6.92e-08) 		0.000554
(0.0189) 		1e-05
(0.000489) 		0.662
(1.00) 		0.217
(0.8)
EGFR 108 (14%) 682 0
(0) 		1.38e-14
(1.66e-12) 		2.4e-13
(2.5e-11) 		0.172
(0.732) 		0.00122
(0.0353) 		1.25e-05
(0.000575) 		1e-05
(0.000489) 		0.0511
(0.51) 		0.11
(0.622)
ATRX 210 (27%) 580 5.11e-15
(6.66e-13) 		1.13e-33
(2.96e-31) 		5.49e-26
(1.23e-23) 		0.463
(0.95) 		0.788
(1.00) 		7.22e-05
(0.00314) 		1e-05
(0.000489) 		0.923
(1.00) 		0.439
(0.941)
FUBP1 47 (6%) 743 0.000216
(0.00804) 		0.439
(0.941) 		1.03e-09
(8.54e-08) 		1
(1.00) 		0.0035
(0.087) 		0.011
(0.203) 		1e-05
(0.000489) 		1
(1.00) 		0.159
(0.723)
PTEN 109 (14%) 681 0
(0) 		3.23e-14
(3.62e-12) 		9.33e-23
(1.83e-20) 		0.403
(0.933) 		0.0497
(0.51) 		0.00237
(0.0629) 		1e-05
(0.000489) 		0.484
(0.97) 		0.607
(1.00)
IDH2 20 (3%) 770 0.00159
(0.0452) 		0.000515
(0.0179) 		0.000193
(0.00761) 		0.82
(1.00) 		0.138
(0.674) 		0.126
(0.668) 		3e-05
(0.00134) 		0.491
(0.974) 		0.0638
(0.534)
PIK3R1 54 (7%) 736 0.116
(0.642) 		0.00274
(0.0693) 		0.000194
(0.00761) 		0.0853
(0.569) 		0.157
(0.722) 		0.0848
(0.569) 		0.00414
(0.0968) 		0.131
(0.674) 		0.158
(0.723)
NOTCH1 42 (5%) 748 0.000222
(0.00809) 		0.255
(0.829) 		1.09e-08
(8.56e-07) 		0.426
(0.941) 		0.0504
(0.51) 		0.219
(0.8) 		1e-05
(0.000489) 		0.316
(0.858) 		1
(1.00)
RB1 29 (4%) 761 0.0224
(0.318) 		0.000591
(0.0197) 		9.5e-07
(6.47e-05) 		0.707
(1.00) 		0.303
(0.858) 		0.748
(1.00) 		1e-05
(0.000489) 		1
(1.00) 		0.63
(1.00)
ARID1A 22 (3%) 768 0.00403
(0.0968) 		0.0161
(0.262) 		0.0108
(0.201) 		0.388
(0.929) 		0.164
(0.725) 		0.277
(0.851) 		0.004
(0.0968) 		0.747
(1.00) 		1
(1.00)
ZBTB20 22 (3%) 768 0.0142
(0.244) 		0.215
(0.799) 		0.00113
(0.0348) 		0.388
(0.929) 		0.0531
(0.51) 		0.363
(0.906) 		0.0076
(0.157) 		0.161
(0.724) 		0.282
(0.857)
SMARCA4 27 (3%) 763 0.000205
(0.00783) 		0.137
(0.674) 		0.000138
(0.00583) 		0.431
(0.941) 		0.662
(1.00) 		0.0837
(0.569) 		0.00664
(0.142) 		0.0913
(0.589) 		0.282
(0.857)
CHD8 10 (1%) 780 0.0108
(0.201) 		0.000887
(0.0278) 		0.00477
(0.108) 		0.749
(1.00) 		1
(1.00) 		0.0862
(0.572) 		0.0526
(0.51) 		1
(1.00) 		1
(1.00)
NF1 62 (8%) 728 1.23e-05
(0.000575) 		0.00051
(0.0179) 		0.0527
(0.51) 		0.688
(1.00) 		0.559
(1.00) 		0.0417
(0.457) 		0.0203
(0.3) 		0.689
(1.00) 		0.328
(0.879)
PLCG1 11 (1%) 779 0.00268
(0.0689) 		0.0113
(0.205) 		0.53
(1.00) 		1
(1.00) 		0.187
(0.743) 		0.81
(1.00) 		0.57
(1.00) 		0.539
(1.00) 		1
(1.00)
PDGFRA 21 (3%) 769 0.00116
(0.035) 		0.0696
(0.557) 		0.107
(0.622) 		0.656
(1.00) 		1
(1.00) 		0.0128
(0.228) 		0.175
(0.737) 		0.74
(1.00) 		0.263
(0.837)
NIPBL 20 (3%) 770 0.00475
(0.108) 		0.0159
(0.262) 		0.0166
(0.262) 		0.649
(1.00) 		0.119
(0.65) 		0.0913
(0.589) 		0.0302
(0.379) 		0.0922
(0.592) 		0.0725
(0.557)
NUDT11 11 (1%) 779 0.106
(0.622) 		0.573
(1.00) 		0.0101
(0.196) 		0.376
(0.918) 		0.748
(1.00) 		0.182
(0.743) 		0.0768
(0.565) 		1
(1.00) 		1
(1.00)
STAG2 16 (2%) 774 0.0304
(0.379) 		0.0845
(0.569) 		0.00213
(0.0574) 		0.61
(1.00) 		0.593
(1.00) 		0.0265
(0.349) 		0.0165
(0.262) 		0.648
(1.00) 		1
(1.00)
HTRA2 5 (1%) 785 0.217
(0.8) 		0.00739
(0.156) 		0.168
(0.725) 		1
(1.00) 		0.314
(0.858) 		0.166
(0.725) 		1
(1.00) 		0.227
(0.8)
REN 7 (1%) 783 0.000169
(0.00696) 		0.076
(0.565) 		0.0561
(0.518) 		0.249
(0.82) 		0.444
(0.941) 		0.357
(0.898) 		0.0321
(0.393) 		1
(1.00) 		1
(1.00)
BRAF 11 (1%) 779 0.931
(1.00) 		0.552
(1.00) 		0.208
(0.785) 		1
(1.00) 		0.286
(0.857) 		0.465
(0.95) 		0.00175
(0.0489) 		0.503
(0.981) 		1
(1.00)
MX2 9 (1%) 781 0.394
(0.933) 		0.0142
(0.244) 		0.291
(0.858) 		1
(1.00) 		1
(1.00) 		0.25
(0.82) 		0.0854
(0.569) 		0.466
(0.952) 		1
(1.00)
DSP 19 (2%) 771 0.282
(0.857) 		0.0131
(0.23) 		0.143
(0.684) 		0.643
(1.00) 		0.454
(0.95) 		0.884
(1.00) 		0.614
(1.00) 		0.695
(1.00) 		0.586
(1.00)
WRN 6 (1%) 784 0.0722
(0.557) 		0.366
(0.907) 		0.671
(1.00) 		0.241
(0.814) 		1
(1.00) 		0.137
(0.674) 		0.579
(1.00) 		0.339
(0.886) 		0.00206
(0.0566)
ATF7IP2 8 (1%) 782 0.0879
(0.579) 		0.192
(0.749) 		0.138
(0.674) 		1
(1.00) 		0.444
(0.941) 		0.00871
(0.175) 		0.634
(1.00) 		0.0259
(0.346) 		1
(1.00)
DNMT3A 10 (1%) 780 0.00535
(0.116) 		0.512
(0.993) 		0.0174
(0.27) 		1
(1.00) 		1
(1.00) 		0.427
(0.941) 		0.0515
(0.51) 		0.501
(0.981) 		0.403
(0.933)
PROKR2 9 (1%) 781 0.0124
(0.224) 		0.0182
(0.277) 		0.0736
(0.557) 		0.742
(1.00) 		0.727
(1.00) 		0.464
(0.95) 		0.258
(0.834) 		1
(1.00) 		1
(1.00)
PDHA1 6 (1%) 784 0.646
(1.00) 		0.465
(0.95) 		0.671
(1.00) 		0.00508
(0.112) 		0.384
(0.928) 		0.0503
(0.51) 		0.301
(0.858) 		1
(1.00) 		1
(1.00)
FAM123C 11 (1%) 779 0.0453
(0.476) 		0.00244
(0.0638) 		0.0585
(0.521) 		0.0307
(0.379) 		0.0358
(0.422) 		0.332
(0.882) 		0.202
(0.773) 		0.536
(1.00) 		1
(1.00)
GRHL3 8 (1%) 782 0.368
(0.907) 		0.701
(1.00) 		0.462
(0.95) 		0.00086
(0.0275) 		0.384
(0.928) 		0.401
(0.933) 		0.429
(0.941) 		1
(1.00)
QKI 6 (1%) 784 0.00751
(0.157) 		0.276
(0.85) 		0.0225
(0.318) 		0.697
(1.00) 		0.671
(1.00) 		0.266
(0.837) 		0.143
(0.685) 		1
(1.00) 		1
(1.00)
PASD1 8 (1%) 782 0.621
(1.00) 		0.889
(1.00) 		0.462
(0.95) 		0.0107
(0.201) 		0.684
(1.00) 		0.767
(1.00) 		0.385
(0.928) 		1
(1.00) 		1
(1.00)
TNFRSF9 4 (1%) 786 0.804
(1.00) 		0.18
(0.743) 		1
(1.00) 		0.313
(0.858) 		1
(1.00) 		0.00873
(0.175) 		0.923
(1.00) 		0.244
(0.814) 		1
(1.00)
C10ORF46 3 (0%) 787 0.377
(0.918) 		0.125
(0.668) 		1
(1.00) 		1
(1.00) 		0.556
(1.00) 		1
(1.00) 		0.00888
(0.176) 		1
(1.00)
GABRA6 15 (2%) 775 0.113
(0.634) 		0.0223
(0.318) 		0.00412
(0.0968) 		0.793
(1.00) 		0.117
(0.643) 		0.0253
(0.342) 		0.0417
(0.457) 		1
(1.00) 		1
(1.00)
PAN3 7 (1%) 783 0.375
(0.918) 		0.259
(0.834) 		0.00902
(0.176) 		1
(1.00) 		1
(1.00) 		0.0559
(0.518) 		0.0834
(0.569) 		1
(1.00) 		1
(1.00)
TCF12 18 (2%) 772 0.138
(0.674) 		0.91
(1.00) 		0.133
(0.674) 		0.813
(1.00) 		1
(1.00) 		0.695
(1.00) 		0.526
(1.00) 		1
(1.00) 		1
(1.00)
PIK3CA 70 (9%) 720 0.331
(0.882) 		0.189
(0.743) 		0.793
(1.00) 		1
(1.00) 		0.586
(1.00) 		0.343
(0.889) 		0.104
(0.616) 		0.549
(1.00) 		1
(1.00)
STK19 11 (1%) 779 0.224
(0.8) 		0.115
(0.641) 		0.108
(0.622) 		0.216
(0.8) 		0.684
(1.00) 		0.245
(0.814) 		0.0684
(0.557) 		1
(1.00) 		0.1
(0.616)
SLC26A3 10 (1%) 780 0.759
(1.00) 		0.499
(0.981) 		0.108
(0.622) 		0.207
