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 197 genes and 7 clinical features across 248 patients, 12 significant findings detected with Q value < 0.25.

  • PTEN mutation correlated to 'HISTOLOGICAL_TYPE' and 'RACE'.

  • PIK3R1 mutation correlated to 'HISTOLOGICAL_TYPE'.

  • TP53 mutation correlated to 'YEARS_TO_BIRTH' and 'HISTOLOGICAL_TYPE'.

  • CTCF mutation correlated to 'HISTOLOGICAL_TYPE'.

  • KRAS mutation correlated to 'YEARS_TO_BIRTH' and 'HISTOLOGICAL_TYPE'.

  • ARID1A mutation correlated to 'HISTOLOGICAL_TYPE'.

  • CTNNB1 mutation correlated to 'YEARS_TO_BIRTH' and 'HISTOLOGICAL_TYPE'.

  • PPP2R1A mutation correlated to 'HISTOLOGICAL_TYPE'.

Results
Overview of the results

Table 1.  Get Full Table Overview of the association between mutation status of 197 genes and 7 clinical features. Shown in the table are P values (Q values). Thresholded by Q value < 0.25, 12 significant findings detected.

Clinical
Features 		Time
to
Death 		YEARS
TO
BIRTH 		HISTOLOGICAL
TYPE 		RADIATIONS
RADIATION
REGIMENINDICATION 		COMPLETENESS
OF
RESECTION 		RACE ETHNICITY
nMutated (%) nWild-Type logrank test Wilcoxon-test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test
PTEN 161 (65%) 87 0.0155
(0.485) 		0.00753
(0.447) 		1e-05
(0.00276) 		0.0359
(0.653) 		0.0465
(0.713) 		0.00063
(0.0724) 		1
(1.00)
TP53 69 (28%) 179 0.0187
(0.528) 		5.85e-06
(0.00276) 		1e-05
(0.00276) 		0.237
(0.768) 		0.0851
(0.756) 		0.00753
(0.447) 		1
(1.00)
KRAS 53 (21%) 195 0.0846
(0.756) 		0.000544
(0.0682) 		0.00022
(0.0379) 		0.257
(0.772) 		0.458
(0.834) 		0.498
(0.854) 		0.583
(0.897)
CTNNB1 74 (30%) 174 0.757
(0.993) 		0.000515
(0.0682) 		1e-05
(0.00276) 		0.31
(0.787) 		0.493
(0.854) 		0.728
(0.988) 		1
(1.00)
PIK3R1 83 (33%) 165 0.903
(1.00) 		0.398
(0.826) 		1e-05
(0.00276) 		0.324
(0.802) 		0.954
(1.00) 		0.108
(0.756) 		0.136
(0.756)
CTCF 44 (18%) 204 0.206
(0.756) 		0.0368
(0.659) 		0.00017
(0.0335) 		1
(1.00) 		0.735
(0.993) 		0.777
(1.00) 		1
(1.00)
ARID1A 83 (33%) 165 0.00846
(0.447) 		0.00633
(0.447) 		9e-05
(0.0207) 		0.573
(0.896) 		0.265
(0.775) 		0.247
(0.772) 		1
(1.00)
PPP2R1A 27 (11%) 221 0.92
(1.00) 		0.007
(0.447) 		0.00042
(0.0644) 		0.523
(0.874) 		1
(1.00) 		0.402
(0.826) 		0.31
(0.787)
FBXW7 39 (16%) 209 0.67
(0.956) 		0.888
(1.00) 		0.00343
(0.278) 		0.856
(1.00) 		0.528
(0.878) 		0.786
(1.00) 		0.528
(0.878)
ARHGAP35 36 (15%) 212 0.671
(0.956) 		0.914
(1.00) 		0.726
(0.988) 		1
(1.00) 		0.928
(1.00) 		0.195
(0.756) 		0.457
(0.834)
PIK3CA 132 (53%) 116 0.0226
(0.566) 		0.185
(0.756) 		0.252
(0.772) 		0.689
(0.966) 		0.187
(0.756) 		0.72
(0.985) 		1
(1.00)
FGFR2 31 (12%) 217 0.569
(0.895) 		0.983
(1.00) 		0.774
(1.00) 		1
(1.00) 		0.38
(0.824) 		0.631
(0.929) 		1
(1.00)
ZFHX3 44 (18%) 204 0.52
(0.871) 		0.744
(0.993) 		0.0666
(0.756) 		0.862
(1.00) 		0.495
(0.854) 		0.1
(0.756) 		0.126
(0.756)
TCP11L2 14 (6%) 234 0.164
(0.756) 		0.988
(1.00) 		0.171
(0.756) 		1
(1.00) 		0.247
(0.772) 		0.0902
(0.756) 		0.235
(0.766)
SPOP 21 (8%) 227 0.433
(0.826) 		0.451
(0.834) 		0.842
(1.00) 		0.812
(1.00) 		0.554
(0.882) 		0.728
(0.988) 		0.31
(0.787)
RBMX 13 (5%) 235 0.594
(0.904) 		0.233
(0.766) 		0.3
(0.779) 		0.146
(0.756) 		0.134
(0.756) 		0.213
(0.756) 		1
(1.00)
SOX17 7 (3%) 241 0.453
(0.834) 		0.452
(0.834) 		0.428
(0.826) 		0.427
(0.826) 		0.686
(0.963) 		0.0642
(0.756) 		1
(1.00)
NFE2L2 15 (6%) 233 0.687
(0.964) 		0.154
(0.756) 		0.14
(0.756) 		0.587
(0.897) 		0.779
(1.00) 		0.514
(0.869) 		1
(1.00)
CCND1 14 (6%) 234 0.625
(0.926) 		0.0652
(0.756) 		0.171
(0.756) 		0.567
(0.895) 		0.304
(0.781) 		0.757
(0.993) 		0.235
(0.766)
GNPTAB 20 (8%) 228 0.149
