Correlation between copy number variation genes (focal events) and selected clinical features
Uterine Corpus Endometrioid Carcinoma (Primary solid tumor)
04 October 2018  |  None
Maintainer Information
Maintained by Broad Institute GDAC (Broad Institute of MIT & Harvard)
Overview
Introduction

This pipeline computes the correlation between significant copy number variation (cnv focal) genes and selected clinical features.

Summary

Testing the association between copy number variation 110 focal events and 17 clinical features across 100 patients, 98 significant findings detected with Q value < 0.25.

  • amp_1p36.33 cnv correlated to 'NUMBER_PACK_YEARS_SMOKED'.

  • amp_1q22 cnv correlated to 'HISTOLOGICAL_TYPE'.

  • amp_2p23.3 cnv correlated to 'HISTOLOGICAL_TYPE' and 'PATHOLOGY_T_STAGE'.

  • amp_2q13 cnv correlated to 'HISTOLOGICAL_TYPE' and 'PATHOLOGY_T_STAGE'.

  • amp_3p21.31 cnv correlated to 'PATHOLOGY_T_STAGE'.

  • amp_3q26.2 cnv correlated to 'HISTOLOGICAL_TYPE' and 'YEARS_TO_BIRTH'.

  • amp_3q27.1 cnv correlated to 'HISTOLOGICAL_TYPE' and 'YEARS_TO_BIRTH'.

  • amp_4p16.3 cnv correlated to 'PATHOLOGY_T_STAGE' and 'PATHOLOGY_N_STAGE'.

  • amp_5q35.2 cnv correlated to 'PATHOLOGY_T_STAGE' and 'PATHOLOGIC_STAGE'.

  • amp_7q11.23 cnv correlated to 'KARNOFSKY_PERFORMANCE_SCORE',  'PATHOLOGIC_STAGE', and 'RADIATION_THERAPY'.

  • amp_8q22.3 cnv correlated to 'YEARS_TO_BIRTH'.

  • amp_11p11.2 cnv correlated to 'PATHOLOGY_T_STAGE' and 'PATHOLOGIC_STAGE'.

  • amp_11q13.2 cnv correlated to 'HISTOLOGICAL_TYPE',  'KARNOFSKY_PERFORMANCE_SCORE',  'PATHOLOGY_T_STAGE', and 'PATHOLOGIC_STAGE'.

  • amp_11q13.3 cnv correlated to 'PATHOLOGY_T_STAGE' and 'PATHOLOGIC_STAGE'.

  • amp_12p13.33 cnv correlated to 'PATHOLOGY_T_STAGE'.

  • amp_12q13.2 cnv correlated to 'HISTOLOGICAL_TYPE'.

  • amp_12q24.31 cnv correlated to 'HISTOLOGICAL_TYPE' and 'KARNOFSKY_PERFORMANCE_SCORE'.

  • amp_13q12.11 cnv correlated to 'DAYS_TO_DEATH_OR_LAST_FUP'.

  • amp_14q24.2 cnv correlated to 'PATHOLOGY_T_STAGE' and 'PATHOLOGIC_STAGE'.

  • amp_17q12 cnv correlated to 'HISTOLOGICAL_TYPE'.

  • amp_19p13.2 cnv correlated to 'PATHOLOGY_T_STAGE' and 'PATHOLOGIC_STAGE'.

  • amp_19p13.11 cnv correlated to 'HISTOLOGICAL_TYPE'.

  • amp_19q12 cnv correlated to 'HISTOLOGICAL_TYPE' and 'PATHOLOGY_N_STAGE'.

  • amp_20q13.33 cnv correlated to 'HISTOLOGICAL_TYPE',  'FIGO_GRADE',  'KARNOFSKY_PERFORMANCE_SCORE',  'PATHOLOGY_T_STAGE', and 'PATHOLOGIC_STAGE'.

  • del_1p36.12 cnv correlated to 'PATHOLOGY_T_STAGE' and 'PATHOLOGIC_STAGE'.

  • del_1p13.2 cnv correlated to 'PATHOLOGY_T_STAGE'.

  • del_3p26.3 cnv correlated to 'PATHOLOGY_N_STAGE'.

  • del_3p12.2 cnv correlated to 'COUNTRY_OF_ORIGIN'.

  • del_4p15.31 cnv correlated to 'DAYS_TO_DEATH_OR_LAST_FUP',  'HISTOLOGICAL_TYPE',  'FIGO_GRADE',  'PATHOLOGY_N_STAGE', and 'PATHOLOGIC_STAGE'.

  • del_4q13.2 cnv correlated to 'HISTOLOGICAL_TYPE'.

  • del_4q21.21 cnv correlated to 'HISTOLOGICAL_TYPE'.

  • del_5q23.1 cnv correlated to 'DAYS_TO_DEATH_OR_LAST_FUP',  'FIGO_GRADE', and 'PATHOLOGY_N_STAGE'.

  • del_6q22.31 cnv correlated to 'BMI'.

  • del_8p23.2 cnv correlated to 'HISTOLOGICAL_TYPE'.

  • del_9p24.3 cnv correlated to 'HISTOLOGICAL_TYPE' and 'PATHOLOGIC_STAGE'.

  • del_9p24.1 cnv correlated to 'HISTOLOGICAL_TYPE' and 'PATHOLOGY_N_STAGE'.

  • del_9q21.32 cnv correlated to 'HISTOLOGICAL_TYPE'.

  • del_10q11.22 cnv correlated to 'PATHOLOGY_T_STAGE'.

  • del_10q25.3 cnv correlated to 'PATHOLOGIC_STAGE'.

  • del_11p15.5 cnv correlated to 'PATHOLOGY_T_STAGE' and 'PATHOLOGY_N_STAGE'.

  • del_11p15.3 cnv correlated to 'HISTOLOGICAL_TYPE' and 'PATHOLOGY_N_STAGE'.

  • del_11q24.2 cnv correlated to 'PATHOLOGY_T_STAGE'.

  • del_13q12.11 cnv correlated to 'HISTOLOGICAL_TYPE'.

  • del_13q12.11 cnv correlated to 'BMI'.

  • del_13q31.3 cnv correlated to 'FIGO_GRADE'.

  • del_15q11.2 cnv correlated to 'HISTOLOGICAL_TYPE'.

  • del_16p13.3 cnv correlated to 'HISTOLOGICAL_TYPE' and 'PATHOLOGY_N_STAGE'.

  • del_16q22.1 cnv correlated to 'HISTOLOGICAL_TYPE' and 'BMI'.

  • del_16q22.2 cnv correlated to 'HISTOLOGICAL_TYPE'.

  • del_17p11.2 cnv correlated to 'HISTOLOGICAL_TYPE'.

  • del_17q21.32 cnv correlated to 'DAYS_TO_DEATH_OR_LAST_FUP' and 'FIGO_GRADE'.

  • del_17q24.1 cnv correlated to 'HISTOLOGICAL_TYPE'.

  • del_18q22.1 cnv correlated to 'HISTOLOGICAL_TYPE'.

  • del_19p13.3 cnv correlated to 'HISTOLOGICAL_TYPE'.

  • del_19p13.2 cnv correlated to 'COUNTRY_OF_ORIGIN'.

  • del_xp11.23 cnv correlated to 'HISTOLOGICAL_TYPE'.

  • del_xp11.22 cnv correlated to 'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE', and 'PATHOLOGIC_STAGE'.

  • del_xq24 cnv correlated to 'HISTOLOGICAL_TYPE'.

  • del_xq27.3 cnv correlated to 'HISTOLOGICAL_TYPE',  'PATHOLOGY_T_STAGE', and 'PATHOLOGIC_STAGE'.

Results
Overview of the results

Table 1.  Get Full Table Overview of the association between significant copy number variation of 110 focal events and 17 clinical features. Shown in the table are P values (Q values). Thresholded by Q value < 0.25, 98 significant findings detected.