(0.785) 		0.0623
(0.53) 		0.142
(0.684) 		0.136
(0.674) 		0.504
(0.982) 		1
(1.00)
ZMIZ1 12 (2%) 778 0.078
(0.565) 		0.239
(0.814) 		0.555
(1.00) 		0.569
(1.00) 		1
(1.00) 		0.368
(0.907) 		0.665
(1.00) 		0.118
(0.646) 		0.0184
(0.277)
GAGE2A 8 (1%) 782 0.131
(0.674) 		0.261
(0.834) 		0.056
(0.518) 		1
(1.00) 		0.684
(1.00) 		0.821
(1.00) 		0.198
(0.762) 		0.0578
(0.52) 		0.338
(0.886)
CREBZF 9 (1%) 781 0.33
(0.882) 		0.324
(0.875) 		0.505
(0.982) 		0.502
(0.981) 		1
(1.00) 		0.78
(1.00) 		0.128
(0.668) 		0.0716
(0.557) 		0.371
(0.909)
SEMG1 11 (1%) 779 0.595
(1.00) 		0.0155
(0.26) 		0.0203
(0.3) 		1
(1.00) 		0.727
(1.00) 		0.906
(1.00) 		0.0614
(0.53) 		0.537
(1.00) 		1
(1.00)
ZNF709 6 (1%) 784 0.606
(1.00) 		0.828
(1.00) 		1
(1.00) 		0.044
(0.466) 		0.671
(1.00) 		0.584
(1.00) 		0.411
(0.935) 		0.343
(0.889) 		0.227
(0.8)
MUC17 48 (6%) 742 0.34
(0.886) 		0.0359
(0.422) 		0.214
(0.798) 		0.369
(0.907) 		0.868
(1.00) 		0.833
(1.00) 		0.594
(1.00) 		0.462
(0.95) 		1
(1.00)
NUP210L 11 (1%) 779 0.505
(0.982) 		0.98
(1.00) 		0.0585
(0.521) 		1
(1.00) 		0.187
(0.743) 		0.765
(1.00) 		0.0572
(0.518) 		0.535
(1.00) 		1
(1.00)
IRS4 10 (1%) 780 0.0765
(0.565) 		0.758
(1.00) 		1
(1.00) 		1
(1.00) 		1
(1.00) 		0.803
(1.00) 		0.397
(0.933) 		1
(1.00) 		0.0699
(0.557)
NKD2 4 (1%) 786 0.367
(0.907) 		0.751
(1.00) 		0.303
(0.858) 		1
(1.00) 		0.0937
(0.599) 		0.163
(0.725) 		1
(1.00) 		1
(1.00)
MED9 3 (0%) 787 0.991
(1.00) 		0.414
(0.935) 		0.556
(1.00) 		0.27
(0.839) 		0.556
(1.00) 		0.0414
(0.457) 		1
(1.00) 		1
(1.00)
BCOR 22 (3%) 768 0.346
(0.892) 		0.439
(0.941) 		0.824
(1.00) 		0.273
(0.843) 		1
(1.00) 		0.356
(0.898) 		0.0853
(0.569) 		1
(1.00) 		1
(1.00)
RBPJ 7 (1%) 783 0.299
(0.858) 		0.619
(1.00) 		0.103
(0.616) 		1
(1.00) 		0.384
(0.928) 		0.57
(1.00) 		0.0869
(0.574) 		1
(1.00) 		1
(1.00)
DDX5 8 (1%) 782 0.649
(1.00) 		0.387
(0.929) 		1
(1.00) 		0.48
(0.966) 		1
(1.00) 		0.429
(0.941) 		0.182
(0.743) 		1
(1.00) 		0.302
(0.858)
PTPN11 11 (1%) 779 0.265
(0.837) 		0.0891
(0.581) 		1
(1.00) 		1
(1.00) 		1
(1.00) 		0.446
(0.941) 		0.554
(1.00) 		0.503
(0.981) 		1
(1.00)
KDR 13 (2%) 777 0.49
(0.974) 		0.0529
(0.51) 		0.074
(0.557) 		1
(1.00) 		0.358
(0.898) 		0.574
(1.00) 		0.106
(0.622) 		1
(1.00) 		1
(1.00)
RPL5 10 (1%) 780 0.948
(1.00) 		0.026
(0.346) 		0.0387
(0.443) 		0.334
(0.884) 		0.0637
(0.534) 		0.0696
(0.557) 		0.195
(0.759) 		0.148
(0.699) 		1
(1.00)
NRAS 5 (1%) 785 0.272
(0.843) 		0.831
(1.00) 		0.662
(1.00) 		1
(1.00) 		0.181
(0.743) 		0.553
(1.00) 		0.132
(0.674) 		1
(1.00) 		1
(1.00)
TPX2 7 (1%) 783 0.134
(0.674) 		0.772
(1.00) 		1
(1.00) 		1
(1.00) 		1
(1.00) 		0.553
(1.00) 		1
(1.00) 		1
(1.00) 		0.0434
(0.463)
EMG1 6 (1%) 784 0.538
(1.00) 		0.833
(1.00) 		0.0958
(0.603) 		0.241
(0.814) 		1
(1.00) 		0.123
(0.665) 		0.128
(0.668) 		1
(1.00) 		1
(1.00)
FAM47C 23 (3%) 767 0.0469
(0.49) 		0.873
(1.00) 		0.191
(0.749) 		0.197
(0.762) 		0.634
(1.00) 		0.29
(0.858) 		0.581
(1.00) 		0.744
(1.00) 		1
(1.00)
TRERF1 7 (1%) 783 0.252
(0.825) 		0.244
(0.814) 		0.431
(0.941) 		0.023
(0.322) 		0.684
(1.00) 		0.556
(1.00) 		0.175
(0.737) 		1
(1.00) 		1
(1.00)
MYST4 12 (2%) 778 0.0337
(0.405) 		0.686
(1.00) 		0.0656
(0.544) 		1
(1.00) 		1
(1.00) 		0.8
(1.00) 		0.108
(0.622) 		0.2
(0.77) 		0.403
(0.933)
SRPX 4 (1%) 786 0.783
(1.00) 		0.378
(0.918) 		0.303
(0.858) 		0.0298
(0.379) 		1
(1.00) 		0.432
(0.941) 		0.149
(0.699) 		0.242
(0.814) 		1
(1.00)
SETD2 13 (2%) 777 0.567
(1.00) 		0.149
(0.699) 		0.559
(1.00) 		0.574
(1.00) 		0.764
(1.00) 		0.209
(0.785) 		0.519
(1.00) 		0.597
(1.00) 		1
(1.00)
TNRC18 11 (1%) 779 0.0783
(0.565) 		0.268
(0.838) 		0.345
(0.89) 		0.134
(0.674) 		0.517
(0.999) 		0.657
(1.00) 		0.266
(0.837) 		0.536
(1.00) 		1
(1.00)
SLC6A3 12 (2%) 778 0.946
(1.00) 		0.929
(1.00) 		0.555
(1.00) 		0.253
(0.825) 		0.334
(0.884) 		0.227
(0.8) 		0.74
(1.00) 		1
(1.00) 		0.371
(0.909)
ZNF292 17 (2%) 773 0.549
(1.00) 		0.125
(0.668) 		0.197
(0.762) 		0.0225
(0.318) 		0.11
(0.623) 		0.862
(1.00) 		0.577
(1.00) 		0.208
(0.785) 		0.563
(1.00)
KTELC1 5 (1%) 785 0.102
(0.616) 		0.533
(1.00) 		0.168
(0.725) 		0.408
(0.933) 		1
(1.00) 		0.231
(0.811) 		1
(1.00) 		1
(1.00)
TLR6 8 (1%) 782 0.27
(0.839) 		0.146
(0.693) 		0.138
(0.674) 		0.725
(1.00) 		0.0623
(0.53) 		0.123
(0.665) 		0.288
(0.857) 		0.102
(0.616) 		1
(1.00)
ACADS 5 (1%) 785 0.307
(0.858) 		0.0253
(0.342) 		0.351
(0.894) 		0.408
(0.933) 		0.332
(0.882) 		0.916
(1.00) 		0.44
(0.941) 		1
(1.00) 		1
(1.00)
TMEM216 3 (0%) 787 0.588
(1.00) 		0.487
(0.972) 		0.556
(1.00) 		0.0718
(0.557) 		0.529
(1.00) 		0.177
(0.742) 		1
(1.00) 		1
(1.00)
ARID2 13 (2%) 777 0.116
(0.643) 		0.657
(1.00) 		0.155
(0.715) 		0.782
(1.00) 		0.358
(0.898) 		0.368
(0.907) 		0.256
(0.832) 		0.318
(0.863) 		0.489
(0.974)
FAM83D 5 (1%) 785 0.0561
(0.518) 		0.101
(0.616) 		1
(1.00) 		1
(1.00) 		0.315
(0.858) 		0.342
(0.889) 		0.934
(1.00) 		0.296
(0.858) 		1
(1.00)
NEU2 8 (1%) 782 0.174
(0.737) 		0.502
(0.981) 		1
(1.00) 		1
(1.00) 		1
(1.00) 		0.405
(0.933) 		0.668
(1.00) 		1
(1.00) 		0.302
(0.858)
LUM 7 (1%) 783 0.885
(1.00) 		0.842
(1.00) 		0.0561
(0.518) 		1
(1.00) 		0.671
(1.00) 		0.987
(1.00) 		0.0673
(0.555) 		0.386
(0.929) 		1
(1.00)
TMEM184A 3 (0%) 787 0.187
(0.743) 		0.474
(0.96) 		0.556
(1.00) 		1
(1.00) 		1
(1.00) 		0.44
(0.941) 		0.188
(0.743) 		1
(1.00)
ZNF512B 5 (1%) 785 0.0285
(0.365) 		0.0825
(0.569) 		0.168
(0.725) 		1
(1.00) 		1
(1.00) 		0.376
(0.918) 		1
(1.00) 		0.227
(0.8)
PRCP 5 (1%) 785 0.0173
(0.27) 		0.041
(0.457) 		0.351
(0.894) 		0.654
(1.00) 		1
(1.00) 		0.357
(0.898) 		0.566
(1.00) 		1
(1.00) 		0.186
(0.743)
C10ORF76 4 (1%) 786 0.319
(0.864) 		0.481
(0.966) 		1
(1.00) 		1
(1.00) 		0.315
(0.858) 		0.845
(1.00) 		1
(1.00) 		1
(1.00)
KRT15 8 (1%) 782 0.977
(1.00) 		0.248
(0.818) 		0.72
(1.00) 		0.48
(0.966) 		0.267
(0.837) 		0.92
(1.00) 		0.937
(1.00) 		0.426
(0.941) 		1
(1.00)
G6PC 7 (1%) 783 0.717
(1.00) 		0.747
(1.00) 		0.431
(0.941) 		0.706
(1.00) 		0.444
(0.941) 		0.979
(1.00) 		0.365
(0.907) 		1
(1.00) 		0.0434
(0.463)
SERPING1 4 (1%) 786 0.909
(1.00) 		0.089
(0.581) 		1
(1.00) 		0.645
(1.00) 		1
(1.00) 		0.11
(0.622) 		0.921
(1.00) 		1
(1.00) 		1
(1.00)
ZDHHC4 3 (0%) 787 0.458
(0.95) 		0.748
(1.00) 		0.284
(0.857) 		0.574