(0.756) 		0.324
(0.802) 		0.268
(0.775) 		0.464
(0.839) 		0.648
(0.936) 		0.501
(0.854) 		0.273
(0.775)
ARID5B 29 (12%) 219 0.801
(1.00) 		0.884
(1.00) 		0.011
(0.46) 		1
(1.00) 		0.111
(0.756) 		0.00268
(0.264) 		0.411
(0.826)
DNER 18 (7%) 230 0.539
(0.882) 		0.0325
(0.633) 		0.416
(0.826) 		0.442
(0.829) 		0.645
(0.936) 		0.102
(0.756) 		0.235
(0.766)
EP300 21 (8%) 227 0.133
(0.756) 		0.0984
(0.756) 		0.0663
(0.756) 		0.637
(0.929) 		1
(1.00) 		0.551
(0.882) 		0.0442
(0.687)
MAX 11 (4%) 237 0.904
(1.00) 		0.296
(0.775) 		0.349
(0.802) 		0.752
(0.993) 		0.405
(0.826) 		0.109
(0.756) 		1
(1.00)
SGK1 15 (6%) 233 0.916
(1.00) 		0.529
(0.879) 		0.47
(0.842) 		0.16
(0.756) 		0.1
(0.756) 		0.364
(0.806) 		1
(1.00)
NRAS 9 (4%) 239 0.209
(0.756) 		0.785
(1.00) 		1
(1.00) 		0.723
(0.986) 		1
(1.00) 		0.0423
(0.687) 		0.155
(0.756)
KLHL8 12 (5%) 236 0.269
(0.775) 		0.289
(0.775) 		0.29
(0.775) 		1
(1.00) 		0.227
(0.766) 		0.466
(0.84) 		0.176
(0.756)
MORC4 20 (8%) 228 0.103
(0.756) 		0.0146
(0.481) 		0.268
(0.775) 		1
(1.00) 		1
(1.00) 		0.736
(0.993) 		0.273
(0.775)
ZNF781 10 (4%) 238 0.344
(0.802) 		0.112
(0.756) 		0.337
(0.802) 		0.501
(0.854) 		0.491
(0.854) 		0.708
(0.98) 		0.134
(0.756)
MKI67 29 (12%) 219 0.198
(0.756) 		0.499
(0.854) 		0.0109
(0.46) 		0.836
(1.00) 		0.294
(0.775) 		0.188
(0.756) 		0.395
(0.826)
ING1 13 (5%) 235 0.308
(0.787) 		0.9
(1.00) 		0.3
(0.779) 		0.146
(0.756) 		0.843
(1.00) 		0.908
(1.00) 		1
(1.00)
INTS7 8 (3%) 240 0.272
(0.775) 		0.536
(0.882) 		0.436
(0.826) 		1
(1.00) 		0.548
(0.882) 		0.178
(0.756) 		0.113
(0.756)
CCDC6 6 (2%) 242 0.559
(0.889) 		0.749
(0.993) 		0.363
(0.806) 		1
(1.00) 		1
(1.00) 		0.534
(0.882) 		1
(1.00)
EIF2S2 9 (4%) 239 0.334
(0.802) 		0.384
(0.826) 		0.458
(0.834) 		0.169
(0.756) 		0.427
(0.826) 		0.226
(0.766) 		0.155
(0.756)
RBBP6 22 (9%) 226 0.418
(0.826) 		0.988
(1.00) 		0.0427
(0.687) 		1
(1.00) 		0.514
(0.869) 		0.282
(0.775) 		1
(1.00)
SOS1 12 (5%) 236 0.252
(0.772) 		0.108
(0.756) 		0.291
(0.775) 		0.757
(0.993) 		0.843
(1.00) 		0.894
(1.00) 		1
(1.00)
NAT1 7 (3%) 241 0.686
(0.963) 		0.983
(1.00) 		0.426
(0.826) 		1
(1.00) 		0.486
(0.854) 		0.199
(0.756) 		1
(1.00)
ADNP 14 (6%) 234 0.837
(1.00) 		0.794
(1.00) 		0.172
(0.756) 		1
(1.00) 		0.648
(0.936) 		0.908
(1.00) 		0.155
(0.756)
VPS11 12 (5%) 236 0.843
(1.00) 		0.915
(1.00) 		1
(1.00) 		0.551
(0.882) 		0.845
(1.00) 		0.362
(0.805) 		1
(1.00)
L1TD1 16 (6%) 232 0.201
(0.756) 		0.348
(0.802) 		0.119
(0.756) 		0.588
(0.897) 		0.886
(1.00) 		0.336
(0.802) 		0.235
(0.766)
MARK3 11 (4%) 237 0.85
(1.00) 		0.0516
(0.736) 		0.353
(0.802) 		1
(1.00) 		0.214
(0.756) 		0.325
(0.802) 		0.134
(0.756)
CTNND1 19 (8%) 229 0.797
(1.00) 		0.411
(0.826) 		0.427
(0.826) 		0.465
(0.839) 		0.426
(0.826) 		0.497
(0.854) 		1
(1.00)
GFAP 9 (4%) 239 0.426
(0.826) 		0.0727
(0.756) 		0.456
(0.834) 		1
(1.00) 		0.28
(0.775) 		0.351
(0.802) 		0.113
(0.756)
C9ORF102 16 (6%) 232 0.167
(0.756) 		0.318
(0.799) 		0.12
(0.756) 		0.588
(0.897) 		0.68
(0.963) 		0.334
(0.802) 		0.235
(0.766)
EIF4A2 7 (3%) 241 0.378
(0.824) 		0.205
(0.756) 		0.426
(0.826) 		0.427
(0.826) 		1
(1.00) 		0.177
(0.756) 		1
(1.00)
ZNF471 15 (6%) 233 0.746
(0.993) 		0.0355
(0.653) 		0.141
(0.756) 		0.587
(0.897) 		0.38
(0.824) 		0.0615
(0.756) 		0.235
(0.766)
CDK17 14 (6%) 234 0.58
(0.897) 		0.0852
(0.756) 		0.128
(0.756) 		0.776
(1.00) 		0.287
(0.775) 		0.359
(0.805) 		0.216
(0.756)
SIN3A 21 (8%) 227 0.366
(0.807) 		0.159
(0.756) 		0.278
(0.775) 		0.812
(1.00) 		0.9
(1.00) 		0.0975
(0.756) 		1
(1.00)
ZNF485 9 (4%) 239 0.785
(1.00) 		0.361
(0.805) 		0.457
(0.834) 		0.169
(0.756) 		0.0903
(0.756) 		0.227
(0.766) 		0.176
(0.756)