Clinical
Features 		DAYS
TO
DEATH
OR
LAST
FUP 		HISTOLOGICAL
TYPE 		FIGO
GRADE 		KARNOFSKY
PERFORMANCE
SCORE 		MSI PATHOLOGY
T
STAGE 		PATHOLOGY
N
STAGE 		PATHOLOGIC
STAGE 		YEARS
TO
BIRTH 		ETHNICITY RACE RADIATION
THERAPY 		DIABETES BMI NUMBER
PACK
YEARS
SMOKED 		SMOKER COUNTRY
OF
ORIGIN
nCNV (%) nWild-Type logrank test Fisher's exact test Fisher's exact test Wilcoxon-test Fisher's exact 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 Fisher's exact test Fisher's exact test Wilcoxon-test Fisher's exact test Fisher's exact test
amp 20q13 33 28 (28%) 72 0.754
(1.00) 		0.00044
(0.0374) 		0.00871
(0.204) 		0.000704
(0.0526) 		0.489
(0.967) 		0.00025
(0.0297) 		0.231
(0.776) 		0.00207
(0.0922) 		0.122
(0.63) 		1
(1.00) 		0.619
(0.986) 		0.26
(0.813) 		0.46
(0.957) 		0.278
(0.828) 		0.915
(1.00) 		0.794
(1.00) 		0.179
(0.715)
del 4p15 31 13 (13%) 87 0.00186
(0.0869) 		1e-05
(0.00467) 		0.0111
(0.231) 		0.118
(0.627) 		0.807
(1.00) 		0.0173
(0.287) 		0.00597
(0.171) 		0.00394
(0.134) 		0.108
(0.61) 		0.557
(0.975) 		0.475
(0.958) 		0.75
(1.00) 		0.738
(1.00) 		0.632
(0.987) 		0.171
(0.712) 		0.0996
(0.593)
amp 11q13 2 22 (22%) 78 0.41
(0.939) 		0.0112
(0.231) 		0.162
(0.703) 		0.00168
(0.0804) 		1
(1.00) 		0.00034
(0.0312) 		0.124
(0.63) 		0.00024
(0.0297) 		0.0707
(0.533) 		1
(1.00) 		0.515
(0.967) 		0.207
(0.747) 		0.414
(0.939) 		0.483
(0.965) 		0.384
(0.927) 		0.0647
(0.527)
amp 7q11 23 35 (35%) 65 0.193
(0.722) 		0.194
(0.723) 		0.228
(0.772) 		0.000198
(0.0284) 		0.855
(1.00) 		0.131
(0.646) 		0.849
(1.00) 		0.00424
(0.142) 		0.954
(1.00) 		0.016
(0.274) 		0.178
(0.715) 		0.0108
(0.231) 		0.816
(1.00) 		0.348
(0.893) 		0.063
(0.527) 		0.137
(0.664) 		0.377
(0.922)
del 5q23 1 13 (13%) 87 0.00766
(0.188) 		0.0161
(0.274) 		0.00528
(0.163) 		0.0833
(0.544) 		0.681
(1.00) 		0.254
(0.804) 		0.00594
(0.171) 		0.0262
(0.351) 		0.248
(0.802) 		1
(1.00) 		1
(1.00) 		0.54
(0.975) 		0.5
(0.967) 		0.066
(0.527) 		0.49
(0.967) 		0.29
(0.838)
del xp11 22 29 (29%) 71 0.126
(0.634) 		0.893
(1.00) 		0.233
(0.779) 		0.471
(0.958) 		1
(1.00) 		0.00515
(0.163) 		0.00937
(0.215) 		0.00727
(0.184) 		0.516
(0.967) 		0.578
(0.977) 		1
(1.00) 		0.176
(0.715) 		0.458
(0.956) 		0.277
(0.828) 		0.192
(0.722) 		0.192
(0.722) 		0.326
(0.879)
del xq27 3 34 (34%) 66 0.156
(0.688) 		0.0001
(0.0187) 		0.0278
(0.36) 		0.028
(0.36) 		0.264
(0.815) 		0.00955
(0.215) 		0.224
(0.767) 		0.00014
(0.0238) 		0.165
(0.712) 		0.121
(0.63) 		1
(1.00) 		0.049
(0.479) 		0.158
(0.692) 		0.22
(0.761) 		0.304
(0.854) 		0.0551
(0.497)
amp 2p23 3 27 (27%) 73 0.838
(1.00) 		0.00158
(0.0778) 		0.738
(1.00) 		0.371
(0.917) 		0.412
(0.939) 		0.0109
(0.231) 		0.139
(0.664) 		0.0192
(0.3) 		0.581
(0.978) 		1
(1.00) 		1
(1.00) 		0.26
(0.813) 		0.46
(0.957) 		0.942
(1.00) 		0.414
(0.939) 		0.815
(1.00)
amp 2q13 27 (27%) 73 0.814
(1.00) 		9e-05
(0.0187) 		0.66
(1.00) 		0.0849
(0.544) 		0.413
(0.939) 		0.0106
(0.231) 		0.0341
(0.386) 		0.0334
(0.386) 		0.221
(0.764) 		1
(1.00) 		0.406
(0.937) 		0.648
(0.995) 		0.614
(0.986) 		0.864
(1.00) 		0.477
(0.958) 		0.595
(0.978) 		0.405
(0.937)
amp 3q26 2 20 (20%) 80 0.464
(0.957) 		1e-05
(0.00467) 		0.0229
(0.33) 		0.109
(0.611) 		0.806
(1.00) 		0.434
(0.94) 		0.0684
(0.527) 		0.297
(0.844) 		0.000155
(0.0242) 		1
(1.00) 		0.512
(0.967) 		0.431
(0.94) 		0.574
(0.975) 		0.0426
(0.447) 		0.775
(1.00) 		0.858
(1.00)
amp 3q27 1 27 (27%) 73 0.718
(1.00) 		2e-05
(0.00623) 		0.19
(0.722) 		0.0501
(0.479) 		0.681
(1.00) 		0.0506
(0.479) 		0.0611
(0.524) 		0.101
(0.593) 		0.0121
(0.235) 		1
(1.00) 		0.216
(0.759) 		0.169
(0.712) 		0.614
(0.986) 		0.103
(0.598) 		0.786
(1.00) 		0.905
(1.00)
amp 4p16 3 10 (10%) 90 0.546
(0.975) 		0.547
(0.975) 		0.0255
(0.348) 		0.275
(0.826) 		0.644
(0.991) 		0.00631
(0.174) 		0.0116
(0.233) 		0.085
(0.544) 		0.554
(0.975) 		0.448
(0.943) 		1
(1.00) 		0.505
(0.967) 		0.72
(1.00) 		0.893
(1.00) 		1
(1.00) 		0.908
(1.00)
amp 5q35 2 10 (10%) 90 0.573
(0.975) 		0.108
(0.61) 		0.486
(0.967) 		0.217
(0.759) 		0.00634
(0.174) 		0.0248
(0.348) 		0.0118
(0.233) 		0.963
(1.00) 		1
(1.00) 		0.291
(0.838) 		0.505
(0.967) 		0.72
(1.00) 		0.546
(0.975) 		0.111
(0.618) 		1
(1.00)
amp 11p11 2 15 (15%) 85 0.346
(0.892) 		0.0512
(0.479) 		0.415
(0.939) 		0.287
(0.837) 		0.429
(0.94) 		0.00029
(0.0301) 		0.774
(1.00) 		0.00115
(0.0643) 		0.106
(0.609) 		0.557
(0.975) 		0.512
(0.967) 		0.0828
(0.544) 		1
(1.00) 		0.346
(0.892) 		0.177
(0.715) 		0.2
(0.732)
amp 11q13 3 19 (19%) 81 0.456
(0.951) 		0.0851
(0.544) 		0.113
(0.62) 		0.0468
(0.471) 		0.806
(1.00) 		0.00128
(0.0657) 		0.15
(0.67) 		0.00534
(0.163) 		0.0721
(0.537) 		1
(1.00) 		0.554
(0.975) 		0.188
(0.722) 		0.258
(0.811) 		0.404
(0.937) 		0.227
(0.771) 		0.564
(0.975)
amp 12q24 31 21 (21%) 79 0.427
(0.94) 		8e-05
(0.0187) 		0.88
(1.00) 		0.00529
(0.163) 		1
(1.00) 		0.0135
(0.251) 		0.128
(0.64) 		0.108
(0.61) 		0.466
(0.958) 		0.505
(0.967) 		0.436
(0.94) 		0.608
(0.983) 		0.787
(1.00) 		0.318
(0.877) 		0.145
(0.664) 		0.208
(0.749)
amp 14q24 2 15 (15%) 85 0.396
(0.931) 		0.269
(0.823) 		0.187
(0.722) 		0.0697
(0.532) 		1
(1.00) 		0.00027
(0.0297) 		0.136
(0.658) 		0.00112
(0.0643) 		0.158
(0.692) 		1
(1.00) 		0.117
(0.627) 		0.252
(0.804) 		1
(1.00) 		0.419
(0.94) 		0.177
(0.715) 		0.552
(0.975)
amp 19p13 2 20 (20%) 80 0.585
(0.978) 		0.0197
(0.304) 		0.876
(1.00) 		0.43
(0.94) 		0.8
(1.00) 		0.00129
(0.0657) 		0.0488
(0.479) 		0.0013
(0.0657) 		0.115
(0.626) 		1
(1.00) 		0.189
(0.722) 		0.802
(1.00) 		0.787
(1.00) 		0.358
(0.906) 		0.548
(0.975) 		0.854
(1.00)
amp 19q12 18 (18%) 82 0.443
(0.943) 		1e-05
(0.00467) 		0.444
(0.943) 		0.0654
(0.527) 		0.801
(1.00) 		0.218
(0.759) 		0.0101
(0.222) 		0.05
(0.479) 		0.0725
(0.538) 		0.557
(0.975) 		1
(1.00) 		0.594
(0.978) 		0.38
(0.925) 		0.753
(1.00) 		1
(1.00) 		0.156
(0.688)
del 1p36 12 16 (16%) 84 0.31
(0.864) 		0.367
(0.915) 		0.0857
(0.544) 		0.0596
(0.522) 		1
(1.00) 		0.00576
(0.171) 		0.0298
(0.36) 		0.00035
(0.0312) 		0.196
(0.723) 		0.557
(0.975) 		0.0977
(0.585) 		1
(1.00) 		0.758
(1.00) 		0.692