(1.00) 		0.556
(1.00) 		0.88
(1.00) 		0.189
(0.743) 		1
(1.00)
CPEB4 7 (1%) 783 0.0806
(0.565) 		0.484
(0.97) 		0.431
(0.941) 		1
(1.00) 		0.684
(1.00) 		0.393
(0.931) 		0.515
(0.996) 		0.161
(0.724) 		1
(1.00)
EEF1A1 8 (1%) 782 0.406
(0.933) 		0.0386
(0.443) 		0.462
(0.95) 		0.288
(0.857) 		1
(1.00) 		0.105
(0.621) 		0.886
(1.00) 		1
(1.00) 		1
(1.00)
KRAS 4 (1%) 786 0.645
(1.00) 		0.714
(1.00) 		0.616
(1.00) 		1
(1.00) 		1
(1.00) 		0.341
(0.888) 		1
(1.00) 		1
(1.00) 		1
(1.00)
OAS2 4 (1%) 786 0.0788
(0.565) 		0.995
(1.00) 		0.128
(0.668) 		0.645
(1.00) 		0.315
(0.858) 		0.357
(0.898) 		0.462
(0.95) 		1
(1.00) 		1
(1.00)
MAP3K1 9 (1%) 781 0.847
(1.00) 		0.0393
(0.446) 		0.0736
(0.557) 		0.742
(1.00) 		0.286
(0.857) 		0.155
(0.715) 		0.258
(0.834) 		1
(1.00) 		1
(1.00)
TRPV6 13 (2%) 777 0.972
(1.00) 		0.918
(1.00) 		0.239
(0.814) 		0.405
(0.933) 		0.764
(1.00) 		0.402
(0.933) 		0.663
(1.00) 		0.137
(0.674) 		1
(1.00)
MAP3K12 6 (1%) 784 0.0571
(0.518) 		0.866
(1.00) 		0.671
(1.00) 		1
(1.00) 		1
(1.00) 		0.303
(0.858) 		1
(1.00) 		1
(1.00)
TLR7 10 (1%) 780 0.251
(0.823) 		0.749
(1.00) 		0.748
(1.00) 		0.103
(0.616) 		1
(1.00) 		0.876
(1.00) 		1
(1.00) 		0.126
(0.668) 		1
(1.00)
TREML2 6 (1%) 784 0.593
(1.00) 		0.276
(0.85) 		0.43
(0.941) 		0.697
(1.00) 		1
(1.00) 		0.289
(0.857) 		0.905
(1.00) 		0.297
(0.858) 		1
(1.00)
MACC1 8 (1%) 782 0.648
(1.00) 		0.083
(0.569) 		0.462
(0.95) 		0.0729
(0.557) 		1
(1.00) 		0.92
(1.00) 		0.404
(0.933) 		0.428
(0.941) 		1
(1.00)
AOX1 8 (1%) 782 0.747
(1.00) 		0.617
(1.00) 		0.462
(0.95) 		0.48
(0.966) 		1
(1.00) 		0.102
(0.616) 		0.403
(0.933) 		1
(1.00) 		1
(1.00)
HEATR3 4 (1%) 786 0.768
(1.00) 		0.133
(0.674) 		0.616
(1.00) 		1
(1.00) 		0.593
(1.00) 		1
(1.00) 		0.244
(0.814) 		1
(1.00)
KRT13 6 (1%) 784 0.172
(0.732) 		0.916
(1.00) 		0.43
(0.941) 		0.241
(0.814) 		0.0809
(0.565) 		0.888
(1.00) 		0.312
(0.858) 		1
(1.00) 		1
(1.00)
CNOT1 8 (1%) 782 0.0396
(0.446) 		0.0955
(0.603) 		0.272
(0.843) 		0.48
(0.966) 		1
(1.00) 		0.719
(1.00) 		0.313
(0.858) 		1
(1.00) 		1
(1.00)
ESR2 6 (1%) 784 0.579
(1.00) 		0.298
(0.858) 		0.43
(0.941) 		1
(1.00) 		1
(1.00) 		0.413
(0.935) 		0.904
(1.00) 		1
(1.00) 		1
(1.00)
RASGRF2 6 (1%) 784 0.139
(0.676) 		0.327
(0.879) 		1
(1.00) 		0.697
(1.00) 		0.185
(0.743) 		0.719
(1.00) 		1
(1.00) 		1
(1.00) 		1
(1.00)
PAK1 3 (0%) 787 0.15
(0.701) 		0.32
(0.866) 		1
(1.00) 		1
(1.00) 		0.556
(1.00) 		0.717
(1.00) 		1
(1.00) 		1
(1.00)
SLC35A2 3 (0%) 787 0.673
(1.00) 		0.441
(0.941) 		1
(1.00) 		1
(1.00) 		1
(1.00) 		0.719
(1.00) 		1
(1.00) 		0.143
(0.684)
LGALS13 4 (1%) 786 0.523
(1.00) 		0.447
(0.941) 		1
(1.00) 		0.645
(1.00) 		1
(1.00) 		0.393
(0.931) 		0.31
(0.858) 		0.243
(0.814) 		0.186
(0.743)
CDKN2A 6 (1%) 784 0.238
(0.814) 		0.831
(1.00) 		1
(1.00) 		0.409
(0.935) 		0.0809
(0.565) 		0.0307
(0.379) 		1
(1.00) 		0.0616
(0.53) 		0.022
(0.318)
DOCK5 20 (3%) 770 0.898
(1.00) 		0.162
(0.725) 		0.163
(0.725) 		1
(1.00) 		0.0179
(0.276) 		0.541
(1.00) 		0.204
(0.777) 		0.732
(1.00) 		0.225
(0.8)
TYRP1 6 (1%) 784 0.41
(0.935) 		0.164
(0.725) 		1
(1.00) 		1
(1.00) 		1
(1.00) 		0.767
(1.00) 		0.0426
(0.463) 		1
(1.00) 		1
(1.00)
CD99L2 5 (1%) 785 0.117
(0.643) 		0.194
(0.755) 		0.662
(1.00) 		0.654
(1.00) 		1
(1.00) 		0.902
(1.00) 		0.79
(1.00) 		1
(1.00) 		0.227
(0.8)
MORN5 3 (0%) 787 0.546
(1.00) 		0.06
(0.528) 		1
(1.00) 		1
(1.00) 		0.233
(0.814) 		1
(1.00) 		1
(1.00) 		1
(1.00)
NAP1L2 6 (1%) 784 0.519
(1.00) 		0.156
(0.717) 		1
(1.00) 		0.697
(1.00) 		1
(1.00) 		0.43
(0.941) 		0.429
(0.941) 		1
(1.00) 		1
(1.00)
CD44 6 (1%) 784 0.298
(0.858) 		0.137
(0.674) 		0.43
(0.941) 		0.241
(0.814) 		0.671
(1.00) 		0.905
(1.00) 		1
(1.00) 		1
(1.00)
OR52M1 8 (1%) 782 0.48
(0.966) 		0.785
(1.00) 		0.462
(0.95) 		1
(1.00) 		0.446
(0.941) 		0.901
(1.00) 		0.247
(0.818) 		0.187
(0.743) 		1
(1.00)
ROBO3 5 (1%) 785 0.237
(0.814) 		0.186
(0.743) 		0.168
(0.725) 		0.654
(1.00) 		0.593
(1.00) 		0.869
(1.00) 		0.158
(0.723) 		1
(1.00) 		0.227
(0.8)
MYO5A 5 (1%) 785 0.258
(0.834) 		0.71
(1.00) 		0.662
(1.00) 		1
(1.00) 		0.332
(0.882) 		0.84
(1.00) 		1
(1.00) 		1
(1.00)
KRT3 4 (1%) 786 0.826
(1.00) 		0.442
(0.941) 		0.303
(0.858) 		0.645
(1.00) 		1
(1.00) 		0.0524
(0.51) 		0.261
(0.834) 		1
(1.00) 		0.186
(0.743)
GEFT 4 (1%) 786 0.471
(0.959) 		0.551
(1.00) 		1
(1.00) 		1
(1.00) 		0.315
(0.858) 		0.237
(0.814) 		0.245
(0.814) 		1
(1.00)
POM121 6 (1%) 784 0.678
(1.00) 		0.236
(0.814) 		1
(1.00) 		1
(1.00) 		1
(1.00) 		0.792
(1.00) 		0.441
(0.941) 		1
(1.00) 		1
(1.00)
CMA1 3 (0%) 787 0.182
(0.743) 		0.916
(1.00) 		1
(1.00) 		1
(1.00) 		0.556
(1.00) 		0.557
(1.00) 		1
(1.00) 		1
(1.00)
TMPRSS6 9 (1%) 781 0.919
(1.00) 		0.0512
(0.51) 		0.0736
(0.557) 		0.502
(0.981) 		0.286
(0.857) 		0.983
(1.00) 		0.16
(0.723) 		1
(1.00) 		1
(1.00)
PLXNA3 10 (1%) 780 0.0733
(0.557) 		0.918
(1.00) 		0.179
(0.743) 		0.103
(0.616) 		0.286
(0.857) 		0.975
(1.00) 		0.412
(0.935) 		0.149
(0.699) 		1
(1.00)
EPS8L1 4 (1%) 786 0.127
(0.668) 		0.435
(0.941) 		0.616
(1.00) 		1
(1.00) 		1
(1.00) 		0.622
(1.00) 		1
(1.00) 		1
(1.00)
PRG4 10 (1%) 780 0.368
(0.907) 		0.471
(0.959) 		0.507
(0.985) 		1
(1.00) 		1
(1.00) 		0.225
(0.8) 		0.139
(0.678) 		0.503
(0.981) 		0.403
(0.933)
RFX4 6 (1%) 784 0.368
(0.907) 		0.341
(0.888) 		1
(1.00) 		0.697
(1.00) 		0.671
(1.00) 		0.123
(0.665) 		0.795
(1.00) 		1
(1.00) 		1
(1.00)
MYT1 6 (1%) 784 0.0568
(0.518) 		0.065
(0.541) 		0.0958
(0.603) 		0.697
(1.00) 		0.185
(0.743) 		0.309
(0.858) 		0.0597
(0.528) 		1
(1.00) 		1
(1.00)
GFRA4 3 (0%) 787 0.0794
(0.565) 		0.474
(0.96) 		0.284
(0.857) 		0.27
(0.839) 		0.556
(1.00) 		0.393
(0.931) 		0.883
(1.00) 		1
(1.00) 		1
(1.00)
EGR1 5 (1%) 785 0.831
(1.00) 		0.289
(0.857) 		0.351
(0.894) 		0.654
(1.00) 		0.651
(1.00) 		0.413
(0.935) 		0.442
(0.941) 		1
(1.00) 		1
(1.00)
FAM126B 8 (1%) 782 0.871
(1.00) 		0.494
(0.974) 		0.462
(0.95) 		1
(1.00) 		1
(1.00) 		0.415
(0.936) 		0.542
(1.00) 		1
(1.00) 		0.302
(0.858)
SON 9 (1%) 781 0.226
(0.8) 		0.892
(1.00) 		0.171
(0.732) 		1
(1.00) 		0.214
(0.798) 		0.485
(0.97) 		0.291
(0.858) 		1
(1.00) 		0.338
(0.886)
AMPD1 7 (1%) 783 0.888
(1.00) 		0.421
(0.941) 		0.702
(1.00) 		0.459
(0.95) 		1
(1.00) 		0.821
(1.00) 		0.829
(1.00) 		1
(1.00) 		1
(1.00)