RSBN1L 12 (5%) 236 0.181
(0.756) 		0.291
(0.775) 		0.752
(0.993) 		1
(1.00) 		0.195
(0.756) 		0.00331
(0.278) 		0.196
(0.756)
CUX1 23 (9%) 225 0.406
(0.826) 		0.11
(0.756) 		0.172
(0.756) 		0.365
(0.806) 		0.829
(1.00) 		0.609
(0.911) 		1
(1.00)
BCOR 30 (12%) 218 0.0583
(0.756) 		0.0735
(0.756) 		0.00843
(0.447) 		1
(1.00) 		0.379
(0.824) 		0.0295
(0.623) 		1
(1.00)
WDR45 11 (4%) 237 0.937
(1.00) 		0.551
(0.882) 		0.351
(0.802) 		0.521
(0.871) 		0.546
(0.882) 		0.0421
(0.687) 		1
(1.00)
CAB39L 8 (3%) 240 0.294
(0.775) 		0.789
(1.00) 		0.437
(0.826) 		0.268
(0.775) 		0.55
(0.882) 		0.00918
(0.452) 		1
(1.00)
TAB3 18 (7%) 230 0.128
(0.756) 		0.0402
(0.687) 		0.0862
(0.756) 		0.614
(0.914) 		0.296
(0.775) 		0.0309
(0.623) 		0.31
(0.787)
OAZ3 8 (3%) 240 0.319
(0.799) 		0.165
(0.756) 		1
(1.00) 		0.454
(0.834) 		0.547
(0.882) 		0.109
(0.756) 		0.113
(0.756)
AHCYL1 6 (2%) 242 0.426
(0.826) 		0.0311
(0.623) 		0.632
(0.929) 		1
(1.00) 		0.416
(0.826) 		0.171
(0.756) 		0.0689
(0.756)
ATM 29 (12%) 219 0.0425
(0.687) 		0.265
(0.775) 		0.0753
(0.756) 		0.534
(0.882) 		0.904
(1.00) 		0.222
(0.761) 		0.378
(0.824)
MSH4 15 (6%) 233 0.186
(0.756) 		0.155
(0.756) 		0.141
(0.756) 		1
(1.00) 		0.649
(0.936) 		0.0705
(0.756) 		0.216
(0.756)
FAM65B 16 (6%) 232 0.175
(0.756) 		0.049
(0.725) 		0.479
(0.853) 		0.792
(1.00) 		0.778
(1.00) 		0.251
(0.772) 		0.216
(0.756)
FN1 24 (10%) 224 0.383
(0.826) 		0.714
(0.983) 		0.0216
(0.551) 		1
(1.00) 		0.568
(0.895) 		0.777
(1.00) 		0.345
(0.802)
JAKMIP2 12 (5%) 236 0.724
(0.986) 		0.0301
(0.623) 		0.289
(0.775) 		1
(1.00) 		0.275
(0.775) 		0.0294
(0.623) 		0.155
(0.756)
WBP4 8 (3%) 240 0.462
(0.839) 		0.133
(0.756) 		0.436
(0.826) 		0.718
(0.983) 		1
(1.00) 		1
(1.00) 		1
(1.00)
RASA1 22 (9%) 226 0.0855
(0.756) 		0.745
(0.993) 		0.575
(0.896) 		0.493
(0.854) 		1
(1.00) 		0.0929
(0.756) 		0.0442
(0.687)
ALPK2 19 (8%) 229 0.0894
(0.756) 		0.233
(0.766) 		0.43
(0.826) 		0.315
(0.796) 		0.255
(0.772) 		0.127
(0.756) 		0.255
(0.772)
POLE 27 (11%) 221 0.611
(0.911) 		0.552
(0.882) 		0.127
(0.756) 		0.199
(0.756) 		0.457
(0.834) 		0.37
(0.812) 		0.362
(0.805)
KIF20B 21 (8%) 227 0.143
(0.756) 		0.142
(0.756) 		0.0645
(0.756) 		0.637
(0.929) 		0.913
(1.00) 		0.552
(0.882) 		0.255
(0.772)
C14ORF166B 10 (4%) 238 0.285
(0.775) 		0.903
(1.00) 		0.335
(0.802) 		0.172
(0.756) 		1
(1.00) 		0.12
(0.756) 		1
(1.00)
SLC26A8 12 (5%) 236 0.298
(0.778) 		0.0329
(0.633) 		0.287
(0.775) 		0.551
(0.882) 		0.7
(0.975) 		0.406
(0.826) 		0.196
(0.756)
ZNF334 17 (7%) 231 0.819
(1.00) 		0.00468
(0.358) 		0.809
(1.00) 		1
(1.00) 		0.68
(0.963) 		0.734
(0.992) 		0.255
(0.772)
RRAS2 4 (2%) 244 0.637
(0.929) 		0.0213
(0.551) 		1
(1.00) 		0.611
(0.911) 		0.437
(0.826) 		1
(1.00) 		1
(1.00)
PPM1N 7 (3%) 241 0.346
(0.802) 		0.981
(1.00) 		0.426
(0.826) 		1
(1.00) 		0.426
(0.826) 		0.428
(0.826) 		0.113
(0.756)
FCN1 8 (3%) 240 0.824
(1.00) 		0.627
(0.928) 		0.438
(0.826) 		0.718
(0.983) 		1
(1.00) 		0.168
(0.756) 		1
(1.00)
TIAL1 10 (4%) 238 0.322
(0.802) 		0.272
(0.775) 		0.337
(0.802) 		1
(1.00) 		0.604
(0.908) 		0.156
(0.756) 		1
(1.00)
PSMC4 11 (4%) 237 0.252
(0.772) 		0.831
(1.00) 		0.352
(0.802) 		0.521
(0.871) 		0.857
(1.00) 		0.15
(0.756) 		1
(1.00)
MFAP5 9 (4%) 239 0.358
(0.805) 		0.0104
(0.46) 		1
(1.00) 		1
(1.00) 		0.547
(0.882) 		0.569
(0.895) 		0.134
(0.756)
RAB3GAP1 16 (6%) 232 0.771
(1.00) 		0.466
(0.84) 		0.12
(0.756) 		1
(1.00) 		0.193
(0.756) 		0.186
(0.756) 		0.011
(0.46)
MSH6 17 (7%) 231 0.533
(0.882) 		0.124
(0.756) 		0.492
(0.854) 		0.296
(0.775) 		0.679
(0.963) 		0.576
(0.896) 		0.216
(0.756)
BMP2K 13 (5%) 235 0.318
(0.799) 		0.904
(1.00) 		0.302
(0.779) 		0.551