(1.00) 		0.508
(0.967) 		0.525
(0.975)
del 9p24 3 15 (15%) 85 0.381
(0.925) 		0.00816
(0.196) 		0.145
(0.664) 		0.255
(0.804) 		0.429
(0.94) 		0.019
(0.3) 		0.0286
(0.36) 		0.00531
(0.163) 		0.539
(0.975) 		1
(1.00) 		0.514
(0.967) 		0.773
(1.00) 		0.215
(0.759) 		0.951
(1.00) 		0.508
(0.967) 		0.551
(0.975)
del 9p24 1 11 (11%) 89 0.561
(0.975) 		0.00334
(0.125) 		0.416
(0.939) 		0.472
(0.958) 		0.112
(0.618) 		0.0112
(0.231) 		0.266
(0.818) 		0.864
(1.00) 		0.505
(0.967) 		0.431
(0.94) 		1
(1.00) 		1
(1.00) 		0.0667
(0.527) 		0.273
(0.826) 		0.318
(0.877)
del 11p15 5 11 (11%) 89 0.122
(0.63) 		0.0255
(0.348) 		0.142
(0.664) 		0.0946
(0.578) 		0.43
(0.94) 		0.00253
(0.105) 		0.00757
(0.188) 		0.0274
(0.36) 		0.18
(0.717) 		0.32
(0.877) 		1
(1.00) 		1
(1.00) 		0.72
(1.00) 		0.217
(0.759) 		0.713
(1.00) 		0.368
(0.915)
del 11p15 3 15 (15%) 85 0.337
(0.892) 		0.00083
(0.0535) 		0.415
(0.939) 		0.287
(0.837) 		0.801
(1.00) 		0.0804
(0.544) 		0.00075
(0.0526) 		0.0345
(0.388) 		0.082
(0.544) 		1
(1.00) 		1
(1.00) 		0.768
(1.00) 		0.338
(0.892) 		0.541
(0.975) 		0.732
(1.00) 		0.201
(0.732)
del 16p13 3 9 (9%) 91 0.661
(1.00) 		4e-05
(0.0107) 		0.876
(1.00) 		0.644
(0.991) 		0.277
(0.828) 		0.00274
(0.111) 		0.22
(0.761) 		0.0773
(0.544) 		1
(1.00) 		1
(1.00) 		0.295
(0.844) 		0.439
(0.943) 		0.587
(0.978) 		0.428
(0.94) 		0.539
(0.975)
del 16q22 1 11 (11%) 89 0.362
(0.907) 		0.0038
(0.132) 		0.144
(0.664) 		0.352
(0.896) 		1
(1.00) 		0.525
(0.975) 		0.201
(0.732) 		0.112
(0.618) 		0.106
(0.609) 		1
(1.00) 		0.434
(0.94) 		0.337
(0.892) 		0.0307
(0.362) 		0.00716
(0.183) 		0.713
(1.00) 		0.471
(0.958)
del 17q21 32 10 (10%) 90 0.000586
(0.0456) 		0.365
(0.911) 		0.00231
(0.0982) 		0.0833
(0.544) 		1
(1.00) 		0.0837
(0.544) 		0.107
(0.61) 		0.0218
(0.318) 		0.0794
(0.544) 		1
(1.00) 		1
(1.00) 		0.291
(0.838) 		0.72
(1.00) 		0.0914
(0.564) 		0.444
(0.943) 		0.607
(0.983)
amp 1p36 33 24 (24%) 76 0.848
(1.00) 		1
(1.00) 		0.483
(0.965) 		0.729
(1.00) 		0.416
(0.939) 		0.766
(1.00) 		0.649
(0.995) 		0.71
(1.00) 		0.846
(1.00) 		0.561
(0.975) 		1
(1.00) 		0.637
(0.987) 		0.0671
(0.527) 		0.0293
(0.36) 		0.00348
(0.128) 		0.416
(0.939) 		0.559
(0.975)
amp 1q22 42 (42%) 58 0.772
(1.00) 		0.00032
(0.0312) 		0.301
(0.851) 		0.27
(0.823) 		0.858
(1.00) 		0.875
(1.00) 		0.146
(0.664) 		0.928
(1.00) 		0.0402
(0.429) 		0.627
(0.986) 		0.729
(1.00) 		0.837
(1.00) 		0.823
(1.00) 		0.607
(0.983) 		1
(1.00) 		1
(1.00) 		0.767
(1.00)
amp 3p21 31 27 (27%) 73 0.82
(1.00) 		0.0159
(0.274) 		0.629
(0.986) 		0.146
(0.664) 		0.564
(0.975) 		0.00117
(0.0643) 		0.297
(0.844) 		0.0349
(0.388) 		0.215
(0.759) 		1
(1.00) 		0.245
(0.801) 		0.495
(0.967) 		0.0811
(0.544) 		0.253
(0.804) 		0.414
(0.939) 		1
(1.00)
amp 8q22 3 27 (27%) 73 0.785
(1.00) 		0.016
(0.274) 		0.38
(0.925) 		0.167
(0.712) 		1
(1.00) 		0.606
(0.983) 		1
(1.00) 		0.932
(1.00) 		0.0122
(0.235) 		1
(1.00) 		1
(1.00) 		0.169
(0.712) 		0.803
(1.00) 		0.0598
(0.522) 		0.743
(1.00) 		0.178
(0.715) 		0.053
(0.485)
amp 12p13 33 37 (37%) 63 0.805
(1.00) 		0.069
(0.529) 		0.815
(1.00) 		0.0729
(0.539) 		0.17
(0.712) 		0.00705
(0.183) 		0.322
(0.878) 		0.0211
(0.311) 		0.302
(0.851) 		0.617
(0.986) 		0.719
(1.00) 		0.678
(1.00) 		0.5
(0.967) 		0.489
(0.967) 		0.587
(0.978) 		0.804
(1.00) 		0.421
(0.94)
amp 12q13 2 24 (24%) 76 0.624
(0.986) 		2e-05
(0.00623) 		0.877
(1.00) 		0.109
(0.611) 		0.68
(1.00) 		0.015
(0.273) 		0.0298
(0.36) 		0.101
(0.593) 		0.112
(0.618) 		1
(1.00) 		0.217
(0.759) 		0.636
(0.987) 		1
(1.00) 		0.317
(0.877) 		0.791
(1.00) 		0.778
(1.00) 		0.741
(1.00)
amp 13q12 11 14 (14%) 86 3.12e-07
(0.000584) 		0.39
(0.927) 		0.876
(1.00) 		0.558
(0.975) 		0.781
(1.00) 		0.117
(0.627) 		0.676
(1.00) 		0.299
(0.847) 		0.0368
(0.404) 		1
(1.00) 		1
(1.00) 		1
(1.00) 		1
(1.00) 		0.361
(0.907) 		0.0623
(0.527) 		0.59
(0.978)
amp 17q12 21 (21%) 79 0.572
(0.975) 		0.00093
(0.058) 		0.876
(1.00) 		0.178
(0.715) 		0.247
(0.802) 		0.0804
(0.544) 		0.168
(0.712) 		0.0509
(0.479) 		0.362
(0.907) 		1
(1.00) 		0.19
(0.722) 		0.608
(0.983) 		1
(1.00) 		0.432
(0.94) 		0.635
(0.987) 		0.775
(1.00) 		0.563
(0.975)
amp 19p13 11 22 (22%) 78 0.579
(0.977) 		0.00954
(0.215) 		1
(1.00) 		0.233
(0.781) 		0.68
(1.00) 		0.0792
(0.544) 		0.043
(0.449) 		0.0211
(0.311) 		0.242
(0.794) 		1
(1.00) 		1
(1.00) 		1
(1.00) 		0.171
(0.712) 		0.533
(0.975) 		1
(1.00) 		0.871
(1.00)
del 1p13 2 12 (12%) 88 0.273
(0.826) 		0.324
(0.878) 		0.49
(0.967) 		0.684
(1.00) 		0.469
(0.958) 		0.00999
(0.222) 		0.12
(0.63) 		0.277
(0.828) 		0.197
(0.727) 		0.505
(0.967) 		0.434
(0.94) 		0.54
(0.975) 		0.315
(0.876) 		0.239
(0.79) 		0.464
(0.957) 		0.701
(1.00)
del 3p26 3 15 (15%) 85 0.476
(0.958) 		0.495
(0.967) 		1
(1.00) 		0.255
(0.804) 		0.47
(0.958) 		0.231
(0.776) 		0.0114
(0.231) 		0.117
(0.627) 		0.292
(0.838) 		1
(1.00) 		0.217
(0.759) 		0.773
(1.00) 		1
(1.00) 		0.34
(0.892) 		0.732
(1.00) 		0.655
(1)
del 3p12 2 22 (22%) 78 0.416
(0.939) 		0.171
(0.712) 		0.554
(0.975) 		1
(1.00) 		1
(1.00) 		0.511
(0.967) 		0.27
(0.823) 		0.476
(0.958) 		0.739
(1.00) 		0.0211
(0.311) 		0.651
(0.996) 		1
(1.00) 		0.58
(0.978) 		0.588
(0.978) 		0.548
(0.975) 		0.00325
(0.124)
del 4q13 2 25 (25%) 75 0.65
(0.996) 		0.00781
(0.19) 		0.446
(0.943) 		0.265
(0.815) 		0.563
(0.975) 		0.0776
(0.544) 		0.174
(0.715) 		0.0341
(0.386) 		0.0845
(0.544) 		0.286
(0.837) 		1
(1.00) 		0.469
(0.958) 		1
(1.00) 		0.573
(0.975) 		0.576
(0.976) 		0.169
(0.712)
del 4q21 21 24 (24%) 76 0.571
(0.975) 		0.00082
(0.0535) 		0.0762
(0.544) 		0.845
(1.00) 		0.806
(1.00) 		0.157
(0.688) 		0.0189
(0.3) 		0.0853
(0.544) 		0.0637
(0.527) 		0.0399
(0.428) 		1
(1.00) 		0.0885
(0.555) 		0.289
(0.837) 		0.617
(0.986) 		0.774
(1.00) 		0.0485
(0.479)
del 6q22 31 9 (9%) 91 0.187
(0.722) 		0.0845
(0.544) 		0.0797
(0.544) 		0.471
(0.958) 		0.061
(0.524) 		0.0673
(0.527) 		0.384
(0.927) 		0.275
(0.826) 		1
(1.00) 		1
(1.00) 		0.504
(0.967) 		0.439
(0.943) 		0.00076
(0.0526) 		1
(1.00) 		0.518
(0.969)
del 8p23 2 11 (11%) 89 0.23
(0.776) 		0.00299
(0.119) 		0.862