TNFSF9 5 (1%) 785 0.36
(0.899) 		0.929
(1.00) 		0.351
(0.894) 		0.408
(0.933) 		1
(1.00) 		0.437
(0.941) 		0.567
(1.00) 		1
(1.00) 		0.227
(0.8)
MYH11 14 (2%) 776 0.397
(0.933) 		0.242
(0.814) 		1
(1.00) 		1
(1.00) 		0.566
(1.00) 		0.132
(0.674) 		0.191
(0.749) 		1
(1.00) 		1
(1.00)
FMR1 5 (1%) 785 0.0233
(0.323) 		0.0344
(0.411) 		0.168
(0.725) 		1
(1.00) 		1
(1.00) 		0.148
(0.699) 		0.0736
(0.557) 		1
(1.00) 		1
(1.00)
SOX13 5 (1%) 785 0.871
(1.00) 		0.935
(1.00) 		0.351
(0.894) 		0.408
(0.933) 		0.332
(0.882) 		0.43
(0.941) 		0.57
(1.00) 		1
(1.00) 		1
(1.00)
ANKRD36 7 (1%) 783 0.902
(1.00) 		0.494
(0.974) 		0.103
(0.616) 		0.459
(0.95) 		0.105
(0.621) 		0.0163
(0.262) 		0.0784
(0.565) 		0.0799
(0.565) 		1
(1.00)
KLKB1 7 (1%) 783 0.219
(0.8) 		0.295
(0.858) 		1
(1.00) 		1
(1.00) 		0.444
(0.941) 		0.266
(0.837) 		1
(1.00) 		1
(1.00) 		1
(1.00)
ST3GAL6 5 (1%) 785 0.955
(1.00) 		0.351
(0.894) 		1
(1.00) 		0.654
(1.00) 		0.556
(1.00) 		0.167
(0.725) 		0.935
(1.00) 		1
(1.00) 		1
(1.00)
HTT 5 (1%) 785 0.0279
(0.364) 		0.413
(0.935) 		0.168
(0.725) 		0.654
(1.00) 		0.651
(1.00) 		0.098
(0.614) 		1
(1.00) 		1
(1.00)
AK7 8 (1%) 782 0.0385
(0.443) 		0.537
(1.00) 		0.462
(0.95) 		1
(1.00) 		0.446
(0.941) 		0.482
(0.968) 		0.201
(0.77) 		0.43
(0.941) 		0.338
(0.886)
ZZZ3 4 (1%) 786 0.0327
(0.396) 		0.865
(1.00) 		1
(1.00) 		0.313
(0.858) 		0.315
(0.858) 		0.785
(1.00) 		1
(1.00) 		1
(1.00)
CDA 3 (0%) 787 0.713
(1.00) 		0.494
(0.974) 		0.284
(0.857) 		1
(1.00) 		1
(1.00) 		0.0764
(0.565) 		0.883
(1.00) 		1
(1.00) 		0.143
(0.684)
NPTX1 5 (1%) 785 0.393
(0.931) 		0.396
(0.933) 		1
(1.00) 		0.167
(0.725) 		1
(1.00) 		0.935
(1.00) 		1
(1.00) 		1
(1.00)
CHGB 8 (1%) 782 0.165
(0.725) 		0.71
(1.00) 		0.462
(0.95) 		0.725
(1.00) 		0.0623
(0.53) 		0.94
(1.00) 		0.739
(1.00) 		1
(1.00) 		1
(1.00)
MTMR12 4 (1%) 786 0.934
(1.00) 		0.0805
(0.565) 		0.616
(1.00) 		1
(1.00) 		0.315
(0.858) 		0.649
(1.00) 		0.621
(1.00) 		1
(1.00) 		1
(1.00)
CD1D 4 (1%) 786 0.358
(0.898) 		0.0164
(0.262) 		0.0151
(0.257) 		1
(1.00) 		1
(1.00) 		0.665
(1.00) 		0.137
(0.674) 		1
(1.00) 		1
(1.00)
SLC2A3 5 (1%) 785 0.344
(0.889) 		0.581
(1.00) 		1
(1.00) 		0.408
(0.933) 		0.315
(0.858) 		0.393
(0.931) 		0.934
(1.00) 		0.106
(0.622) 		1
(1.00)
WDR90 8 (1%) 782 0.788
(1.00) 		0.203
(0.775) 		0.138
(0.674) 		1
(1.00) 		0.446
(0.941) 		0.114
(0.637) 		0.473
(0.96) 		1
(1.00) 		1
(1.00)
REXO1 8 (1%) 782 0.781
(1.00) 		0.1
(0.616) 		0.462
(0.95) 		0.288
(0.857) 		0.267
(0.837) 		0.0914
(0.589) 		0.221
(0.8) 		0.43
(0.941) 		1
(1.00)
TTC30B 7 (1%) 783 0.108
(0.622) 		0.127
(0.668) 		0.431
(0.941) 		1
(1.00) 		1
(1.00) 		0.244
(0.814) 		0.527
(1.00) 		1
(1.00) 		1
(1.00)
ZMYM2 7 (1%) 783 0.0388
(0.443) 		0.427
(0.941) 		0.103
(0.616) 		1
(1.00) 		0.444
(0.941) 		0.869
(1.00) 		0.218
(0.8) 		1
(1.00) 		0.302
(0.858)
NKPD1 3 (0%) 787 0.916
(1.00) 		0.401
(0.933) 		0.556
(1.00) 		0.574
(1.00) 		1
(1.00) 		0.327
(0.879) 		1
(1.00) 		0.143
(0.684)
ALPK3 4 (1%) 786 0.493
(0.974) 		0.356
(0.898) 		0.616
(1.00) 		1
(1.00) 		1
(1.00) 		0.616
(1.00) 		1
(1.00) 		0.186
(0.743)
INF2 4 (1%) 786 0.679
(1.00) 		0.999
(1.00) 		1
(1.00) 		0.313
(0.858) 		1
(1.00) 		0.58
(1.00) 		0.244
(0.814) 		1
(1.00)
SGOL2 8 (1%) 782 0.406
(0.933) 		0.61
(1.00) 		1
(1.00) 		1
(1.00) 		0.267
(0.837) 		0.551
(1.00) 		0.809
(1.00) 		1
(1.00) 		0.265
(0.837)
GPR132 6 (1%) 784 0.0825
(0.569) 		0.736
(1.00) 		1
(1.00) 		0.697
(1.00) 		1
(1.00) 		0.351
(0.894) 		0.224
(0.8) 		1
(1.00) 		0.265
(0.837)
TP63 9 (1%) 781 0.327
(0.879) 		0.53
(1.00) 		0.0736
(0.557) 		1
(1.00) 		0.444
(0.941) 		0.863
(1.00) 		0.259
(0.834) 		1
(1.00) 		0.302
(0.858)
ZNF334 4 (1%) 786 0.0241
(0.331) 		0.16
(0.723) 		0.303
(0.858) 		0.313
(0.858) 		0.315
(0.858) 		0.389
(0.931) 		1
(1.00) 		1
(1.00)
RGS3 8 (1%) 782 0.355
(0.898) 		0.521
(1.00) 		0.72
(1.00) 		0.288
(0.857) 		0.444
(0.941) 		0.888
(1.00) 		0.0479
(0.497) 		1
(1.00) 		0.338
(0.886)
NKX2-2 6 (1%) 784 0.0282
(0.365) 		0.228
(0.802) 		0.0958
(0.603) 		0.241
(0.814) 		0.651
(1.00) 		0.909
(1.00) 		0.185
(0.743) 		1
(1.00) 		1
(1.00)
SEZ6L2 7 (1%) 783 0.456
(0.95) 		0.453
(0.95) 		0.249
(0.82) 		0.135
(0.674) 		0.185
(0.743) 		0.44
(0.941) 		0.752
(1.00) 		1
(1.00) 		1
(1.00)
MYH8 20 (3%) 770 0.0744
(0.558) 		0.7
(1.00) 		0.813
(1.00) 		0.109
(0.622) 		0.454
(0.95) 		0.221
(0.8) 		0.338
(0.886) 		0.492
(0.974) 		0.244
(0.814)
CYP11A1 7 (1%) 783 0.17
(0.731) 		0.112
(0.632) 		0.702
(1.00) 		1
(1.00) 		0.684
(1.00) 		0.391
(0.931) 		0.923
(1.00) 		0.387
(0.929) 		0.302
(0.858)
TJAP1 3 (0%) 787 0.269
(0.839) 		0.314
(0.858) 		0.284
(0.857) 		0.574
(1.00) 		1
(1.00) 		0.883
(1.00) 		1
(1.00) 		1
(1.00)
PRKCD 3 (0%) 787 0.311
(0.858) 		0.828
(1.00) 		0.0433
(0.463) 		1
(1.00) 		1
(1.00) 		0.244
(0.814) 		0.188
(0.743) 		1
(1.00)
FLNB 10 (1%) 780 0.211
(0.79) 		0.415
(0.936) 		1
(1.00) 		0.103
(0.616) 		1
(1.00) 		0.605
(1.00) 		0.571
(1.00) 		1
(1.00) 		1
(1.00)
TTYH3 4 (1%) 786 0.383
(0.928) 		0.819
(1.00) 		1
(1.00) 		1
(1.00) 		0.556
(1.00) 		0.921
(1.00) 		1
(1.00) 		1
(1.00)
SLFN11 5 (1%) 785 0.154
(0.715) 		0.149
(0.699) 		0.662
(1.00) 		0.408
(0.933) 		0.651
(1.00) 		0.602
(1.00) 		1
(1.00) 		0.227
(0.8)
CIB1 5 (1%) 785 0.488
(0.973) 		0.939
(1.00) 		0.662
(1.00) 		0.654
(1.00) 		1
(1.00) 		0.987
(1.00) 		0.84
(1.00) 		1
(1.00) 		1
(1.00)
GLYAT 5 (1%) 785 0.0507
(0.51) 		0.886
(1.00) 		0.662
(1.00) 		0.408
(0.933) 		0.181
(0.743) 		0.681
(1.00) 		0.837
(1.00) 		1
(1.00) 		1
(1.00)
IGFN1 9 (1%) 781 0.181
(0.743) 		0.0786
(0.565) 		0.0736
(0.557) 		0.742
(1.00) 		0.286
(0.857) 		0.551
(1.00) 		0.359
(0.898) 		1
(1.00) 		0.338
(0.886)
LRRC55 9 (1%) 781 0.0571
(0.518) 		0.245
(0.814) 		0.0736
(0.557) 		0.175
(0.737) 		0.727
(1.00) 		0.307
(0.858) 		0.442
(0.941) 		0.469
(0.956) 		1
(1.00)
WDR63 9 (1%) 781 0.496
(0.977) 		0.201
(0.77) 		0.291
(0.858) 		0.742
(1.00) 		0.0637
(0.534) 		0.625
(1.00) 		0.362
(0.905) 		0.211
(0.79) 		1
(1.00)
KIF26B 6 (1%) 784 0.22
(0.8) 		0.807
(1.00) 		0.671
(1.00) 		1
(1.00) 		1
(1.00) 		0.951
(1.00) 		0.491
(0.974) 		1
(1.00) 		0.227
(0.8)
AGXT2L1 4 (1%) 786 0.231
(0.811) 		0.894
(1.00) 		1
(1.00) 		1
(1.00) 		0.315
(0.858) 		0.582
(1.00) 		0.0846
(0.569) 		1
(1.00)
'IDH1 MUTATION STATUS' versus 'Time to Death'