(0.882) 		0.703
(0.976) 		0.732
(0.991) 		0.196
(0.756)
ZNF606 16 (6%) 232 0.196
(0.756) 		0.446
(0.834) 		0.12
(0.756) 		0.588
(0.897) 		0.515
(0.869) 		0.13
(0.756) 		0.0211
(0.551)
ZNF263 7 (3%) 241 0.364
(0.806) 		0.0566
(0.756) 		0.426
(0.826) 		1
(1.00) 		0.209
(0.756) 		0.355
(0.802) 		0.0689
(0.756)
CHEK2 13 (5%) 235 0.709
(0.98) 		0.0191
(0.528) 		0.575
(0.896) 		1
(1.00) 		0.207
(0.756) 		0.479
(0.853) 		0.176
(0.756)
MGA 26 (10%) 222 0.708
(0.98) 		0.67
(0.956) 		0.35
(0.802) 		0.392
(0.826) 		0.154
(0.756) 		0.355
(0.802) 		0.292
(0.775)
RHBDD3 4 (2%) 244 0.546
(0.882) 		0.128
(0.756) 		1
(1.00) 		0.611
(0.911) 		1
(1.00) 		1
(1.00) 		1
(1.00)
TAP1 8 (3%) 240 0.86
(1.00) 		0.942
(1.00) 		0.438
(0.826) 		1
(1.00) 		1
(1.00) 		0.404
(0.826) 		1
(1.00)
RB1 20 (8%) 228 0.333
(0.802) 		0.124
(0.756) 		0.0685
(0.756) 		0.464
(0.839) 		0.93
(1.00) 		0.0784
(0.756) 		1
(1.00)
SLC1A3 12 (5%) 236 0.768
(1.00) 		0.755
(0.993) 		1
(1.00) 		1
(1.00) 		0.656
(0.943) 		0.00814
(0.447) 		1
(1.00)
ATAD5 17 (7%) 231 0.154
(0.756) 		0.252
(0.772) 		0.49
(0.854) 		1
(1.00) 		0.793
(1.00) 		0.101
(0.756) 		1
(1.00)
ALG8 10 (4%) 238 0.292
(0.775) 		0.854
(1.00) 		0.336
(0.802) 		0.501
(0.854) 		0.549
(0.882) 		0.327
(0.802) 		0.0141
(0.481)
TIGD4 13 (5%) 235 0.218
(0.756) 		0.0517
(0.736) 		0.305
(0.781) 		0.771
(1.00) 		0.682
(0.963) 		0.48
(0.853) 		0.216
(0.756)
PARG 9 (4%) 239 0.312
(0.789) 		0.554
(0.882) 		0.459
(0.834) 		1
(1.00) 		1
(1.00) 		0.712
(0.981) 		1
(1.00)
FAT1 40 (16%) 208 0.0305
(0.623) 		0.875
(1.00) 		0.0443
(0.687) 		0.279
(0.775) 		0.802
(1.00) 		0.408
(0.826) 		0.118
(0.756)
DYM 10 (4%) 238 0.37
(0.812) 		0.732
(0.991) 		0.74
(0.993) 		0.742
(0.993) 		1
(1.00) 		0.586
(0.897) 		1
(1.00)
PSMD3 11 (4%) 237 0.253
(0.772) 		0.373
(0.816) 		0.746
(0.993) 		1
(1.00) 		1
(1.00) 		0.402
(0.826) 		1
(1.00)
PPM1D 11 (4%) 237 0.234
(0.766) 		0.351
(0.802) 		0.351
(0.802) 		0.339
(0.802) 		0.605
(0.908) 		0.254
(0.772) 		0.155
(0.756)
ZMYM2 17 (7%) 231 0.171
(0.756) 		0.0287
(0.623) 		0.102
(0.756) 		1
(1.00) 		0.56
(0.889) 		0.278
(0.775) 		1
(1.00)
INPP4B 12 (5%) 236 0.586
(0.897) 		0.178
(0.756) 		0.29
(0.775) 		0.0621
(0.756) 		0.207
(0.756) 		0.145
(0.756) 		0.196
(0.756)
USP28 10 (4%) 238 0.228
(0.766) 		0.502
(0.854) 		0.334
(0.802) 		0.501
(0.854) 		0.79
(1.00) 		0.352
(0.802) 		1
(1.00)
EMR1 13 (5%) 235 0.235
(0.766) 		0.127
(0.756) 		0.301
(0.779) 		0.551
(0.882) 		0.701
(0.975) 		0.389
(0.826) 		0.176
(0.756)
ZNF385B 7 (3%) 241 0.419
(0.826) 		0.204
(0.756) 		0.428
(0.826) 		1
(1.00) 		1
(1.00) 		0.501
(0.854) 		1
(1.00)
RAE1 11 (4%) 237 0.221
(0.761) 		0.729
(0.989) 		0.745
(0.993) 		0.339
(0.802) 		1
(1.00) 		0.321
(0.802) 		1
(1.00)
TRIM59 9 (4%) 239 0.283
(0.775) 		0.876
(1.00) 		0.454
(0.834) 		1
(1.00) 		1
(1.00) 		0.0396
(0.687) 		1
(1.00)
ZNF721 13 (5%) 235 0.263
(0.775) 		0.0494
(0.725) 		0.302
(0.779) 		0.551
(0.882) 		0.646
(0.936) 		0.187
(0.756) 		0.196
(0.756)
MCTP1 13 (5%) 235 0.238
(0.769) 		0.0153
(0.485) 		0.576
(0.896) 		0.382
(0.826) 		0.647
(0.936) 		0.482
(0.854) 		0.196
(0.756)
ZNF774 10 (4%) 238 0.36
(0.805) 		0.581
(0.897) 		0.741
(0.993) 		1
(1.00) 		0.606
(0.908) 		0.711
(0.981) 		0.134
(0.756)
FAM9A 14 (6%) 234 0.337
(0.802) 		0.836
(1.00) 		0.433
(0.826) 		0.567
(0.895) 		0.842
(1.00) 		0.683
(0.963) 		1
(1.00)
CFP 8 (3%) 240 0.0127
(0.472) 		0.932
(1.00) 		0.435
(0.826) 		1
(1.00) 		0.211
(0.756) 		0.353
(0.802) 		1
(1.00)
PER3 12 (5%) 236 0.273
(0.775) 		0.521
(0.871) 		0.287
(0.775) 		1
(1.00) 		1
(1.00) 		0.56
(0.889) 		1
(1.00)
ZRANB3 8 (3%) 240 0.257
(0.772) 		0.918
(1.00) 		1
(1.00) 		0.454
(0.834) 		1
(1.00) 		0.273