(1.00) 		0.799
(1.00) 		0.113
(0.62) 		0.251
(0.804) 		0.696
(1.00) 		0.0579
(0.513) 		0.448
(0.943) 		1
(1.00) 		0.53
(0.975) 		0.171
(0.712) 		0.163
(0.704) 		0.713
(1.00) 		0.907
(1.00)
del 9q21 32 30 (30%) 70 0.82
(1.00) 		0.0005
(0.0407) 		0.255
(0.804) 		0.0506
(0.479) 		1
(1.00) 		0.193
(0.722) 		0.0192
(0.3) 		0.0447
(0.455) 		0.144
(0.664) 		1
(1.00) 		1
(1.00) 		0.825
(1.00) 		0.628
(0.986) 		0.597
(0.978) 		0.437
(0.94) 		0.592
(0.978)
del 10q11 22 6 (6%) 94 0.0253
(0.348) 		0.0528
(0.485) 		0.096
(0.581) 		0.00605
(0.171) 		0.106
(0.609) 		0.0665
(0.527) 		0.352
(0.896) 		1
(1.00) 		1
(1.00) 		1
(1.00) 		0.671
(1.00) 		0.445
(0.943) 		1
(1.00) 		0.566
(0.975)
del 10q25 3 13 (13%) 87 0.317
(0.877) 		0.594
(0.978) 		0.0928
(0.569) 		0.897
(1.00) 		1
(1.00) 		0.0166
(0.278) 		0.0322
(0.377) 		0.00845
(0.2) 		0.463
(0.957) 		0.505
(0.967) 		1
(1.00) 		0.375
(0.921) 		0.338
(0.892) 		0.63
(0.986) 		1
(1.00) 		0.606
(0.983)
del 11q24 2 14 (14%) 86 0.381
(0.925) 		0.183
(0.717) 		0.599
(0.979) 		0.545
(0.975) 		0.803
(1.00) 		0.0127
(0.242) 		0.137
(0.664) 		0.0307
(0.362) 		0.453
(0.949) 		0.557
(0.975) 		1
(1.00) 		0.569
(0.975) 		0.0621
(0.527) 		0.211
(0.754) 		0.287
(0.837) 		0.701
(1.00)
del 13q12 11 16 (16%) 84 0.346
(0.892) 		0.00677
(0.183) 		0.037
(0.404) 		0.482
(0.964) 		0.801
(1.00) 		0.893
(1.00) 		0.179
(0.715) 		0.0295
(0.36) 		0.194
(0.723) 		1
(1.00) 		1
(1.00) 		0.0828
(0.544) 		1
(1.00) 		0.541
(0.975) 		0.635
(0.987) 		0.191
(0.722) 		0.36
(0.906)
del 13q12 11 14 (14%) 86 0.486
(0.967) 		0.0604
(0.524) 		0.149
(0.668) 		0.897
(1.00) 		1
(1.00) 		0.658
(1.00) 		0.144
(0.664) 		0.245
(0.801) 		0.387
(0.927) 		1
(1.00) 		1
(1.00) 		0.252
(0.804) 		0.338
(0.892) 		0.00231
(0.0982) 		0.0579
(0.513) 		0.0838
(0.544) 		0.622
(0.986)
del 13q31 3 11 (11%) 89 0.141
(0.664) 		0.4
(0.934) 		0.00027
(0.0297) 		0.0462
(0.467) 		0.181
(0.717) 		0.198
(0.73) 		0.0263
(0.351) 		0.141
(0.664) 		1
(1.00) 		0.239
(0.79) 		0.177
(0.715) 		0.505
(0.967) 		0.508
(0.967) 		0.448
(0.943) 		0.638
(0.987)
del 15q11 2 20 (20%) 80 0.0307
(0.362) 		0.00321
(0.124) 		0.0361
(0.399) 		0.14
(0.664) 		0.471
(0.958) 		0.0673
(0.527) 		0.0588
(0.519) 		0.116
(0.626) 		0.118
(0.627) 		0.557
(0.975) 		1
(1.00) 		1
(1.00) 		0.262
(0.814) 		0.11
(0.613) 		0.548
(0.975) 		0.216
(0.759)
del 16q22 2 16 (16%) 84 0.444
(0.943) 		0.00704
(0.183) 		0.6
(0.98) 		0.571
(0.975) 		0.805
(1.00) 		0.142
(0.664) 		0.472
(0.958) 		0.591
(0.978) 		0.405
(0.937) 		0.569
(0.975) 		0.55
(0.975) 		0.408
(0.937) 		0.546
(0.975) 		0.345
(0.892) 		1
(1.00) 		0.553
(0.975)
del 17p11 2 17 (17%) 83 0.482
(0.964) 		0.00355
(0.128) 		0.0897
(0.559) 		0.37
(0.917) 		0.804
(1.00) 		0.215
(0.759) 		0.0296
(0.36) 		0.128
(0.64) 		0.0718
(0.537) 		0.557
(0.975) 		0.476
(0.958) 		0.594
(0.978) 		0.143
(0.664) 		0.679
(1.00) 		1
(1.00) 		1
(1.00)
del 17q24 1 11 (11%) 89 0.597
(0.978) 		0.00372
(0.131) 		0.145
(0.664) 		0.0149
(0.273) 		1
(1.00) 		0.182
(0.717) 		0.0858
(0.544) 		0.442
(0.943) 		0.544
(0.975) 		0.387
(0.927) 		1
(1.00) 		0.0409
(0.435) 		0.72
(1.00) 		1
(1.00) 		1
(1.00) 		0.414
(0.939)
del 18q22 1 16 (16%) 84 0.374
(0.921) 		0.00694
(0.183) 		0.257
(0.809) 		0.946
(1.00) 		0.798
(1.00) 		0.141
(0.664) 		0.774
(1.00) 		0.681
(1.00) 		0.556
(0.975) 		0.557
(0.975) 		0.516
(0.967) 		0.594
(0.978) 		0.546
(0.975) 		0.504
(0.967) 		0.366
(0.914) 		0.191
(0.722) 		0.769
(1.00)
del 19p13 3 23 (23%) 77 0.631
(0.987) 		0.0118
(0.233) 		0.888
(1.00) 		0.34
(0.892) 		0.173
(0.715) 		0.0905
(0.562) 		0.0158
(0.274) 		0.0682
(0.527) 		0.597
(0.978) 		1
(1.00) 		1
(1.00) 		0.226
(0.769) 		0.289
(0.837) 		0.699
(1.00) 		0.553
(0.975) 		0.774
(1.00) 		0.604
(0.983)
del 19p13 2 17 (17%) 83 0.495
(0.967) 		0.149
(0.668) 		0.191
(0.722) 		0.879
(1.00) 		0.78
(1.00) 		0.709
(1.00) 		1
(1.00) 		1
(1.00) 		0.588
(0.978) 		0.387
(0.927) 		0.515
(0.967) 		0.0828
(0.544) 		0.544
(0.975) 		0.813
(1.00) 		0.508
(0.967) 		0.00198
(0.0903)
del xp11 23 36 (36%) 64 0.94
(1.00) 		0.00108
(0.0643) 		0.147
(0.666) 		0.352
(0.896) 		0.617
(0.986) 		0.491
(0.967) 		0.629
(0.986) 		0.329
(0.886) 		0.495
(0.967) 		1
(1.00) 		0.382
(0.925) 		0.206
(0.747) 		0.0676
(0.527) 		0.401
(0.934) 		0.257
(0.808) 		0.801
(1.00) 		1
(1.00)
del xq24 32 (32%) 68 0.16
(0.697) 		0.00542
(0.163) 		0.0611
(0.524) 		0.94
(1.00) 		0.854
(1.00) 		0.437
(0.94) 		0.248
(0.802) 		0.0892
(0.558) 		0.178
(0.715) 		0.144
(0.664) 		0.703
(1.00) 		1
(1.00) 		0.231
(0.776) 		0.889
(1.00) 		1
(1.00) 		0.795
(1.00) 		0.534
(0.975)
amp 1p36 13 14 (14%) 86 0.493
(0.967) 		0.391
(0.927) 		1
(1.00) 		0.182
(0.717) 		0.431
(0.94) 		0.118
(0.627) 		0.121
(0.63) 		0.124
(0.63) 		0.913
(1.00) 		0.448
(0.943) 		1
(1.00) 		0.569
(0.975) 		0.751
(1.00) 		0.401
(0.934) 		0.726
(1.00) 		0.86
(1.00)
amp 1q32 2 39 (39%) 61 0.777
(1.00) 		0.449
(0.943) 		0.168
(0.712) 		0.114
(0.623) 		1
(1.00) 		0.406
(0.937) 		0.188
(0.722) 		0.896
(1.00) 		0.0307
(0.362) 		0.285
(0.837) 		0.187
(0.722) 		0.679
(1.00) 		0.369
(0.915) 		0.868
(1.00) 		0.553
(0.975) 		0.148
(0.667) 		0.28
(0.832)
amp 2q11 1 48 (48%) 52 0.557
(0.975) 		0.245
(0.801) 		0.701
(1.00) 		0.573
(0.975) 		0.371
(0.917) 		0.347
(0.892) 		0.646
(0.994) 		0.643
(0.991) 		0.204
(0.74) 		0.326
(0.879) 		1
(1.00) 		1
(1.00) 		0.0448
(0.455) 		0.0817
(0.544) 		0.821
(1.00) 		0.332
(0.89) 		0.129
(0.642)
amp 6p21 32 44 (44%) 56 0.385
(0.927) 		0.0826
(0.544) 		0.344
(0.892) 		0.475
(0.958) 		0.734
(1.00) 		0.627
(0.986) 		0.344
(0.892) 		0.594
(0.978) 		0.953
(1.00) 		0.64
(0.988) 		0.727
(1.00) 		0.224
(0.767) 		0.122
(0.63) 		0.222
(0.765) 		0.625
(0.986) 		1
(1.00) 		0.108
(0.61)
amp 6q25 1 17 (17%) 83 0.315
(0.876) 		0.0177
(0.288) 		0.0347
(0.388) 		0.679
(1.00) 		0.781
(1.00) 		0.622
(0.986) 		0.0702
(0.533) 		0.119
(0.63) 		0.0662
(0.527) 		0.505
(0.967) 		0.554
(0.975) 		0.408
(0.937) 		0.77
(1.00) 		0.812
(1.00) 		0.756
(1.00) 		0.0667
(0.527)
amp 7p13 29 (29%) 71 0.904
(1.00) 		0.149
(0.668) 		0.251
(0.804) 		0.0285
(0.36) 		0.0511
(0.479) 		0.124
(0.63) 		1