P value = 0 (logrank test), Q value = 0

Table S1.  Gene #1: 'IDH1 MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 787 334 0.0 - 211.2 (16.8)
IDH1 MUTATED 408 72 0.0 - 182.3 (23.2)
IDH1 WILD-TYPE 379 262 0.1 - 211.2 (12.5)

Figure S1.  Get High-res Image Gene #1: 'IDH1 MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

'IDH1 MUTATION STATUS' versus 'YEARS_TO_BIRTH'

P value = 1.26e-54 (Wilcoxon-test), Q value = 4e-52

Table S2.  Gene #1: 'IDH1 MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 789 49.3 (15.8)
IDH1 MUTATED 410 40.9 (12.4)
IDH1 WILD-TYPE 379 58.4 (14.0)

Figure S2.  Get High-res Image Gene #1: 'IDH1 MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'IDH1 MUTATION STATUS' versus 'TUMOR_TISSUE_SITE'

P value = 1.7e-96 (Fisher's exact test), Q value = 6.6e-94

Table S3.  Gene #1: 'IDH1 MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 278 512
IDH1 MUTATED 14 397
IDH1 WILD-TYPE 264 115

Figure S3.  Get High-res Image Gene #1: 'IDH1 MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'IDH1 MUTATION STATUS' versus 'RADIATION_THERAPY'

P value = 1.51e-08 (Fisher's exact test), Q value = 1.1e-06

Table S4.  Gene #1: 'IDH1 MUTATION STATUS' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 232 508
IDH1 MUTATED 157 230
IDH1 WILD-TYPE 75 278

Figure S4.  Get High-res Image Gene #1: 'IDH1 MUTATION STATUS' versus Clinical Feature #5: 'RADIATION_THERAPY'

'IDH1 MUTATION STATUS' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 2.43e-16 (Wilcoxon-test), Q value = 3.5e-14

Table S5.  Gene #1: 'IDH1 MUTATION STATUS' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 510 82.5 (15.0)
IDH1 MUTATED 250 87.7 (11.8)
IDH1 WILD-TYPE 260 77.5 (15.9)

Figure S5.  Get High-res Image Gene #1: 'IDH1 MUTATION STATUS' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'IDH1 MUTATION STATUS' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00049

Table S6.  Gene #1: 'IDH1 MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 192 9 130 190 4 265
IDH1 MUTATED 134 1 109 154 0 13
IDH1 WILD-TYPE 58 8 21 36 4 252

Figure S6.  Get High-res Image Gene #1: 'IDH1 MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'TP53 MUTATION STATUS' versus 'Time to Death'

P value = 1.04e-09 (logrank test), Q value = 8.5e-08

Table S7.  Gene #2: 'TP53 MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 787 334 0.0 - 211.2 (16.8)
TP53 MUTATED 325 108 0.0 - 211.2 (20.8)
TP53 WILD-TYPE 462 226 0.1 - 182.3 (14.6)

Figure S7.  Get High-res Image Gene #2: 'TP53 MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

'TP53 MUTATION STATUS' versus 'YEARS_TO_BIRTH'

P value = 7.88e-19 (Wilcoxon-test), Q value = 1.2e-16

Table S8.  Gene #2: 'TP53 MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 789 49.3 (15.8)
TP53 MUTATED 326 43.5 (15.1)
TP53 WILD-TYPE 463 53.4 (15.0)

Figure S8.  Get High-res Image Gene #2: 'TP53 MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'TP53 MUTATION STATUS' versus 'TUMOR_TISSUE_SITE'

P value = 6.79e-08 (Fisher's exact test), Q value = 4.8e-06

Table S9.  Gene #2: 'TP53 MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 278 512
TP53 MUTATED 79 247
TP53 WILD-TYPE 199 265

Figure S9.  Get High-res Image Gene #2: 'TP53 MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'TP53 MUTATION STATUS' versus 'RADIATION_THERAPY'

P value = 0.00493 (Fisher's exact test), Q value = 0.11

Table S10.  Gene #2: 'TP53 MUTATION STATUS' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 232 508
TP53 MUTATED 79 229
TP53 WILD-TYPE 153 279

Figure S10.  Get High-res Image Gene #2: 'TP53 MUTATION STATUS' versus Clinical Feature #5: 'RADIATION_THERAPY'

'TP53 MUTATION STATUS' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.000625 (Wilcoxon-test), Q value = 0.02

Table S11.  Gene #2: 'TP53 MUTATION STATUS' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 510 82.5 (15.0)
TP53 MUTATED 215 85.4 (12.4)
TP53 WILD-TYPE 295 80.4 (16.3)

Figure S11.  Get High-res Image Gene #2: 'TP53 MUTATION STATUS' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'TP53 MUTATION STATUS' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00049

Table S12.  Gene #2: 'TP53 MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 192 9 130 190 4 265
TP53 MUTATED 129 1 74 44 0 78
TP53 WILD-TYPE 63 8 56 146 4 187

Figure S12.  Get High-res Image Gene #2: 'TP53 MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'ATRX MUTATION STATUS' versus 'Time to Death'

P value = 5.11e-15 (logrank test), Q value = 6.7e-13

Table S13.  Gene #3: 'ATRX MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 787 334 0.0 - 211.2 (16.8)
ATRX MUTATED 209 51 0.0 - 211.2 (24.2)
ATRX WILD-TYPE 578 283 0.1 - 182.3 (14.9)

Figure S13.  Get High-res Image Gene #3: 'ATRX MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

'ATRX MUTATION STATUS' versus 'YEARS_TO_BIRTH'

P value = 1.13e-33 (Wilcoxon-test), Q value = 3e-31

Table S14.  Gene #3: 'ATRX MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 789 49.3 (15.8)
ATRX MUTATED 210 38.1 (12.3)
ATRX WILD-TYPE 579 53.4 (15.0)

Figure S14.  Get High-res Image Gene #3: 'ATRX MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'ATRX MUTATION STATUS' versus 'TUMOR_TISSUE_SITE'

P value = 5.49e-26 (Fisher's exact test), Q value = 1.2e-23

Table S15.  Gene #3: 'ATRX MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 278 512
ATRX MUTATED 16 194
ATRX WILD-TYPE 262 318

Figure S15.  Get High-res Image Gene #3: 'ATRX MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'ATRX MUTATION STATUS' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 7.22e-05 (Wilcoxon-test), Q value = 0.0031

Table S16.  Gene #3: 'ATRX MUTATION STATUS' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 510 82.5 (15.0)
ATRX MUTATED 132 86.7 (12.3)
ATRX WILD-TYPE 378 81.0 (15.5)

Figure S16.  Get High-res Image Gene #3: 'ATRX MUTATION STATUS' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'ATRX MUTATION STATUS' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00049

Table S17.  Gene #3: 'ATRX MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 192 9 130 190 4 265
ATRX MUTATED 96 1 64 34 0 15
ATRX WILD-TYPE 96 8 66 156 4 250

Figure S17.  Get High-res Image Gene #3: 'ATRX MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'CIC MUTATION STATUS' versus 'Time to Death'

P value = 1.76e-12 (logrank test), Q value = 1.7e-10

Table S18.  Gene #4: 'CIC MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 787 334 0.0 - 211.2 (16.8)
CIC MUTATED 108 12 0.1 - 211.2 (22.9)
CIC WILD-TYPE 679 322 0.0 - 172.8 (16.1)

Figure S18.  Get High-res Image Gene #4: 'CIC MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