(0.775) 		1
(1.00)
OMA1 10 (4%) 238 0.35
(0.802) 		0.09
(0.756) 		0.334
(0.802) 		0.172
(0.756) 		0.547
(0.882) 		0.274
(0.775) 		0.134
(0.756)
CLDN15 5 (2%) 243 0.55
(0.882) 		0.327
(0.802) 		0.619
(0.92) 		0.661
(0.949) 		0.416
(0.826) 		0.265
(0.775) 		0.113
(0.756)
TTC39C 7 (3%) 241 0.343
(0.802) 		0.344
(0.802) 		0.428
(0.826) 		1
(1.00) 		1
(1.00) 		0.597
(0.907) 		1
(1.00)
TXNRD1 8 (3%) 240 0.296
(0.775) 		0.632
(0.929) 		0.439
(0.827) 		0.718
(0.983) 		0.361
(0.805) 		0.825
(1.00) 		1
(1.00)
MECOM 12 (5%) 236 0.198
(0.756) 		0.0117
(0.46) 		0.286
(0.775) 		1
(1.00) 		1
(1.00) 		0.811
(1.00) 		1
(1.00)
CCDC147 15 (6%) 233 0.2
(0.756) 		0.0312
(0.623) 		0.47
(0.842) 		1
(1.00) 		0.684
(0.963) 		0.28
(0.775) 		0.196
(0.756)
SACS 26 (10%) 222 0.0694
(0.756) 		0.855
(1.00) 		0.12
(0.756) 		1
(1.00) 		0.709
(0.98) 		0.0494
(0.725) 		0.00311
(0.278)
MUTED 7 (3%) 241 0.352
(0.802) 		0.748
(0.993) 		0.427
(0.826) 		1
(1.00) 		1
(1.00) 		0.0962
(0.756) 		1
(1.00)
SLC44A3 6 (2%) 242 0.469
(0.842) 		0.0571
(0.756) 		0.634
(0.929) 		1
(1.00) 		0.62
(0.92) 		0.424
(0.826) 		1
(1.00)
ZNF674 14 (6%) 234 0.162
(0.756) 		0.101
(0.756) 		0.588
(0.897) 		0.567
(0.895) 		0.532
(0.882) 		0.196
(0.756) 		1
(1.00)
CCDC144A 18 (7%) 230 0.516
(0.869) 		0.128
(0.756) 		0.661
(0.949) 		0.614
(0.914) 		0.346
(0.802) 		0.036
(0.653) 		0.255
(0.772)
OR8B8 7 (3%) 241 0.425
(0.826) 		0.0145
(0.481) 		0.429
(0.826) 		0.427
(0.826) 		0.414
(0.826) 		0.288
(0.775) 		0.113
(0.756)
LNX2 14 (6%) 234 0.215
(0.756) 		0.843
(1.00) 		0.171
(0.756) 		0.147
(0.756) 		0.875
(1.00) 		0.184
(0.756) 		0.235
(0.766)
TMEM62 9 (4%) 239 0.343
(0.802) 		0.506
(0.857) 		0.457
(0.834) 		0.723
(0.986) 		0.602
(0.908) 		0.355
(0.802) 		0.155
(0.756)
ATF7IP 17 (7%) 231 0.135
(0.756) 		0.195
(0.756) 		0.0991
(0.756) 		0.431
(0.826) 		0.887
(1.00) 		0.699
(0.975) 		0.255
(0.772)
IL20 7 (3%) 241 0.338
(0.802) 		0.169
(0.756) 		0.426
(0.826) 		0.24
(0.77) 		0.132
(0.756) 		0.0136
(0.481) 		0.0911
(0.756)
C3AR1 8 (3%) 240 0.254
(0.772) 		0.878
(1.00) 		0.438
(0.826) 		1
(1.00) 		0.605
(0.908) 		0.179
(0.756) 		0.134
(0.756)
PKD2 8 (3%) 240 0.37
(0.812) 		0.154
(0.756) 		0.436
(0.826) 		0.268
(0.775) 		0.548
(0.882) 		0.347
(0.802) 		0.134
(0.756)
BMP5 13 (5%) 235 0.174
(0.756) 		0.146
(0.756) 		0.573
(0.896) 		0.551
(0.882) 		0.649
(0.936) 		0.0436
(0.687) 		0.216
(0.756)
OR52I2 8 (3%) 240 0.999
(1.00) 		0.679
(0.963) 		0.157
(0.756) 		0.454
(0.834) 		0.788
(1.00) 		0.35
(0.802) 		1
(1.00)
C1ORF100 9 (4%) 239 0.277
(0.775) 		0.139
(0.756) 		0.454
(0.834) 		0.502
(0.854) 		0.482
(0.854) 		0.352
(0.802) 		0.0911
(0.756)
CCDC160 11 (4%) 237 0.224
(0.766) 		0.204
(0.756) 		0.354
(0.802) 		1
(1.00) 		0.843
(1.00) 		0.401
(0.826) 		1
(1.00)
NAA15 14 (6%) 234 0.587
(0.897) 		0.991
(1.00) 		0.586
(0.897) 		0.252
(0.772) 		0.874
(1.00) 		0.232
(0.766) 		0.196
(0.756)
RNF31 17 (7%) 231 0.218
(0.756) 		0.692
(0.969) 		0.807
(1.00) 		0.602
(0.908) 		0.258
(0.772) 		0.138
(0.756) 		0.216
(0.756)
NFE2L3 12 (5%) 236 0.254
(0.772) 		0.781
(1.00) 		0.216
(0.756) 		0.117
(0.756) 		0.424
(0.826) 		0.206
(0.756) 		1
(1.00)
ZKSCAN1 7 (3%) 241 0.41
(0.826) 		0.968
(1.00) 		1
(1.00) 		0.696
(0.973) 		0.742
(0.993) 		0.599
(0.907) 		1
(1.00)
CDKL1 7 (3%) 241 0.427
(0.826) 		0.0112
(0.46) 		0.427
(0.826) 		1
(1.00) 		0.427
(0.826) 		0.0747
(0.756) 		0.113
(0.756)
ERBB3 17 (7%) 231 0.185
(0.756) 		0.598
(0.907) 		0.491
(0.854) 		0.602
(0.908) 		0.292
(0.775) 		0.0904
(0.756) 		1
(1.00)
SELP 9 (4%) 239 0.983
(1.00) 		0.105
(0.756) 		0.456
(0.834) 		1
(1.00) 		0.212
(0.756) 		0.06
(0.756) 		0.134
(0.756)
PPIG 16 (6%) 232 0.256
(0.772) 		0.0726
(0.756) 		0.119