(1.00) 		0.0235
(0.335) 		0.231
(0.776) 		0.578
(0.977) 		0.672
(1.00) 		1
(1.00) 		0.143
(0.664) 		0.993
(1.00) 		0.286
(0.837) 		0.968
(1.00)
amp 7q22 1 32 (32%) 68 0.183
(0.717) 		0.677
(1.00) 		0.708
(1.00) 		0.118
(0.627) 		0.0506
(0.479) 		0.801
(1.00) 		1
(1.00) 		0.317
(0.877) 		0.742
(1.00) 		0.591
(0.978) 		1
(1.00) 		1
(1.00) 		0.349
(0.895) 		0.808
(1.00) 		0.779
(1.00) 		0.796
(1.00) 		0.784
(1.00)
amp 9p24 3 38 (38%) 62 0.295
(0.844) 		0.263
(0.815) 		0.269
(0.823) 		0.797
(1.00) 		0.225
(0.768) 		0.707
(1.00) 		0.543
(0.975) 		0.682
(1.00) 		0.591
(0.978) 		1
(1.00) 		0.542
(0.975) 		0.836
(1.00) 		0.252
(0.804) 		0.477
(0.958) 		0.241
(0.794) 		1
(1.00) 		0.359
(0.906)
amp 9q34 3 13 (13%) 87 0.493
(0.967) 		0.0844
(0.544) 		0.0922
(0.567) 		0.946
(1.00) 		1
(1.00) 		0.0289
(0.36) 		0.321
(0.878) 		0.289
(0.837) 		0.179
(0.715) 		0.448
(0.943) 		1
(1.00) 		0.768
(1.00) 		0.752
(1.00) 		0.924
(1.00) 		0.464
(0.957) 		1
(1.00)
amp 10q23 2 30 (30%) 70 0.981
(1.00) 		1
(1.00) 		0.501
(0.967) 		0.512
(0.967) 		0.169
(0.712) 		0.492
(0.967) 		0.698
(1.00) 		0.509
(0.967) 		0.477
(0.958) 		1
(1.00) 		0.691
(1.00) 		0.379
(0.925) 		0.48
(0.962) 		0.852
(1.00) 		0.101
(0.593) 		0.42
(0.94) 		0.347
(0.892)
amp 10q26 13 34 (34%) 66 0.283
(0.837) 		0.152
(0.672) 		0.465
(0.957) 		0.0553
(0.497) 		0.266
(0.817) 		0.526
(0.975) 		0.525
(0.975) 		0.193
(0.722) 		0.264
(0.815) 		1
(1.00) 		1
(1.00) 		0.667
(1.00) 		0.637
(0.987) 		0.71
(1.00) 		0.101
(0.593) 		0.796
(1.00) 		1
(1.00)
amp 11p15 2 5 (5%) 95 0.718
(1.00) 		0.362
(0.907) 		0.539
(0.975) 		0.283
(0.837) 		1
(1.00) 		0.499
(0.967) 		0.0949
(0.578) 		1
(1.00) 		0.186
(0.722) 		0.064
(0.527) 		0.622
(0.986) 		0.442
(0.943) 		1
(1.00) 		0.405
(0.937)
amp 15q24 2 16 (16%) 84 0.444
(0.943) 		0.0446
(0.455) 		0.878
(1.00) 		0.275
(0.826) 		0.428
(0.94) 		0.141
(0.664) 		0.525
(0.975) 		0.68
(1.00) 		0.76
(1.00) 		0.505
(0.967) 		0.434
(0.94) 		0.594
(0.978) 		1
(1.00) 		0.956
(1.00) 		0.813
(1.00) 		1
(1.00) 		0.611
(0.985)
amp 15q26 3 35 (35%) 65 0.919
(1.00) 		1
(1.00) 		0.46
(0.957) 		0.868
(1.00) 		0.728
(1.00) 		1
(1.00) 		1
(1.00) 		0.983
(1.00) 		0.131
(0.647) 		1
(1.00) 		0.707
(1.00) 		0.674
(1.00) 		1
(1.00) 		0.565
(0.975) 		0.965
(1.00) 		0.0221
(0.32) 		0.881
(1.00)
amp 16p11 2 31 (31%) 69 0.183
(0.717) 		0.333
(0.89) 		0.429
(0.94) 		0.521
(0.973) 		0.168
(0.712) 		0.858
(1.00) 		0.845
(1.00) 		0.195
(0.723) 		0.633
(0.987) 		1
(1.00) 		0.176
(0.715) 		0.273
(0.826) 		0.634
(0.987) 		0.908
(1.00) 		0.324
(0.878) 		0.796
(1.00) 		0.762
(1.00)
amp 16q22 2 19 (19%) 81 0.436
(0.94) 		1
(1.00) 		0.821
(1.00) 		0.682
(1.00) 		1
(1.00) 		0.9
(1.00) 		0.341
(0.892) 		0.745
(1.00) 		0.344
(0.892) 		0.448
(0.943) 		1
(1.00) 		0.121
(0.63) 		1
(1.00) 		0.747
(1.00) 		0.365
(0.911) 		0.134
(0.654) 		0.224
(0.767)
amp 17q24 1 18 (18%) 82 0.512
(0.967) 		0.104
(0.604) 		0.27
(0.823) 		0.396
(0.931) 		0.807
(1.00) 		1
(1.00) 		1
(1.00) 		0.59
(0.978) 		0.606
(0.983) 		1
(1.00) 		0.142
(0.664) 		0.431
(0.94) 		0.773
(1.00) 		0.465
(0.958) 		1
(1.00) 		1
(1.00) 		0.494
(0.967)
amp 18p11 31 20 (20%) 80 0.464
(0.957) 		0.0629
(0.527) 		1
(1.00) 		0.593
(0.978) 		0.173
(0.715) 		0.0513
(0.479) 		1
(1.00) 		0.323
(0.878) 		0.605
(0.983) 		1
(1.00) 		0.62
(0.986) 		0.61
(0.985) 		0.781
(1.00) 		0.55
(0.975) 		0.286
(0.837) 		1
(1.00) 		0.343
(0.892)
amp 19q13 2 18 (18%) 82 0.592
(0.978) 		0.021
(0.311) 		1
(1.00) 		0.703
(1.00) 		0.247
(0.802) 		0.509
(0.967) 		0.395
(0.931) 		0.494
(0.967) 		0.168
(0.712) 		1
(1.00) 		0.299
(0.847) 		0.431
(0.94) 		0.578
(0.977) 		0.661
(1.00) 		0.553
(0.975) 		1
(1.00) 		0.704
(1.00)
amp 22q13 2 19 (19%) 81 0.391
(0.927) 		0.239
(0.79) 		1
(1.00) 		1
(1.00) 		0.8
(1.00) 		0.0867
(0.548) 		0.381
(0.925) 		0.107
(0.61) 		0.553
(0.975) 		0.14
(0.664) 		1
(1.00) 		0.304
(0.853) 		0.574
(0.975) 		0.28
(0.832) 		0.0579
(0.513) 		0.757
(1.00) 		0.614
(0.986)
amp xp11 23 22 (22%) 78 0.669
(1.00) 		0.359
(0.906) 		0.707
(1.00) 		0.455
(0.95) 		1
(1.00) 		0.376
(0.922) 		0.278
(0.828) 		0.618
(0.986) 		0.273
(0.826) 		1
(1.00) 		0.0337
(0.386) 		0.806
(1.00) 		0.0164
(0.277) 		0.331
(0.89) 		0.43
(0.94) 		1
(1.00) 		0.815
(1.00)
amp xp11 23 31 (31%) 69 0.21
(0.751) 		0.331
(0.89) 		0.59
(0.978) 		0.0258
(0.35) 		1
(1.00) 		0.625
(0.986) 		0.0719
(0.537) 		0.34
(0.892) 		0.811
(1.00) 		0.626
(0.986) 		0.437
(0.94) 		0.663
(1.00) 		0.153
(0.677) 		0.835
(1.00) 		0.261
(0.813) 		0.796
(1.00) 		0.935
(1.00)
amp xq24 32 (32%) 68 0.238
(0.79) 		0.539
(0.975) 		0.579
(0.977) 		0.401
(0.934) 		0.37
(0.917) 		1
(1.00) 		0.704
(1.00) 		0.972
(1.00) 		0.891
(1.00) 		0.561
(0.975) 		0.0153
(0.274) 		0.129
(0.64) 		0.641
(0.99) 		0.449
(0.943) 		0.594
(0.978) 		0.8
(1.00) 		0.182
(0.717)
amp xq28 40 (40%) 60 0.612
(0.986) 		0.662
(1.00) 		0.884
(1.00) 		0.477
(0.958) 		0.533
(0.975) 		0.934
(1.00) 		0.125
(0.63) 		0.488
(0.967) 		0.743
(1.00) 		1
(1.00) 		0.388
(0.927) 		0.68
(1.00) 		0.502
(0.967) 		0.2
(0.732) 		0.122
(0.63) 		0.337
(0.892) 		0.0801
(0.544)
del 1p36 32 11 (11%) 89 0.128
(0.64) 		0.401
(0.934) 		0.0177
(0.288) 		0.325
(0.878) 		1
(1.00) 		0.179
(0.715) 		0.15
(0.668) 		0.0334
(0.386) 		0.182
(0.717) 		1
(1.00) 		0.39
(0.927) 		0.747
(1.00) 		1
(1.00) 		0.72
(1.00) 		0.448
(0.943) 		0.605
(0.983)
del 1q32 2 13 (13%) 87 0.499
(0.967) 		0.352
(0.896) 		0.542
(0.975) 		0.945
(1.00) 		0.429
(0.94) 		0.304
(0.853) 		0.0417
(0.441) 		0.43
(0.94) 		0.829
(1.00) 		1
(1.00) 		0.139
(0.664) 		0.36
(0.906) 		0.0956
(0.58) 		0.417
(0.94) 		0.514
(0.967) 		0.464
(0.957) 		0.0745
(0.544)
del 2q31 2 9 (9%) 91 0.615
(0.986) 		1
(1.00) 		1
(1.00) 		0.324
(0.878) 		0.427
(0.94) 		0.683
(1.00) 		0.394
(0.931) 		1
(1.00) 		0.596
(0.978) 		0.32
(0.877) 		1
(1.00) 		0.696
(1.00) 		0.22
(0.761) 		0.685
(1.00) 		0.661
(1.00) 		0.342
(0.892)
del 3p21 1 13 (13%) 87 0.513
(0.967) 		0.353
(0.896) 		0.726
(1.00) 		0.708
(1.00) 		0.469
(0.958) 		0.118
(0.627) 		0.0831
(0.544) 		0.0685
(0.527) 		0.518
(0.969) 		0.505
(0.967) 		1
(1.00) 		0.761
(1.00) 		1