'CIC MUTATION STATUS' versus 'YEARS_TO_BIRTH'

P value = 0.00121 (Wilcoxon-test), Q value = 0.035

Table S19.  Gene #4: 'CIC MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 789 49.3 (15.8)
CIC MUTATED 109 44.7 (13.6)
CIC WILD-TYPE 680 50.0 (16.0)

Figure S19.  Get High-res Image Gene #4: 'CIC MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'CIC MUTATION STATUS' versus 'TUMOR_TISSUE_SITE'

P value = 2.82e-21 (Fisher's exact test), Q value = 4.9e-19

Table S20.  Gene #4: 'CIC MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 278 512
CIC MUTATED 1 108
CIC WILD-TYPE 277 404

Figure S20.  Get High-res Image Gene #4: 'CIC MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'CIC MUTATION STATUS' versus 'RADIATION_THERAPY'

P value = 7.51e-10 (Fisher's exact test), Q value = 6.9e-08

Table S21.  Gene #4: 'CIC MUTATION STATUS' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 232 508
CIC MUTATED 60 42
CIC WILD-TYPE 172 466

Figure S21.  Get High-res Image Gene #4: 'CIC MUTATION STATUS' versus Clinical Feature #5: 'RADIATION_THERAPY'

'CIC MUTATION STATUS' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.000554 (Wilcoxon-test), Q value = 0.019

Table S22.  Gene #4: 'CIC MUTATION STATUS' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 510 82.5 (15.0)
CIC MUTATED 64 88.3 (11.2)
CIC WILD-TYPE 446 81.7 (15.3)

Figure S22.  Get High-res Image Gene #4: 'CIC MUTATION STATUS' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'CIC MUTATION STATUS' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00049

Table S23.  Gene #4: 'CIC MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 192 9 130 190 4 265
CIC MUTATED 3 0 23 82 0 1
CIC WILD-TYPE 189 9 107 108 4 264

Figure S23.  Get High-res Image Gene #4: 'CIC MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'NF1 MUTATION STATUS' versus 'Time to Death'

P value = 1.23e-05 (logrank test), Q value = 0.00057

Table S24.  Gene #5: 'NF1 MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 787 334 0.0 - 211.2 (16.8)
NF1 MUTATED 62 39 0.2 - 211.2 (12.6)
NF1 WILD-TYPE 725 295 0.0 - 182.3 (17.1)

Figure S24.  Get High-res Image Gene #5: 'NF1 MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

'NF1 MUTATION STATUS' versus 'YEARS_TO_BIRTH'

P value = 0.00051 (Wilcoxon-test), Q value = 0.018

Table S25.  Gene #5: 'NF1 MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 789 49.3 (15.8)
NF1 MUTATED 62 55.9 (15.2)
NF1 WILD-TYPE 727 48.8 (15.7)

Figure S25.  Get High-res Image Gene #5: 'NF1 MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'PIK3R1 MUTATION STATUS' versus 'YEARS_TO_BIRTH'

P value = 0.00274 (Wilcoxon-test), Q value = 0.069

Table S26.  Gene #6: 'PIK3R1 MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 789 49.3 (15.8)
PIK3R1 MUTATED 54 55.5 (15.6)
PIK3R1 WILD-TYPE 735 48.9 (15.7)

Figure S26.  Get High-res Image Gene #6: 'PIK3R1 MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'PIK3R1 MUTATION STATUS' versus 'TUMOR_TISSUE_SITE'

P value = 0.000194 (Fisher's exact test), Q value = 0.0076

Table S27.  Gene #6: 'PIK3R1 MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 278 512
PIK3R1 MUTATED 32 22
PIK3R1 WILD-TYPE 246 490

Figure S27.  Get High-res Image Gene #6: 'PIK3R1 MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'PIK3R1 MUTATION STATUS' versus 'HISTOLOGICAL_TYPE'

P value = 0.00414 (Fisher's exact test), Q value = 0.097

Table S28.  Gene #6: 'PIK3R1 MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 192 9 130 190 4 265
PIK3R1 MUTATED 8 1 3 11 0 31
PIK3R1 WILD-TYPE 184 8 127 179 4 234

Figure S28.  Get High-res Image Gene #6: 'PIK3R1 MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'NOTCH1 MUTATION STATUS' versus 'Time to Death'

P value = 0.000222 (logrank test), Q value = 0.0081

Table S29.  Gene #7: 'NOTCH1 MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 787 334 0.0 - 211.2 (16.8)
NOTCH1 MUTATED 41 7 0.3 - 211.2 (25.9)
NOTCH1 WILD-TYPE 746 327 0.0 - 182.3 (16.6)

Figure S29.  Get High-res Image Gene #7: 'NOTCH1 MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

'NOTCH1 MUTATION STATUS' versus 'TUMOR_TISSUE_SITE'

P value = 1.09e-08 (Fisher's exact test), Q value = 8.6e-07

Table S30.  Gene #7: 'NOTCH1 MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 278 512
NOTCH1 MUTATED 0 42
NOTCH1 WILD-TYPE 278 470

Figure S30.  Get High-res Image Gene #7: 'NOTCH1 MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'NOTCH1 MUTATION STATUS' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00049

Table S31.  Gene #7: 'NOTCH1 MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 192 9 130 190 4 265
NOTCH1 MUTATED 6 0 7 29 0 0
NOTCH1 WILD-TYPE 186 9 123 161 4 265

Figure S31.  Get High-res Image Gene #7: 'NOTCH1 MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'IDH2 MUTATION STATUS' versus 'Time to Death'

P value = 0.00159 (logrank test), Q value = 0.045

Table S32.  Gene #8: 'IDH2 MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 787 334 0.0 - 211.2 (16.8)
IDH2 MUTATED 20 1 0.1 - 84.3 (30.4)
IDH2 WILD-TYPE 767 333 0.0 - 211.2 (16.6)

Figure S32.  Get High-res Image Gene #8: 'IDH2 MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

'IDH2 MUTATION STATUS' versus 'YEARS_TO_BIRTH'

P value = 0.000515 (Wilcoxon-test), Q value = 0.018

Table S33.  Gene #8: 'IDH2 MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 789 49.3 (15.8)
IDH2 MUTATED 20 37.6 (9.7)
IDH2 WILD-TYPE 769 49.6 (15.8)

Figure S33.  Get High-res Image Gene #8: 'IDH2 MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'IDH2 MUTATION STATUS' versus 'TUMOR_TISSUE_SITE'

P value = 0.000193 (Fisher's exact test), Q value = 0.0076

Table S34.  Gene #8: 'IDH2 MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 278 512
IDH2 MUTATED 0 20
IDH2 WILD-TYPE 278 492

Figure S34.  Get High-res Image Gene #8: 'IDH2 MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'IDH2 MUTATION STATUS' versus 'HISTOLOGICAL_TYPE'

P value = 3e-05 (Fisher's exact test), Q value = 0.0013

Table S35.  Gene #8: 'IDH2 MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 192 9 130 190 4 265
IDH2 MUTATED 1 0 5 14 0 0
IDH2 WILD-TYPE 191 9 125 176 4 265

Figure S35.  Get High-res Image Gene #8: 'IDH2 MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'FUBP1 MUTATION STATUS' versus 'Time to Death'

P value = 0.000216 (logrank test), Q value = 0.008

Table S36.  Gene #9: 'FUBP1 MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 787 334 0.0 - 211.2 (16.8)
FUBP1 MUTATED 47 6 0.1 - 211.2 (21.4)
FUBP1 WILD-TYPE 740 328 0.0 - 182.3 (16.7)

Figure S36.  Get High-res Image Gene #9: 'FUBP1 MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

'FUBP1 MUTATION STATUS' versus 'TUMOR_TISSUE_SITE'

P value = 1.03e-09 (Fisher's exact test), Q value = 8.5e-08

Table S37.  Gene #9: 'FUBP1 MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 278 512
FUBP1 MUTATED 0 47
FUBP1 WILD-TYPE 278 465

Figure S37.  Get High-res Image Gene #9: 'FUBP1 MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'FUBP1 MUTATION STATUS' versus 'RADIATION_THERAPY'

P value = 0.0035 (Fisher's exact test), Q value = 0.087

Table S38.  Gene #9: 'FUBP1 MUTATION STATUS' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 232 508
FUBP1 MUTATED 22 20
FUBP1 WILD-TYPE 210 488

Figure S38.  Get High-res Image Gene #9: 'FUBP1 MUTATION STATUS' versus Clinical Feature #5: 'RADIATION_THERAPY'

'FUBP1 MUTATION STATUS' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.011 (Wilcoxon-test), Q value = 0.2

Table S39.  Gene #9: 'FUBP1 MUTATION STATUS' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 510 82.5 (15.0)
FUBP1 MUTATED 29 89.0 (12.1)
FUBP1 WILD-TYPE 481 82.1 (15.0)

Figure S39.  Get High-res Image Gene #9: 'FUBP1 MUTATION STATUS' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'FUBP1 MUTATION STATUS' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00049

Table S40.  Gene #9: 'FUBP1 MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 192 9 130 190 4 265
FUBP1 MUTATED 2 0 9 36 0 0
FUBP1 WILD-TYPE 190 9 121 154 4 265

Figure S40.  Get High-res Image Gene #9: 'FUBP1 MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'RB1 MUTATION STATUS' versus 'YEARS_TO_BIRTH'

P value = 0.000591 (Wilcoxon-test), Q value = 0.02

Table S41.  Gene #10: 'RB1 MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 789 49.3 (15.8)
RB1 MUTATED 29 59.5 (14.3)
RB1 WILD-TYPE 760 48.9 (15.7)

Figure S41.  Get High-res Image Gene #10: 'RB1 MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'RB1 MUTATION STATUS' versus 'TUMOR_TISSUE_SITE'

P value = 9.5e-07 (Fisher's exact test), Q value = 6.5e-05

Table S42.  Gene #10: 'RB1 MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 278 512
RB1 MUTATED 23 6
RB1 WILD-TYPE 255 506

Figure S42.  Get High-res Image Gene #10: 'RB1 MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'RB1 MUTATION STATUS' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00049

Table S43.  Gene #10: 'RB1 MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 192 9 130 190 4 265
RB1 MUTATED 5 1 0 1 0 22
RB1 WILD-TYPE 187 8 130 189 4 243

Figure S43.  Get High-res Image Gene #10: 'RB1 MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'PTEN MUTATION STATUS' versus 'Time to Death'

P value = 0 (logrank test), Q value = 0

Table S44.  Gene #14: 'PTEN MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 787 334 0.0 - 211.2 (16.8)
PTEN MUTATED 109 79 0.1 - 211.2 (12.5)
PTEN WILD-TYPE 678 255 0.0 - 182.3 (17.5)