(0.756) 		0.187
(0.756) 		0.913
(1.00) 		0.931
(1.00) 		0.235
(0.766)
GPRASP1 21 (8%) 227 0.144
(0.756) 		0.17
(0.756) 		0.275
(0.775) 		0.812
(1.00) 		0.643
(0.936) 		0.675
(0.96) 		0.273
(0.775)
REV3L 20 (8%) 228 0.121
(0.756) 		0.503
(0.854) 		0.0683
(0.756) 		0.464
(0.839) 		1
(1.00) 		0.152
(0.756) 		0.273
(0.775)
CTNNA1 13 (5%) 235 0.203
(0.756) 		0.428
(0.826) 		0.573
(0.896) 		0.771
(1.00) 		0.416
(0.826) 		0.0306
(0.623) 		1
(1.00)
MRPL47 6 (2%) 242 0.487
(0.854) 		0.92
(1.00) 		1
(1.00) 		0.421
(0.826) 		0.481
(0.854) 		1
(1.00) 		0.0911
(0.756)
DEPDC1B 11 (4%) 237 0.992
(1.00) 		0.592
(0.902) 		0.745
(0.993) 		0.521
(0.871) 		0.193
(0.756) 		0.049
(0.725) 		1
(1.00)
CASP8 17 (7%) 231 0.561
(0.889) 		0.748
(0.993) 		0.489
(0.854) 		1
(1.00) 		0.545
(0.882) 		0.028
(0.623) 		0.0295
(0.623)
CACNB4 10 (4%) 238 0.353
(0.802) 		0.19
(0.756) 		0.336
(0.802) 		0.501
(0.854) 		0.492
(0.854) 		0.112
(0.756) 		1
(1.00)
BHLHB9 8 (3%) 240 0.388
(0.826) 		0.398
(0.826) 		0.436
(0.826) 		1
(1.00) 		0.743
(0.993) 		0.404
(0.826) 		1
(1.00)
C22ORF25 6 (2%) 242 0.495
(0.854) 		0.984
(1.00) 		0.636
(0.929) 		0.0201
(0.544) 		0.675
(0.96) 		0.0689
(0.756)
GALNT7 11 (4%) 237 0.684
(0.963) 		0.435
(0.826) 		0.744
(0.993) 		0.103
(0.756) 		0.0243
(0.588) 		0.0167
(0.5) 		0.176
(0.756)
LGMN 7 (3%) 241 0.0572
(0.756) 		0.987
(1.00) 		0.427
(0.826) 		0.24
(0.77) 		0.288
(0.775) 		1
(1.00) 		1
(1.00)
EPS8 12 (5%) 236 0.927
(1.00) 		0.124
(0.756) 		0.751
(0.993) 		1
(1.00) 		0.702
(0.975) 		0.403
(0.826) 		0.196
(0.756)
TGOLN2 3 (1%) 245 0.575
(0.896) 		0.0514
(0.736) 		1
(1.00) 		0.553
(0.882) 		1
(1.00) 		1
(1.00) 		1
(1.00)
TPX2 6 (2%) 242 0.567
(0.895) 		0.0114
(0.46) 		0.635
(0.929) 		1
(1.00) 		0.141
(0.756) 		0.672
(0.957) 		0.0689
(0.756)
C14ORF118 15 (6%) 233 0.237
(0.768) 		0.0161
(0.492) 		0.141
(0.756) 		0.587
(0.897) 		0.872
(1.00) 		0.502
(0.854) 		0.196
(0.756)
SLC34A3 6 (2%) 242 0.445
(0.834) 		0.108
(0.756) 		0.633
(0.929) 		0.421
(0.826) 		1
(1.00) 		0.233
(0.766) 		1
(1.00)
ZNF662 13 (5%) 235 0.221
(0.761) 		0.493
(0.854) 		0.574
(0.896) 		0.771
(1.00) 		0.645
(0.936) 		0.278
(0.775) 		0.176
(0.756)
ZDBF2 18 (7%) 230 0.159
(0.756) 		0.186
(0.756) 		0.0856
(0.756) 		0.311
(0.787) 		0.763
(0.999) 		0.725
(0.987) 		0.255
(0.772)
SFRP4 8 (3%) 240 0.317
(0.799) 		0.124
(0.756) 		0.437
(0.826) 		1
(1.00) 		0.428
(0.826) 		0.346
(0.802) 		0.113
(0.756)
CCDC146 14 (6%) 234 0.217
(0.756) 		0.033
(0.633) 		0.173
(0.756) 		0.391
(0.826) 		0.646
(0.936) 		0.229
(0.766) 		0.196
(0.756)
C7ORF60 10 (4%) 238 0.302
(0.779) 		0.172
(0.756) 		0.337
(0.802) 		0.322
(0.802) 		0.605
(0.908) 		1
(1.00) 		0.155
(0.756)
ZNF649 14 (6%) 234 0.233
(0.766) 		0.185
(0.756) 		0.173
(0.756) 		0.776
(1.00) 		0.875
(1.00) 		0.909
(1.00) 		0.196
(0.756)
RASSF9 9 (4%) 239 0.264
(0.775) 		0.0134
(0.481) 		0.458
(0.834) 		0.723
(0.986) 		0.603
(0.908) 		0.167
(0.756) 		0.134
(0.756)
NIPA2 8 (3%) 240 0.35
(0.802) 		0.986
(1.00) 		1
(1.00) 		0.718
(0.983) 		1
(1.00) 		0.0338
(0.638) 		1
(1.00)
FILIP1 16 (6%) 232 0.149
(0.756) 		0.596
(0.906) 		0.48
(0.853) 		0.187
(0.756) 		0.682
(0.963) 		0.802
(1.00) 		0.176
(0.756)
PHKA2 16 (6%) 232 0.152
(0.756) 		0.538
(0.882) 		0.479
(0.853) 		0.792
(1.00) 		0.795
(1.00) 		0.0806
(0.756) 		1
(1.00)
COBLL1 15 (6%) 233 0.207
(0.756) 		0.979
(1.00) 		0.139
(0.756) 		0.587
(0.897) 		0.372
(0.814) 		0.503
(0.854) 		0.216
(0.756)
AGPAT9 8 (3%) 240 0.295
(0.775) 		0.63
(0.929) 		0.435
(0.826) 		0.0535
(0.752) 		0.278
(0.775) 		0.176
(0.756) 		0.134
(0.756)
NOP56 11 (4%) 237 0.248
(0.772) 		0.137
(0.756) 		0.352
(0.802) 		0.752
(0.993) 		0.829
(1.00) 		0.398
(0.826) 		1