(1.00) 		0.288
(0.837) 		0.464
(0.957) 		0.587
(0.978)
del 3q25 1 6 (6%) 94 0.633
(0.987) 		0.414
(0.939) 		0.569
(0.975) 		1
(1.00) 		0.564
(0.975) 		1
(1.00) 		0.234
(0.781) 		0.586
(0.978) 		1
(1.00) 		1
(1.00) 		0.401
(0.934) 		0.671
(1.00) 		0.332
(0.89) 		1
(1.00) 		0.614
(0.986)
del 3q25 33 5 (5%) 95 0.705
(1.00) 		1
(1.00) 		0.298
(0.845) 		0.0293
(0.36) 		1
(1.00) 		0.421
(0.94) 		1
(1.00) 		1
(1.00) 		1
(1.00) 		1
(1.00) 		0.652
(0.997) 		0.622
(0.986) 		0.726
(1.00) 		1
(1.00)
del 7p22 1 9 (9%) 91 0.648
(0.995) 		0.249
(0.803) 		0.566
(0.975) 		0.885
(1.00) 		0.429
(0.94) 		0.204
(0.74) 		0.0205
(0.311) 		0.568
(0.975) 		1
(1.00) 		0.249
(0.802) 		1
(1.00) 		1
(1.00) 		1
(1.00) 		0.514
(0.967) 		0.428
(0.94) 		0.0967
(0.583)
del 7q11 21 16 (16%) 84 0.473
(0.958) 		0.324
(0.878) 		0.223
(0.766) 		0.43
(0.94) 		1
(1.00) 		0.697
(1.00) 		0.179
(0.715) 		0.713
(1.00) 		0.662
(1.00) 		1
(1.00) 		0.191
(0.722) 		0.773
(1.00) 		0.353
(0.897) 		0.39
(0.927) 		0.313
(0.872) 		0.0838
(0.544) 		0.0707
(0.533)
del 7q11 23 6 (6%) 94 0.657
(1.00) 		0.0846
(0.544) 		0.0799
(0.544) 		0.0293
(0.36) 		1
(1.00) 		0.235
(0.783) 		0.066
(0.527) 		0.495
(0.967) 		0.0851
(0.544) 		1
(1.00) 		1
(1.00) 		0.223
(0.766) 		0.671
(1.00) 		0.13
(0.642) 		0.135
(0.656) 		0.436
(0.94)
del 7q22 1 11 (11%) 89 0.548
(0.975) 		0.218
(0.759) 		0.449
(0.943) 		0.0975
(0.585) 		1
(1.00) 		0.0638
(0.527) 		0.151
(0.672) 		0.248
(0.802) 		0.581
(0.978) 		1
(1.00) 		0.474
(0.958) 		0.337
(0.892) 		0.724
(1.00) 		0.286
(0.837) 		0.693
(1.00) 		0.724
(1.00)
del 7q22 1 7 (7%) 93 0.637
(0.987) 		0.0872
(0.549) 		0.0293
(0.36) 		1
(1.00) 		0.163
(0.704) 		0.0669
(0.527) 		0.306
(0.857) 		0.776
(1.00) 		1
(1.00) 		0.387
(0.927) 		0.128
(0.64) 		1
(1.00) 		0.275
(0.826) 		0.347
(0.892) 		0.254
(0.804)
del 11p11 12 17 (17%) 83 0.359
(0.906) 		0.667
(1.00) 		0.0857
(0.544) 		0.178
(0.715) 		1
(1.00) 		0.898
(1.00) 		0.0255
(0.348) 		0.619
(0.986) 		0.547
(0.975) 		0.505
(0.967) 		1
(1.00) 		0.783
(1.00) 		1
(1.00) 		0.762
(1.00) 		0.346
(0.892) 		0.672
(1.00)
del 12p13 33 4 (4%) 96 0.0191
(0.3) 		0.263
(0.815) 		0.399
(0.934) 		0.738
(1.00) 		0.0394
(0.426) 		1
(1.00) 		0.627
(0.986) 		0.576
(0.976) 		0.0683
(0.527) 		0.57
(0.975) 		1
(1.00)
del 12p11 23 10 (10%) 90 0.546
(0.975) 		0.281
(0.833) 		0.876
(1.00) 		0.478
(0.958) 		1
(1.00) 		1
(1.00) 		0.337
(0.892) 		0.823
(1.00) 		1
(1.00) 		1
(1.00) 		0.747
(1.00) 		1
(1.00) 		0.392
(0.927) 		1
(1.00) 		0.516
(0.967)
del 12q21 32 18 (18%) 82 0.441
(0.943) 		0.681
(1.00) 		0.0995
(0.593) 		0.146
(0.664) 		0.218
(0.759) 		0.396
(0.931) 		0.628
(0.986) 		0.964
(1.00) 		0.0433
(0.45) 		1
(1.00) 		0.617
(0.986) 		0.437
(0.94) 		1
(1.00) 		0.486
(0.967) 		0.756
(1.00) 		0.292
(0.838)
del 14q32 31 20 (20%) 80 0.407
(0.937) 		0.847
(1.00) 		1
(1.00) 		0.335
(0.892) 		0.573
(0.975) 		0.821
(1.00) 		0.399
(0.934) 		0.392
(0.927) 		0.756
(1.00) 		1
(1.00) 		1
(1.00) 		0.608
(0.983) 		0.787
(1.00) 		0.433
(0.94) 		0.813
(1.00) 		1
(1.00) 		0.0441
(0.455)
del 15q15 1 26 (26%) 74 0.0818
(0.544) 		0.421
(0.94) 		0.0135
(0.251) 		0.226
(0.769) 		1
(1.00) 		0.709
(1.00) 		0.696
(1.00) 		0.885
(1.00) 		0.21
(0.751) 		1
(1.00) 		0.408
(0.937) 		0.637
(0.987) 		0.618
(0.986) 		0.0266
(0.353) 		0.239
(0.79) 		0.0535
(0.488) 		0.55
(0.975)
del 15q24 2 28 (28%) 72 0.123
(0.63) 		0.214
(0.759) 		0.109
(0.61) 		0.123
(0.63) 		0.574
(0.975) 		0.565
(0.975) 		0.7
(1.00) 		0.139
(0.664) 		0.0909
(0.563) 		0.308
(0.86) 		1
(1.00) 		0.5
(0.967) 		0.806
(1.00) 		0.195
(0.723) 		0.633
(0.987) 		0.788
(1.00) 		0.876
(1.00)
del 15q26 3 15 (15%) 85 0.389
(0.927) 		0.0782
(0.544) 		0.261
(0.813) 		0.946
(1.00) 		1
(1.00) 		0.176
(0.715) 		0.521
(0.973) 		0.0136
(0.251) 		0.835
(1.00) 		0.557
(0.975) 		0.142
(0.664) 		0.0494
(0.479) 		1
(1.00) 		0.877
(1.00) 		0.508
(0.967) 		0.455
(0.95)
del 16p13 3 24 (24%) 76 0.65
(0.996) 		0.0199
(0.304) 		0.671
(1.00) 		0.975
(1.00) 		0.413
(0.939) 		0.839
(1.00) 		0.536
(0.975) 		0.42
(0.94) 		0.642
(0.991) 		0.558
(0.975) 		1
(1.00) 		0.342
(0.892) 		0.0671
(0.527) 		0.192
(0.722) 		0.722
(1.00) 		1
(1.00) 		1
(1.00)
del 16p11 2 21 (21%) 79 0.341
(0.892) 		0.612
(0.986) 		0.568
(0.975) 		0.553
(0.975) 		1
(1.00) 		0.2
(0.732) 		0.169
(0.712) 		0.973
(1.00) 		0.392
(0.927) 		0.569
(0.975) 		1
(1.00) 		0.304
(0.853) 		0.574
(0.975) 		0.0479
(0.479) 		0.236
(0.785) 		0.551
(0.975) 		0.794
(1.00)
del 19p12 29 (29%) 71 0.121
(0.63) 		0.801
(1.00) 		0.264
(0.815) 		0.689
(1.00) 		0.171
(0.712) 		0.106
(0.609) 		0.24
(0.79) 		0.0816
(0.544) 		0.207
(0.747) 		1
(1.00) 		0.123
(0.63) 		0.372
(0.918) 		0.147
(0.665) 		0.953
(1.00) 		0.0759
(0.544) 		1
(1.00) 		0.0159
(0.274)
del 19q13 33 13 (13%) 87 0.517
(0.968) 		0.598
(0.978) 		0.188
(0.722) 		0.545
(0.975) 		0.806
(1.00) 		0.0378
(0.411) 		0.0249
(0.348) 		0.289
(0.837) 		0.454
(0.95) 		1
(1.00) 		1
(1.00) 		0.375
(0.921) 		0.101
(0.593) 		0.189
(0.722) 		0.726
(1.00) 		0.791
(1.00)
del 20p13 9 (9%) 91 0.561
(0.975) 		1
(1.00) 		0.273
(0.826) 		0.684
(1.00) 		1
(1.00) 		0.134
(0.654) 		0.255
(0.804) 		0.0732
(0.539) 		0.32
(0.877) 		0.32
(0.877) 		1
(1.00) 		0.291
(0.838) 		1
(1.00) 		0.931
(1.00) 		0.676
(1.00) 		1
(1.00)
del 20q13 13 6 (6%) 94 0.61
(0.985) 		0.652
(0.996) 		0.746
(1.00) 		0.378
(0.923) 		0.185
(0.722) 		0.1
(0.593) 		0.596
(0.978) 		0.32
(0.877) 		1
(1.00) 		0.69
(1.00) 		0.671
(1.00) 		0.726
(1.00) 		0.587
(0.978) 		0.822
(1.00)
del 22q13 2 22 (22%) 78 0.0518
(0.482) 		0.0522
(0.483) 		0.132
(0.65) 		0.39
(0.927) 		1
(1.00) 		0.627
(0.986) 		0.296
(0.844) 		0.248
(0.802) 		0.351
(0.896) 		0.558
(0.975) 		0.192
(0.722) 		0.619
(0.986) 		0.786
(1.00) 		0.207
(0.747) 		0.635
(0.987) 		1
(1.00) 		0.17
(0.712)
del xp11 23 47 (47%) 53 0.59
(0.978) 		0.296
(0.844) 		0.735
(1.00) 		0.218
(0.759) 		0.392
(0.927) 		1
(1.00) 		0.343
(0.892) 		0.812
(1.00) 		0.948
(1.00) 		1
(1.00) 		1
(1.00) 		0.84
(1.00) 		0.377
(0.922) 		0.0539
(0.49) 		0.0772
(0.544) 		0.628
(0.986) 		0.907
(1.00)
'amp_1p36.33' versus 'NUMBER_PACK_YEARS_SMOKED'