Figure S44.  Get High-res Image Gene #14: 'PTEN MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

'PTEN MUTATION STATUS' versus 'YEARS_TO_BIRTH'

P value = 3.23e-14 (Wilcoxon-test), Q value = 3.6e-12

Table S45.  Gene #14: 'PTEN MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 789 49.3 (15.8)
PTEN MUTATED 109 60.1 (12.9)
PTEN WILD-TYPE 680 47.6 (15.6)

Figure S45.  Get High-res Image Gene #14: 'PTEN MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'PTEN MUTATION STATUS' versus 'TUMOR_TISSUE_SITE'

P value = 9.33e-23 (Fisher's exact test), Q value = 1.8e-20

Table S46.  Gene #14: 'PTEN MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 278 512
PTEN MUTATED 85 24
PTEN WILD-TYPE 193 488

Figure S46.  Get High-res Image Gene #14: 'PTEN MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'PTEN MUTATION STATUS' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00237 (Wilcoxon-test), Q value = 0.063

Table S47.  Gene #14: 'PTEN MUTATION STATUS' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 510 82.5 (15.0)
PTEN MUTATED 76 77.9 (16.1)
PTEN WILD-TYPE 434 83.3 (14.6)

Figure S47.  Get High-res Image Gene #14: 'PTEN MUTATION STATUS' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'PTEN MUTATION STATUS' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00049

Table S48.  Gene #14: 'PTEN MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 192 9 130 190 4 265
PTEN MUTATED 17 0 4 3 2 83
PTEN WILD-TYPE 175 9 126 187 2 182

Figure S48.  Get High-res Image Gene #14: 'PTEN MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'ARID1A MUTATION STATUS' versus 'Time to Death'

P value = 0.00403 (logrank test), Q value = 0.097

Table S49.  Gene #15: 'ARID1A MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 787 334 0.0 - 211.2 (16.8)
ARID1A MUTATED 22 4 6.7 - 211.2 (24.0)
ARID1A WILD-TYPE 765 330 0.0 - 182.3 (16.6)

Figure S49.  Get High-res Image Gene #15: 'ARID1A MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

'ARID1A MUTATION STATUS' versus 'TUMOR_TISSUE_SITE'

P value = 0.0108 (Fisher's exact test), Q value = 0.2

Table S50.  Gene #15: 'ARID1A MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 278 512
ARID1A MUTATED 2 20
ARID1A WILD-TYPE 276 492

Figure S50.  Get High-res Image Gene #15: 'ARID1A MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'ARID1A MUTATION STATUS' versus 'HISTOLOGICAL_TYPE'

P value = 0.004 (Fisher's exact test), Q value = 0.097

Table S51.  Gene #15: 'ARID1A MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 192 9 130 190 4 265
ARID1A MUTATED 4 1 7 9 0 1
ARID1A WILD-TYPE 188 8 123 181 4 264

Figure S51.  Get High-res Image Gene #15: 'ARID1A MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'NIPBL MUTATION STATUS' versus 'Time to Death'

P value = 0.00475 (logrank test), Q value = 0.11

Table S52.  Gene #17: 'NIPBL MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 787 334 0.0 - 211.2 (16.8)
NIPBL MUTATED 20 4 0.2 - 211.2 (22.5)
NIPBL WILD-TYPE 767 330 0.0 - 182.3 (16.7)

Figure S52.  Get High-res Image Gene #17: 'NIPBL MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

'NUDT11 MUTATION STATUS' versus 'TUMOR_TISSUE_SITE'

P value = 0.0101 (Fisher's exact test), Q value = 0.2

Table S53.  Gene #19: 'NUDT11 MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 278 512
NUDT11 MUTATED 0 11
NUDT11 WILD-TYPE 278 501

Figure S53.  Get High-res Image Gene #19: 'NUDT11 MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'PLCG1 MUTATION STATUS' versus 'Time to Death'

P value = 0.00268 (logrank test), Q value = 0.069

Table S54.  Gene #22: 'PLCG1 MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 787 334 0.0 - 211.2 (16.8)
PLCG1 MUTATED 11 9 6.7 - 39.0 (14.8)
PLCG1 WILD-TYPE 776 325 0.0 - 211.2 (16.8)

Figure S54.  Get High-res Image Gene #22: 'PLCG1 MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

'PLCG1 MUTATION STATUS' versus 'YEARS_TO_BIRTH'

P value = 0.0113 (Wilcoxon-test), Q value = 0.21

Table S55.  Gene #22: 'PLCG1 MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 789 49.3 (15.8)
PLCG1 MUTATED 11 60.5 (9.6)
PLCG1 WILD-TYPE 778 49.2 (15.8)

Figure S55.  Get High-res Image Gene #22: 'PLCG1 MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'STAG2 MUTATION STATUS' versus 'TUMOR_TISSUE_SITE'

P value = 0.00213 (Fisher's exact test), Q value = 0.057

Table S56.  Gene #23: 'STAG2 MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 278 512
STAG2 MUTATED 12 4
STAG2 WILD-TYPE 266 508

Figure S56.  Get High-res Image Gene #23: 'STAG2 MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'PDGFRA MUTATION STATUS' versus 'Time to Death'

P value = 0.00116 (logrank test), Q value = 0.035

Table S57.  Gene #27: 'PDGFRA MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 787 334 0.0 - 211.2 (16.8)
PDGFRA MUTATED 20 15 0.5 - 211.2 (9.7)
PDGFRA WILD-TYPE 767 319 0.0 - 182.3 (17.2)

Figure S57.  Get High-res Image Gene #27: 'PDGFRA MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

'PDGFRA MUTATION STATUS' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0128 (Wilcoxon-test), Q value = 0.23

Table S58.  Gene #27: 'PDGFRA MUTATION STATUS' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 510 82.5 (15.0)
PDGFRA MUTATED 16 74.4 (13.6)
PDGFRA WILD-TYPE 494 82.8 (14.9)

Figure S58.  Get High-res Image Gene #27: 'PDGFRA MUTATION STATUS' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'HTRA2 MUTATION STATUS' versus 'YEARS_TO_BIRTH'

P value = 0.00739 (Wilcoxon-test), Q value = 0.16

Table S59.  Gene #32: 'HTRA2 MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 789 49.3 (15.8)
HTRA2 MUTATED 5 31.2 (9.7)
HTRA2 WILD-TYPE 784 49.4 (15.8)

Figure S59.  Get High-res Image Gene #32: 'HTRA2 MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'REN MUTATION STATUS' versus 'Time to Death'

P value = 0.000169 (logrank test), Q value = 0.007

Table S60.  Gene #34: 'REN MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 787 334 0.0 - 211.2 (16.8)
REN MUTATED 7 6 1.0 - 34.5 (8.0)
REN WILD-TYPE 780 328 0.0 - 211.2 (16.9)

Figure S60.  Get High-res Image Gene #34: 'REN MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

'BRAF MUTATION STATUS' versus 'HISTOLOGICAL_TYPE'

P value = 0.00175 (Fisher's exact test), Q value = 0.049

Table S61.  Gene #43: 'BRAF MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 192 9 130 190 4 265
BRAF MUTATED 5 2 0 0 0 4
BRAF WILD-TYPE 187 7 130 190 4 261

Figure S61.  Get High-res Image Gene #43: 'BRAF MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'MX2 MUTATION STATUS' versus 'YEARS_TO_BIRTH'

P value = 0.0142 (Wilcoxon-test), Q value = 0.24

Table S62.  Gene #44: 'MX2 MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 789 49.3 (15.8)
MX2 MUTATED 9 62.4 (11.9)
MX2 WILD-TYPE 780 49.2 (15.8)

Figure S62.  Get High-res Image Gene #44: 'MX2 MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'DSP MUTATION STATUS' versus 'YEARS_TO_BIRTH'

P value = 0.0131 (Wilcoxon-test), Q value = 0.23

Table S63.  Gene #52: 'DSP MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 789 49.3 (15.8)
DSP MUTATED 19 57.9 (13.8)
DSP WILD-TYPE 770 49.1 (15.8)

Figure S63.  Get High-res Image Gene #52: 'DSP MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'EGFR MUTATION STATUS' versus 'Time to Death'

P value = 0 (logrank test), Q value = 0

Table S64.  Gene #56: 'EGFR MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 787 334 0.0 - 211.2 (16.8)
EGFR MUTATED 108 80 0.2 - 211.2 (12.7)
EGFR WILD-TYPE 679 254 0.0 - 182.3 (17.9)

Figure S64.  Get High-res Image Gene #56: 'EGFR MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

'EGFR MUTATION STATUS' versus 'YEARS_TO_BIRTH'

P value = 1.38e-14 (Wilcoxon-test), Q value = 1.7e-12

Table S65.  Gene #56: 'EGFR MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 789 49.3 (15.8)
EGFR MUTATED 108 59.7 (10.9)
EGFR WILD-TYPE 681 47.7 (15.9)

Figure S65.  Get High-res Image Gene #56: 'EGFR MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'EGFR MUTATION STATUS' versus 'TUMOR_TISSUE_SITE'

P value = 2.4e-13 (Fisher's exact test), Q value = 2.5e-11

Table S66.  Gene #56: 'EGFR MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 278 512
EGFR MUTATED 73 35
EGFR WILD-TYPE 205 477

Figure S66.  Get High-res Image Gene #56: 'EGFR MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'EGFR MUTATION STATUS' versus 'RADIATION_THERAPY'

P value = 0.00122 (Fisher's exact test), Q value = 0.035

Table S67.  Gene #56: 'EGFR MUTATION STATUS' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 232 508
EGFR MUTATED 18 83
EGFR WILD-TYPE 214 425

Figure S67.  Get High-res Image Gene #56: 'EGFR MUTATION STATUS' versus Clinical Feature #5: 'RADIATION_THERAPY'

'EGFR MUTATION STATUS' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 1.25e-05 (Wilcoxon-test), Q value = 0.00057

Table S68.  Gene #56: 'EGFR MUTATION STATUS' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 510 82.5 (15.0)
EGFR MUTATED 76 75.5 (16.8)
EGFR WILD-TYPE 434 83.7 (14.3)

Figure S68.  Get High-res Image Gene #56: 'EGFR MUTATION STATUS' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'EGFR MUTATION STATUS' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00049

Table S69.  Gene #56: 'EGFR MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 192 9 130 190 4 265
EGFR MUTATED 20 1 7 8 0 72
EGFR WILD-TYPE 172 8 123 182 4 193