(1.00)
RBL2 12 (5%) 236 0.766
(1.00) 		0.211
(0.756) 		0.287
(0.775) 		1
(1.00) 		0.193
(0.756) 		0.152
(0.756) 		0.196
(0.756)
ABCC6 12 (5%) 236 0.476
(0.852) 		0.545
(0.882) 		0.0583
(0.756) 		0.117
(0.756) 		0.287
(0.775) 		0.876
(1.00) 		0.176
(0.756)
CCDC104 10 (4%) 238 0.284
(0.775) 		0.0971
(0.756) 		0.337
(0.802) 		0.501
(0.854) 		1
(1.00) 		0.585
(0.897) 		1
(1.00)
MLL2 33 (13%) 215 0.0883
(0.756) 		0.55
(0.882) 		0.146
(0.756) 		1
(1.00) 		0.867
(1.00) 		0.092
(0.756) 		0.442
(0.829)
SSH2 12 (5%) 236 0.239
(0.769) 		0.208
(0.756) 		0.753
(0.993) 		0.757
(0.993) 		0.686
(0.963) 		0.00772
(0.447) 		0.0174
(0.511)
ZNF709 12 (5%) 236 0.206
(0.756) 		0.246
(0.772) 		0.287
(0.775) 		1
(1.00) 		0.705
(0.978) 		0.15
(0.756) 		0.155
(0.756)
BRDT 14 (6%) 234 0.213
(0.756) 		0.0842
(0.756) 		0.171
(0.756) 		0.391
(0.826) 		0.648
(0.936) 		0.185
(0.756) 		0.196
(0.756)
SH3BGRL 6 (2%) 242 0.391
(0.826) 		0.26
(0.775) 		0.634
(0.929) 		0.668
(0.956) 		1
(1.00) 		0.029
(0.623) 		1
(1.00)
MLH3 17 (7%) 231 0.668
(0.956) 		0.00875
(0.447) 		0.491
(0.854) 		1
(1.00) 		0.257
(0.772) 		0.174
(0.756) 		0.255
(0.772)
CCDC150 12 (5%) 236 0.273
(0.775) 		0.931
(1.00) 		0.756
(0.993) 		1
(1.00) 		0.858
(1.00) 		0.894
(1.00) 		1
(1.00)
NT5C3 7 (3%) 241 0.321
(0.802) 		0.506
(0.857) 		0.425
(0.826) 		0.696
(0.973) 		0.549
(0.882) 		0.128
(0.756) 		0.113
(0.756)
APAF1 13 (5%) 235 0.635
(0.929) 		0.44
(0.827) 		0.301
(0.779) 		0.551
(0.882) 		0.206
(0.756) 		0.158
(0.756) 		0.176
(0.756)
KANK4 11 (4%) 237 0.902
(1.00) 		0.043
(0.687) 		0.744
(0.993) 		0.521
(0.871) 		1
(1.00) 		0.516
(0.869) 		1
(1.00)
NRIP1 13 (5%) 235 0.244
(0.772) 		0.117
(0.756) 		0.576
(0.896) 		1
(1.00) 		0.422
(0.826) 		0.36
(0.805) 		1
(1.00)
GTF2H1 8 (3%) 240 0.351
(0.802) 		0.946
(1.00) 		0.435
(0.826) 		0.718
(0.983) 		0.548
(0.882) 		0.5
(0.854) 		0.134
(0.756)
ASXL2 14 (6%) 234 0.208
(0.756) 		0.381
(0.824) 		0.584
(0.897) 		1
(1.00) 		0.221
(0.761) 		0.524
(0.874) 		0.176
(0.756)
ZNF611 12 (5%) 236 0.913
(1.00) 		0.244
(0.772) 		0.291
(0.775) 		1
(1.00) 		0.205
(0.756) 		0.206
(0.756) 		0.196
(0.756)
SUN3 6 (2%) 242 0.426
(0.826) 		0.0127
(0.472) 		0.633
(0.929) 		1
(1.00) 		0.416
(0.826) 		0.202
(0.756) 		0.00244
(0.259)
ZNF195 11 (4%) 237 0.283
(0.775) 		0.023
(0.566) 		0.355
(0.802) 		0.752
(0.993) 		0.656
(0.943) 		0.119
(0.756) 		0.176
(0.756)
EXOSC9 10 (4%) 238 0.288
(0.775) 		0.78
(1.00) 		0.334
(0.802) 		1
(1.00) 		0.603
(0.908) 		0.412
(0.826) 		0.155
(0.756)
MFN2 9 (4%) 239 0.402
(0.826) 		0.357
(0.804) 		0.454
(0.834) 		0.502
(0.854) 		1
(1.00) 		0.483
(0.854) 		0.134
(0.756)
LIMA1 8 (3%) 240 0.407
(0.826) 		0.888
(1.00) 		0.437
(0.826) 		0.718
(0.983) 		1
(1.00) 		0.662
(0.949) 		1
(1.00)
PTPN12 10 (4%) 238 0.907
(1.00) 		0.829
(1.00) 		0.337
(0.802) 		0.501
(0.854) 		0.606
(0.908) 		0.232
(0.766) 		0.155
(0.756)
MTF2 9 (4%) 239 0.369
(0.812) 		0.0734
(0.756) 		0.456
(0.834) 		1
(1.00) 		1
(1.00) 		0.191
(0.756) 		1
(1.00)
MLL4 30 (12%) 218 0.0597
(0.756) 		0.245
(0.772) 		0.0425
(0.687) 		0.839
(1.00) 		0.651
(0.939) 		0.295
(0.775) 		0.427
(0.826)
C1ORF101 12 (5%) 236 0.258
(0.772) 		0.0191
(0.528) 		0.287
(0.775) 		1
(1.00) 		0.742
(0.993) 		0.149
(0.756) 		0.196
(0.756)
MBOAT2 7 (3%) 241 0.394
(0.826) 		0.0885
(0.756) 		1
(1.00) 		1
(1.00) 		1
(1.00) 		0.291
(0.775) 		1
(1.00)
CHD4 35 (14%) 213 0.428
(0.826) 		0.425
(0.826) 		0.453
(0.834) 		0.45
(0.834) 		1
(1.00) 		0.736
(0.993) 		1
(1.00)
SESN3 13 (5%) 235 0.219
(0.758) 		0.468
(0.842) 		0.304
(0.781) 		0.771
(1.00) 		0.7
(0.975) 		0.896
(1.00) 		0.196
(0.756)
'PTEN MUTATION STATUS' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0028