P value = 0.00348 (Wilcoxon-test), Q value = 0.13

Table S1.  Gene #1: 'amp_1p36.33' versus Clinical Feature #15: 'NUMBER_PACK_YEARS_SMOKED'

nPatients Mean (Std.Dev)
ALL 18 14.5 (11.9)
AMP PEAK 1(1P36.33) MUTATED 4 31.2 (12.2)
AMP PEAK 1(1P36.33) WILD-TYPE 14 9.7 (6.3)

Figure S1.  Get High-res Image Gene #1: 'amp_1p36.33' versus Clinical Feature #15: 'NUMBER_PACK_YEARS_SMOKED'

'amp_1q22' versus 'HISTOLOGICAL_TYPE'

P value = 0.00032 (Fisher's exact test), Q value = 0.031

Table S2.  Gene #3: 'amp_1q22' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
AMP PEAK 3(1Q22) MUTATED 1 25 0 16
AMP PEAK 3(1Q22) WILD-TYPE 0 52 1 5

Figure S2.  Get High-res Image Gene #3: 'amp_1q22' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'amp_2p23.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.00158 (Fisher's exact test), Q value = 0.078

Table S3.  Gene #5: 'amp_2p23.3' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
AMP PEAK 5(2P23.3) MUTATED 0 15 0 12
AMP PEAK 5(2P23.3) WILD-TYPE 1 62 1 9

Figure S3.  Get High-res Image Gene #5: 'amp_2p23.3' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'amp_2p23.3' versus 'PATHOLOGY_T_STAGE'

P value = 0.0109 (Wilcoxon-test), Q value = 0.23

Table S4.  Gene #5: 'amp_2p23.3' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

T1 T2 T3
ALL 78 11 10
AMP PEAK 5(2P23.3) MUTATED 16 6 5
AMP PEAK 5(2P23.3) WILD-TYPE 62 5 5

Figure S4.  Get High-res Image Gene #5: 'amp_2p23.3' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

'amp_2q13' versus 'HISTOLOGICAL_TYPE'

P value = 9e-05 (Fisher's exact test), Q value = 0.019

Table S5.  Gene #7: 'amp_2q13' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
AMP PEAK 7(2Q13) MUTATED 1 13 1 12
AMP PEAK 7(2Q13) WILD-TYPE 0 64 0 9

Figure S5.  Get High-res Image Gene #7: 'amp_2q13' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'amp_2q13' versus 'PATHOLOGY_T_STAGE'

P value = 0.0106 (Wilcoxon-test), Q value = 0.23

Table S6.  Gene #7: 'amp_2q13' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

T1 T2 T3
ALL 78 11 10
AMP PEAK 7(2Q13) MUTATED 16 6 5
AMP PEAK 7(2Q13) WILD-TYPE 62 5 5

Figure S6.  Get High-res Image Gene #7: 'amp_2q13' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

'amp_3p21.31' versus 'PATHOLOGY_T_STAGE'

P value = 0.00117 (Wilcoxon-test), Q value = 0.064

Table S7.  Gene #8: 'amp_3p21.31' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

T1 T2 T3
ALL 78 11 10
AMP PEAK 8(3P21.31) MUTATED 15 5 7
AMP PEAK 8(3P21.31) WILD-TYPE 63 6 3

Figure S7.  Get High-res Image Gene #8: 'amp_3p21.31' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

'amp_3q26.2' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0047

Table S8.  Gene #9: 'amp_3q26.2' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
AMP PEAK 9(3Q26.2) MUTATED 1 6 0 13
AMP PEAK 9(3Q26.2) WILD-TYPE 0 71 1 8

Figure S8.  Get High-res Image Gene #9: 'amp_3q26.2' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'amp_3q26.2' versus 'YEARS_TO_BIRTH'

P value = 0.000155 (Wilcoxon-test), Q value = 0.024

Table S9.  Gene #9: 'amp_3q26.2' versus Clinical Feature #9: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 100 63.6 (10.1)
AMP PEAK 9(3Q26.2) MUTATED 20 71.8 (9.3)
AMP PEAK 9(3Q26.2) WILD-TYPE 80 61.5 (9.2)

Figure S9.  Get High-res Image Gene #9: 'amp_3q26.2' versus Clinical Feature #9: 'YEARS_TO_BIRTH'

'amp_3q27.1' versus 'HISTOLOGICAL_TYPE'

P value = 2e-05 (Fisher's exact test), Q value = 0.0062

Table S10.  Gene #10: 'amp_3q27.1' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
AMP PEAK 10(3Q27.1) MUTATED 1 11 0 15
AMP PEAK 10(3Q27.1) WILD-TYPE 0 66 1 6

Figure S10.  Get High-res Image Gene #10: 'amp_3q27.1' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'amp_3q27.1' versus 'YEARS_TO_BIRTH'

P value = 0.0121 (Wilcoxon-test), Q value = 0.23

Table S11.  Gene #10: 'amp_3q27.1' versus Clinical Feature #9: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 100 63.6 (10.1)
AMP PEAK 10(3Q27.1) MUTATED 27 68.6 (9.8)
AMP PEAK 10(3Q27.1) WILD-TYPE 73 61.7 (9.5)

Figure S11.  Get High-res Image Gene #10: 'amp_3q27.1' versus Clinical Feature #9: 'YEARS_TO_BIRTH'

'amp_4p16.3' versus 'PATHOLOGY_T_STAGE'

P value = 0.00631 (Wilcoxon-test), Q value = 0.17

Table S12.  Gene #11: 'amp_4p16.3' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

T1 T2 T3
ALL 78 11 10
AMP PEAK 11(4P16.3) MUTATED 4 3 3
AMP PEAK 11(4P16.3) WILD-TYPE 74 8 7

Figure S12.  Get High-res Image Gene #11: 'amp_4p16.3' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

'amp_4p16.3' versus 'PATHOLOGY_N_STAGE'

P value = 0.0116 (Wilcoxon-test), Q value = 0.23

Table S13.  Gene #11: 'amp_4p16.3' versus Clinical Feature #7: 'PATHOLOGY_N_STAGE'

N0 N1 N2
ALL 46 6 3
AMP PEAK 11(4P16.3) MUTATED 1 2 1
AMP PEAK 11(4P16.3) WILD-TYPE 45 4 2

Figure S13.  Get High-res Image Gene #11: 'amp_4p16.3' versus Clinical Feature #7: 'PATHOLOGY_N_STAGE'

'amp_5q35.2' versus 'PATHOLOGY_T_STAGE'

P value = 0.00634 (Wilcoxon-test), Q value = 0.17

Table S14.  Gene #12: 'amp_5q35.2' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

T1 T2 T3
ALL 78 11 10
AMP PEAK 12(5Q35.2) MUTATED 4 3 3
AMP PEAK 12(5Q35.2) WILD-TYPE 74 8 7

Figure S14.  Get High-res Image Gene #12: 'amp_5q35.2' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

'amp_5q35.2' versus 'PATHOLOGIC_STAGE'

P value = 0.0118 (Fisher's exact test), Q value = 0.23

Table S15.  Gene #12: 'amp_5q35.2' versus Clinical Feature #8: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE IB STAGE II STAGE III STAGE IV STAGE IVB
ALL 72 1 1 8 15 2 1
AMP PEAK 12(5Q35.2) MUTATED 3 0 0 3 3 1 0
AMP PEAK 12(5Q35.2) WILD-TYPE 69 1 1 5 12 1 1

Figure S15.  Get High-res Image Gene #12: 'amp_5q35.2' versus Clinical Feature #8: 'PATHOLOGIC_STAGE'

'amp_7q11.23' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.000198 (Wilcoxon-test), Q value = 0.028

Table S16.  Gene #16: 'amp_7q11.23' versus Clinical Feature #4: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 58 91.9 (8.5)
AMP PEAK 16(7Q11.23) MUTATED 19 86.3 (9.6)
AMP PEAK 16(7Q11.23) WILD-TYPE 39 94.6 (6.4)

Figure S16.  Get High-res Image Gene #16: 'amp_7q11.23' versus Clinical Feature #4: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_7q11.23' versus 'PATHOLOGIC_STAGE'

P value = 0.00424 (Fisher's exact test), Q value = 0.14

Table S17.  Gene #16: 'amp_7q11.23' versus Clinical Feature #8: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE IB STAGE II STAGE III STAGE IV STAGE IVB
ALL 72 1 1 8 15 2 1
AMP PEAK 16(7Q11.23) MUTATED 19 1 1 6 7 0 1
AMP PEAK 16(7Q11.23) WILD-TYPE 53 0 0 2 8 2 0

Figure S17.  Get High-res Image Gene #16: 'amp_7q11.23' versus Clinical Feature #8: 'PATHOLOGIC_STAGE'

'amp_7q11.23' versus 'RADIATION_THERAPY'

P value = 0.0108 (Fisher's exact test), Q value = 0.23

Table S18.  Gene #16: 'amp_7q11.23' versus Clinical Feature #12: 'RADIATION_THERAPY'

nPatients NO YES
ALL 43 54
AMP PEAK 16(7Q11.23) MUTATED 9 25
AMP PEAK 16(7Q11.23) WILD-TYPE 34 29

Figure S18.  Get High-res Image Gene #16: 'amp_7q11.23' versus Clinical Feature #12: 'RADIATION_THERAPY'

'amp_8q22.3' versus 'YEARS_TO_BIRTH'

P value = 0.0122 (Wilcoxon-test), Q value = 0.24

Table S19.  Gene #18: 'amp_8q22.3' versus Clinical Feature #9: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 100 63.6 (10.1)
AMP PEAK 18(8Q22.3) MUTATED 27 67.1 (11.8)
AMP PEAK 18(8Q22.3) WILD-TYPE 73 62.2 (9.1)

Figure S19.  Get High-res Image Gene #18: 'amp_8q22.3' versus Clinical Feature #9: 'YEARS_TO_BIRTH'

'amp_11p11.2' versus 'PATHOLOGY_T_STAGE'

P value = 0.00029 (Wilcoxon-test), Q value = 0.03

Table S20.  Gene #24: 'amp_11p11.2' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

T1 T2 T3
ALL 78 11 10
AMP PEAK 24(11P11.2) MUTATED 6 4 5
AMP PEAK 24(11P11.2) WILD-TYPE 72 7 5

Figure S20.  Get High-res Image Gene #24: 'amp_11p11.2' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

'amp_11p11.2' versus 'PATHOLOGIC_STAGE'

P value = 0.00115 (Fisher's exact test), Q value = 0.064

Table S21.  Gene #24: 'amp_11p11.2' versus Clinical Feature #8: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE IB STAGE II STAGE III STAGE IV STAGE IVB
ALL 72 1 1 8 15 2 1
AMP PEAK 24(11P11.2) MUTATED 5 0 1 4 4 1 0
AMP PEAK 24(11P11.2) WILD-TYPE 67 1 0 4 11 1 1

Figure S21.  Get High-res Image Gene #24: 'amp_11p11.2' versus Clinical Feature #8: 'PATHOLOGIC_STAGE'

'amp_11q13.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.0112 (Fisher's exact test), Q value = 0.23

Table S22.  Gene #25: 'amp_11q13.2' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
AMP PEAK 25(11Q13.2) MUTATED 0 12 0 10
AMP PEAK 25(11Q13.2) WILD-TYPE 1 65 1 11

Figure S22.  Get High-res Image Gene #25: 'amp_11q13.2' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'amp_11q13.2' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00168 (Wilcoxon-test), Q value = 0.08