Figure S69.  Get High-res Image Gene #56: 'EGFR MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'WRN MUTATION STATUS' versus 'ETHNICITY'

P value = 0.00206 (Fisher's exact test), Q value = 0.057

Table S70.  Gene #63: 'WRN MUTATION STATUS' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 35 666
WRN MUTATED 3 3
WRN WILD-TYPE 32 663

Figure S70.  Get High-res Image Gene #63: 'WRN MUTATION STATUS' versus Clinical Feature #9: 'ETHNICITY'

'ATF7IP2 MUTATION STATUS' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00871 (Wilcoxon-test), Q value = 0.18

Table S71.  Gene #67: 'ATF7IP2 MUTATION STATUS' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 510 82.5 (15.0)
ATF7IP2 MUTATED 7 70.0 (10.0)
ATF7IP2 WILD-TYPE 503 82.7 (15.0)

Figure S71.  Get High-res Image Gene #67: 'ATF7IP2 MUTATION STATUS' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'DNMT3A MUTATION STATUS' versus 'Time to Death'

P value = 0.00535 (logrank test), Q value = 0.12

Table S72.  Gene #68: 'DNMT3A MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 787 334 0.0 - 211.2 (16.8)
DNMT3A MUTATED 10 0 13.3 - 211.2 (25.2)
DNMT3A WILD-TYPE 777 334 0.0 - 182.3 (16.8)

Figure S72.  Get High-res Image Gene #68: 'DNMT3A MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

'PROKR2 MUTATION STATUS' versus 'Time to Death'

P value = 0.0124 (logrank test), Q value = 0.22

Table S73.  Gene #69: 'PROKR2 MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 787 334 0.0 - 211.2 (16.8)
PROKR2 MUTATED 9 7 2.5 - 34.9 (15.3)
PROKR2 WILD-TYPE 778 327 0.0 - 211.2 (16.8)

Figure S73.  Get High-res Image Gene #69: 'PROKR2 MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

'ZBTB20 MUTATION STATUS' versus 'Time to Death'

P value = 0.0142 (logrank test), Q value = 0.24

Table S74.  Gene #71: 'ZBTB20 MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 787 334 0.0 - 211.2 (16.8)
ZBTB20 MUTATED 21 4 4.6 - 211.2 (23.2)
ZBTB20 WILD-TYPE 766 330 0.0 - 182.3 (16.7)

Figure S74.  Get High-res Image Gene #71: 'ZBTB20 MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

'ZBTB20 MUTATION STATUS' versus 'TUMOR_TISSUE_SITE'

P value = 0.00113 (Fisher's exact test), Q value = 0.035

Table S75.  Gene #71: 'ZBTB20 MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 278 512
ZBTB20 MUTATED 1 21
ZBTB20 WILD-TYPE 277 491

Figure S75.  Get High-res Image Gene #71: 'ZBTB20 MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'ZBTB20 MUTATION STATUS' versus 'HISTOLOGICAL_TYPE'

P value = 0.0076 (Fisher's exact test), Q value = 0.16

Table S76.  Gene #71: 'ZBTB20 MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 192 9 130 190 4 265
ZBTB20 MUTATED 5 0 4 12 0 1
ZBTB20 WILD-TYPE 187 9 126 178 4 264

Figure S76.  Get High-res Image Gene #71: 'ZBTB20 MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'PDHA1 MUTATION STATUS' versus 'GENDER'

P value = 0.00508 (Fisher's exact test), Q value = 0.11

Table S77.  Gene #78: 'PDHA1 MUTATION STATUS' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 329 461
PDHA1 MUTATED 6 0
PDHA1 WILD-TYPE 323 461

Figure S77.  Get High-res Image Gene #78: 'PDHA1 MUTATION STATUS' versus Clinical Feature #4: 'GENDER'

'FAM123C MUTATION STATUS' versus 'YEARS_TO_BIRTH'

P value = 0.00244 (Wilcoxon-test), Q value = 0.064

Table S78.  Gene #79: 'FAM123C MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 789 49.3 (15.8)
FAM123C MUTATED 11 63.2 (13.2)
FAM123C WILD-TYPE 778 49.1 (15.8)

Figure S78.  Get High-res Image Gene #79: 'FAM123C MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'GRHL3 MUTATION STATUS' versus 'GENDER'

P value = 0.00086 (Fisher's exact test), Q value = 0.028

Table S79.  Gene #93: 'GRHL3 MUTATION STATUS' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 329 461
GRHL3 MUTATED 8 0
GRHL3 WILD-TYPE 321 461

Figure S79.  Get High-res Image Gene #93: 'GRHL3 MUTATION STATUS' versus Clinical Feature #4: 'GENDER'

'SMARCA4 MUTATION STATUS' versus 'Time to Death'

P value = 0.000205 (logrank test), Q value = 0.0078

Table S80.  Gene #103: 'SMARCA4 MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 787 334 0.0 - 211.2 (16.8)
SMARCA4 MUTATED 27 2 0.2 - 211.2 (26.3)
SMARCA4 WILD-TYPE 760 332 0.0 - 182.3 (16.6)

Figure S80.  Get High-res Image Gene #103: 'SMARCA4 MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

'SMARCA4 MUTATION STATUS' versus 'TUMOR_TISSUE_SITE'

P value = 0.000138 (Fisher's exact test), Q value = 0.0058

Table S81.  Gene #103: 'SMARCA4 MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 278 512
SMARCA4 MUTATED 1 26
SMARCA4 WILD-TYPE 277 486

Figure S81.  Get High-res Image Gene #103: 'SMARCA4 MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'SMARCA4 MUTATION STATUS' versus 'HISTOLOGICAL_TYPE'

P value = 0.00664 (Fisher's exact test), Q value = 0.14

Table S82.  Gene #103: 'SMARCA4 MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 192 9 130 190 4 265
SMARCA4 MUTATED 11 0 5 10 0 1
SMARCA4 WILD-TYPE 181 9 125 180 4 264

Figure S82.  Get High-res Image Gene #103: 'SMARCA4 MUTATION STATUS' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'QKI MUTATION STATUS' versus 'Time to Death'

P value = 0.00751 (logrank test), Q value = 0.16

Table S83.  Gene #113: 'QKI MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 787 334 0.0 - 211.2 (16.8)
QKI MUTATED 6 6 10.4 - 36.8 (15.8)
QKI WILD-TYPE 781 328 0.0 - 211.2 (16.8)

Figure S83.  Get High-res Image Gene #113: 'QKI MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

'PASD1 MUTATION STATUS' versus 'GENDER'

P value = 0.0107 (Fisher's exact test), Q value = 0.2

Table S84.  Gene #121: 'PASD1 MUTATION STATUS' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 329 461
PASD1 MUTATED 7 1
PASD1 WILD-TYPE 322 460

Figure S84.  Get High-res Image Gene #121: 'PASD1 MUTATION STATUS' versus Clinical Feature #4: 'GENDER'

'TNFRSF9 MUTATION STATUS' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00873 (Wilcoxon-test), Q value = 0.18

Table S85.  Gene #122: 'TNFRSF9 MUTATION STATUS' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 510 82.5 (15.0)
TNFRSF9 MUTATED 3 56.7 (5.8)
TNFRSF9 WILD-TYPE 507 82.6 (14.9)

Figure S85.  Get High-res Image Gene #122: 'TNFRSF9 MUTATION STATUS' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'C10ORF46 MUTATION STATUS' versus 'RACE'

P value = 0.00888 (Fisher's exact test), Q value = 0.18

Table S86.  Gene #139: 'C10ORF46 MUTATION STATUS' versus Clinical Feature #8: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 1 13 38 722
C10ORF46 MUTATED 0 1 1 1
C10ORF46 WILD-TYPE 1 12 37 721

Figure S86.  Get High-res Image Gene #139: 'C10ORF46 MUTATION STATUS' versus Clinical Feature #8: 'RACE'

'GABRA6 MUTATION STATUS' versus 'TUMOR_TISSUE_SITE'

P value = 0.00412 (Fisher's exact test), Q value = 0.097

Table S87.  Gene #143: 'GABRA6 MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 278 512
GABRA6 MUTATED 11 4
GABRA6 WILD-TYPE 267 508

Figure S87.  Get High-res Image Gene #143: 'GABRA6 MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'PAN3 MUTATION STATUS' versus 'TUMOR_TISSUE_SITE'

P value = 0.00902 (Fisher's exact test), Q value = 0.18

Table S88.  Gene #164: 'PAN3 MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 278 512
PAN3 MUTATED 6 1
PAN3 WILD-TYPE 272 511

Figure S88.  Get High-res Image Gene #164: 'PAN3 MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'CHD8 MUTATION STATUS' versus 'Time to Death'

P value = 0.0108 (logrank test), Q value = 0.2

Table S89.  Gene #165: 'CHD8 MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 787 334 0.0 - 211.2 (16.8)
CHD8 MUTATED 10 6 2.3 - 31.3 (11.1)
CHD8 WILD-TYPE 777 328 0.0 - 211.2 (16.9)

Figure S89.  Get High-res Image Gene #165: 'CHD8 MUTATION STATUS' versus Clinical Feature #1: 'Time to Death'

'CHD8 MUTATION STATUS' versus 'YEARS_TO_BIRTH'

P value = 0.000887 (Wilcoxon-test), Q value = 0.028

Table S90.  Gene #165: 'CHD8 MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 789 49.3 (15.8)
CHD8 MUTATED 10 66.9 (15.0)
CHD8 WILD-TYPE 779 49.1 (15.7)

Figure S90.  Get High-res Image Gene #165: 'CHD8 MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'CHD8 MUTATION STATUS' versus 'TUMOR_TISSUE_SITE'

P value = 0.00477 (Fisher's exact test), Q value = 0.11

Table S91.  Gene #165: 'CHD8 MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 278 512
CHD8 MUTATED 8 2
CHD8 WILD-TYPE 270 510

Figure S91.  Get High-res Image Gene #165: 'CHD8 MUTATION STATUS' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

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/GBMLGG-TP/20223852/transformed.cor.cli.txt

  • Clinical data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/GBMLGG-TP/19775190/GBMLGG-TP.merged_data.txt

  • Number of patients = 790

  • Number of significantly mutated genes = 174

  • Number of selected clinical features = 9

  • Exclude genes that fewer than K tumors have mutations, K = 3

Survival analysis

For survival clinical features, the Kaplan-Meier survival curves of tumors with and without gene mutations were plotted and the statistical significance P values were estimated by logrank test (Bland and Altman 2004) using the 'survdiff' function in R

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] Bland and Altman, Statistics notes: The logrank test, BMJ 328(7447):1073 (2004)
[2] 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)
[3] 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)
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