Table S1.  Gene #1: 'PTEN MUTATION STATUS' versus Clinical Feature #3: 'HISTOLOGICAL_TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 200 4 44
PTEN MUTATED 159 1 1
PTEN WILD-TYPE 41 3 43

Figure S1.  Get High-res Image Gene #1: 'PTEN MUTATION STATUS' versus Clinical Feature #3: 'HISTOLOGICAL_TYPE'

'PTEN MUTATION STATUS' versus 'RACE'

P value = 0.00063 (Fisher's exact test), Q value = 0.072

Table S2.  Gene #1: 'PTEN MUTATION STATUS' versus Clinical Feature #6: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER WHITE
ALL 3 13 25 7 193
PTEN MUTATED 3 10 7 4 133
PTEN WILD-TYPE 0 3 18 3 60

Figure S2.  Get High-res Image Gene #1: 'PTEN MUTATION STATUS' versus Clinical Feature #6: 'RACE'

'PIK3R1 MUTATION STATUS' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0028

Table S3.  Gene #2: 'PIK3R1 MUTATION STATUS' versus Clinical Feature #3: 'HISTOLOGICAL_TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 200 4 44
PIK3R1 MUTATED 80 1 2
PIK3R1 WILD-TYPE 120 3 42

Figure S3.  Get High-res Image Gene #2: 'PIK3R1 MUTATION STATUS' versus Clinical Feature #3: 'HISTOLOGICAL_TYPE'

'TP53 MUTATION STATUS' versus 'YEARS_TO_BIRTH'

P value = 5.85e-06 (Wilcoxon-test), Q value = 0.0028

Table S4.  Gene #3: 'TP53 MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 248 63.1 (11.1)
TP53 MUTATED 69 67.9 (9.4)
TP53 WILD-TYPE 179 61.3 (11.2)

Figure S4.  Get High-res Image Gene #3: 'TP53 MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'TP53 MUTATION STATUS' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0028

Table S5.  Gene #3: 'TP53 MUTATION STATUS' versus Clinical Feature #3: 'HISTOLOGICAL_TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 200 4 44
TP53 MUTATED 27 3 39
TP53 WILD-TYPE 173 1 5

Figure S5.  Get High-res Image Gene #3: 'TP53 MUTATION STATUS' versus Clinical Feature #3: 'HISTOLOGICAL_TYPE'

'CTCF MUTATION STATUS' versus 'HISTOLOGICAL_TYPE'

P value = 0.00017 (Fisher's exact test), Q value = 0.033

Table S6.  Gene #4: 'CTCF MUTATION STATUS' versus Clinical Feature #3: 'HISTOLOGICAL_TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 200 4 44
CTCF MUTATED 44 0 0
CTCF WILD-TYPE 156 4 44

Figure S6.  Get High-res Image Gene #4: 'CTCF MUTATION STATUS' versus Clinical Feature #3: 'HISTOLOGICAL_TYPE'

'KRAS MUTATION STATUS' versus 'YEARS_TO_BIRTH'

P value = 0.000544 (Wilcoxon-test), Q value = 0.068

Table S7.  Gene #6: 'KRAS MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 248 63.1 (11.1)
KRAS MUTATED 53 58.8 (8.7)
KRAS WILD-TYPE 195 64.3 (11.4)

Figure S7.  Get High-res Image Gene #6: 'KRAS MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'KRAS MUTATION STATUS' versus 'HISTOLOGICAL_TYPE'

P value = 0.00022 (Fisher's exact test), Q value = 0.038

Table S8.  Gene #6: 'KRAS MUTATION STATUS' versus Clinical Feature #3: 'HISTOLOGICAL_TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 200 4 44
KRAS MUTATED 52 0 1
KRAS WILD-TYPE 148 4 43

Figure S8.  Get High-res Image Gene #6: 'KRAS MUTATION STATUS' versus Clinical Feature #3: 'HISTOLOGICAL_TYPE'

'ARID1A MUTATION STATUS' versus 'HISTOLOGICAL_TYPE'

P value = 9e-05 (Fisher's exact test), Q value = 0.021

Table S9.  Gene #9: 'ARID1A MUTATION STATUS' versus Clinical Feature #3: 'HISTOLOGICAL_TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 200 4 44
ARID1A MUTATED 78 1 4
ARID1A WILD-TYPE 122 3 40

Figure S9.  Get High-res Image Gene #9: 'ARID1A MUTATION STATUS' versus Clinical Feature #3: 'HISTOLOGICAL_TYPE'

'CTNNB1 MUTATION STATUS' versus 'YEARS_TO_BIRTH'

P value = 0.000515 (Wilcoxon-test), Q value = 0.068

Table S10.  Gene #10: 'CTNNB1 MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 248 63.1 (11.1)
CTNNB1 MUTATED 74 59.6 (11.6)
CTNNB1 WILD-TYPE 174 64.6 (10.6)

Figure S10.  Get High-res Image Gene #10: 'CTNNB1 MUTATION STATUS' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'CTNNB1 MUTATION STATUS' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0028

Table S11.  Gene #10: 'CTNNB1 MUTATION STATUS' versus Clinical Feature #3: 'HISTOLOGICAL_TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 200 4 44
CTNNB1 MUTATED 74 0 0
CTNNB1 WILD-TYPE 126 4 44

Figure S11.  Get High-res Image Gene #10: 'CTNNB1 MUTATION STATUS' versus Clinical Feature #3: 'HISTOLOGICAL_TYPE'

'PPP2R1A MUTATION STATUS' versus 'HISTOLOGICAL_TYPE'

P value = 0.00042 (Fisher's exact test), Q value = 0.064

Table S12.  Gene #43: 'PPP2R1A MUTATION STATUS' versus Clinical Feature #3: 'HISTOLOGICAL_TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 200 4 44
PPP2R1A MUTATED 14 1 12
PPP2R1A WILD-TYPE 186 3 32

Figure S12.  Get High-res Image Gene #43: 'PPP2R1A MUTATION STATUS' versus Clinical Feature #3: 'HISTOLOGICAL_TYPE'

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/UCEC-TP/15165175/transformed.cor.cli.txt

  • Clinical data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/UCEC-TP/15094079/UCEC-TP.merged_data.txt

  • Number of patients = 248

  • Number of significantly mutated genes = 197

  • Number of selected clinical features = 7

  • 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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