Table S23.  Gene #25: 'amp_11q13.2' versus Clinical Feature #4: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 58 91.9 (8.5)
AMP PEAK 25(11Q13.2) MUTATED 12 83.3 (12.3)
AMP PEAK 25(11Q13.2) WILD-TYPE 46 94.1 (5.4)

Figure S23.  Get High-res Image Gene #25: 'amp_11q13.2' versus Clinical Feature #4: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_11q13.2' versus 'PATHOLOGY_T_STAGE'

P value = 0.00034 (Wilcoxon-test), Q value = 0.031

Table S24.  Gene #25: 'amp_11q13.2' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

T1 T2 T3
ALL 78 11 10
AMP PEAK 25(11Q13.2) MUTATED 10 5 6
AMP PEAK 25(11Q13.2) WILD-TYPE 68 6 4

Figure S24.  Get High-res Image Gene #25: 'amp_11q13.2' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

'amp_11q13.2' versus 'PATHOLOGIC_STAGE'

P value = 0.00024 (Fisher's exact test), Q value = 0.03

Table S25.  Gene #25: 'amp_11q13.2' versus Clinical Feature #8: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE IB STAGE II STAGE III STAGE IV STAGE IVB
ALL 72 1 1 8 15 2 1
AMP PEAK 25(11Q13.2) MUTATED 8 0 1 4 7 1 1
AMP PEAK 25(11Q13.2) WILD-TYPE 64 1 0 4 8 1 0

Figure S25.  Get High-res Image Gene #25: 'amp_11q13.2' versus Clinical Feature #8: 'PATHOLOGIC_STAGE'

'amp_11q13.3' versus 'PATHOLOGY_T_STAGE'

P value = 0.00128 (Wilcoxon-test), Q value = 0.066

Table S26.  Gene #26: 'amp_11q13.3' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

T1 T2 T3
ALL 78 11 10
AMP PEAK 26(11Q13.3) MUTATED 9 5 5
AMP PEAK 26(11Q13.3) WILD-TYPE 69 6 5

Figure S26.  Get High-res Image Gene #26: 'amp_11q13.3' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

'amp_11q13.3' versus 'PATHOLOGIC_STAGE'

P value = 0.00534 (Fisher's exact test), Q value = 0.16

Table S27.  Gene #26: 'amp_11q13.3' versus Clinical Feature #8: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE IB STAGE II STAGE III STAGE IV STAGE IVB
ALL 72 1 1 8 15 2 1
AMP PEAK 26(11Q13.3) MUTATED 8 0 1 4 5 1 0
AMP PEAK 26(11Q13.3) WILD-TYPE 64 1 0 4 10 1 1

Figure S27.  Get High-res Image Gene #26: 'amp_11q13.3' versus Clinical Feature #8: 'PATHOLOGIC_STAGE'

'amp_12p13.33' versus 'PATHOLOGY_T_STAGE'

P value = 0.00705 (Wilcoxon-test), Q value = 0.18

Table S28.  Gene #27: 'amp_12p13.33' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

T1 T2 T3
ALL 78 11 10
AMP PEAK 27(12P13.33) MUTATED 23 8 6
AMP PEAK 27(12P13.33) WILD-TYPE 55 3 4

Figure S28.  Get High-res Image Gene #27: 'amp_12p13.33' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

'amp_12q13.2' versus 'HISTOLOGICAL_TYPE'

P value = 2e-05 (Fisher's exact test), Q value = 0.0062

Table S29.  Gene #28: 'amp_12q13.2' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
AMP PEAK 28(12Q13.2) MUTATED 1 10 1 12
AMP PEAK 28(12Q13.2) WILD-TYPE 0 67 0 9

Figure S29.  Get High-res Image Gene #28: 'amp_12q13.2' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'amp_12q24.31' versus 'HISTOLOGICAL_TYPE'

P value = 8e-05 (Fisher's exact test), Q value = 0.019

Table S30.  Gene #29: 'amp_12q24.31' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
AMP PEAK 29(12Q24.31) MUTATED 0 9 0 12
AMP PEAK 29(12Q24.31) WILD-TYPE 1 68 1 9

Figure S30.  Get High-res Image Gene #29: 'amp_12q24.31' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'amp_12q24.31' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00529 (Wilcoxon-test), Q value = 0.16

Table S31.  Gene #29: 'amp_12q24.31' versus Clinical Feature #4: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 58 91.9 (8.5)
AMP PEAK 29(12Q24.31) MUTATED 13 86.2 (9.6)
AMP PEAK 29(12Q24.31) WILD-TYPE 45 93.6 (7.4)

Figure S31.  Get High-res Image Gene #29: 'amp_12q24.31' versus Clinical Feature #4: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_13q12.11' versus 'DAYS_TO_DEATH_OR_LAST_FUP'

P value = 3.12e-07 (logrank test), Q value = 0.00058

Table S32.  Gene #30: 'amp_13q12.11' versus Clinical Feature #1: 'DAYS_TO_DEATH_OR_LAST_FUP'

nPatients nDeath Duration Range (Median), Month
ALL 99 3 0.0 - 130.4 (11.6)
AMP PEAK 30(13Q12.11) MUTATED 14 3 0.0 - 24.8 (10.1)
AMP PEAK 30(13Q12.11) WILD-TYPE 84 0 5.4 - 130.4 (11.7)

Figure S32.  Get High-res Image Gene #30: 'amp_13q12.11' versus Clinical Feature #1: 'DAYS_TO_DEATH_OR_LAST_FUP'

'amp_14q24.2' versus 'PATHOLOGY_T_STAGE'

P value = 0.00027 (Wilcoxon-test), Q value = 0.03

Table S33.  Gene #31: 'amp_14q24.2' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

T1 T2 T3
ALL 78 11 10
AMP PEAK 31(14Q24.2) MUTATED 6 5 4
AMP PEAK 31(14Q24.2) WILD-TYPE 72 6 6

Figure S33.  Get High-res Image Gene #31: 'amp_14q24.2' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

'amp_14q24.2' versus 'PATHOLOGIC_STAGE'

P value = 0.00112 (Fisher's exact test), Q value = 0.064

Table S34.  Gene #31: 'amp_14q24.2' versus Clinical Feature #8: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE IB STAGE II STAGE III STAGE IV STAGE IVB
ALL 72 1 1 8 15 2 1
AMP PEAK 31(14Q24.2) MUTATED 5 0 1 4 4 1 0
AMP PEAK 31(14Q24.2) WILD-TYPE 67 1 0 4 11 1 1

Figure S34.  Get High-res Image Gene #31: 'amp_14q24.2' versus Clinical Feature #8: 'PATHOLOGIC_STAGE'

'amp_17q12' versus 'HISTOLOGICAL_TYPE'

P value = 0.00093 (Fisher's exact test), Q value = 0.058

Table S35.  Gene #36: 'amp_17q12' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
AMP PEAK 36(17Q12) MUTATED 1 10 0 10
AMP PEAK 36(17Q12) WILD-TYPE 0 67 1 11

Figure S35.  Get High-res Image Gene #36: 'amp_17q12' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'amp_19p13.2' versus 'PATHOLOGY_T_STAGE'

P value = 0.00129 (Wilcoxon-test), Q value = 0.066

Table S36.  Gene #39: 'amp_19p13.2' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

T1 T2 T3
ALL 78 11 10
AMP PEAK 39(19P13.2) MUTATED 9 5 5
AMP PEAK 39(19P13.2) WILD-TYPE 69 6 5

Figure S36.  Get High-res Image Gene #39: 'amp_19p13.2' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

'amp_19p13.2' versus 'PATHOLOGIC_STAGE'

P value = 0.0013 (Fisher's exact test), Q value = 0.066

Table S37.  Gene #39: 'amp_19p13.2' versus Clinical Feature #8: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE IB STAGE II STAGE III STAGE IV STAGE IVB
ALL 72 1 1 8 15 2 1
AMP PEAK 39(19P13.2) MUTATED 8 0 1 4 5 1 1
AMP PEAK 39(19P13.2) WILD-TYPE 64 1 0 4 10 1 0

Figure S37.  Get High-res Image Gene #39: 'amp_19p13.2' versus Clinical Feature #8: 'PATHOLOGIC_STAGE'

'amp_19p13.11' versus 'HISTOLOGICAL_TYPE'

P value = 0.00954 (Fisher's exact test), Q value = 0.22

Table S38.  Gene #40: 'amp_19p13.11' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
AMP PEAK 40(19P13.11) MUTATED 1 12 0 9
AMP PEAK 40(19P13.11) WILD-TYPE 0 65 1 12

Figure S38.  Get High-res Image Gene #40: 'amp_19p13.11' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'amp_19q12' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0047

Table S39.  Gene #41: 'amp_19q12' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
AMP PEAK 41(19Q12) MUTATED 1 5 0 12
AMP PEAK 41(19Q12) WILD-TYPE 0 72 1 9

Figure S39.  Get High-res Image Gene #41: 'amp_19q12' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'amp_19q12' versus 'PATHOLOGY_N_STAGE'

P value = 0.0101 (Wilcoxon-test), Q value = 0.22

Table S40.  Gene #41: 'amp_19q12' versus Clinical Feature #7: 'PATHOLOGY_N_STAGE'

N0 N1 N2
ALL 46 6 3
AMP PEAK 41(19Q12) MUTATED 5 3 2
AMP PEAK 41(19Q12) WILD-TYPE 41 3 1

Figure S40.  Get High-res Image Gene #41: 'amp_19q12' versus Clinical Feature #7: 'PATHOLOGY_N_STAGE'

'amp_20q13.33' versus 'HISTOLOGICAL_TYPE'

P value = 0.00044 (Fisher's exact test), Q value = 0.037

Table S41.  Gene #43: 'amp_20q13.33' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
AMP PEAK 43(20Q13.33) MUTATED 0 15 0 13
AMP PEAK 43(20Q13.33) WILD-TYPE 1 62 1 8

Figure S41.  Get High-res Image Gene #43: 'amp_20q13.33' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'amp_20q13.33' versus 'FIGO_GRADE'

P value = 0.00871 (Fisher's exact test), Q value = 0.2

Table S42.  Gene #43: 'amp_20q13.33' versus Clinical Feature #3: 'FIGO_GRADE'

nPatients FIGO GRADE 1 FIGO GRADE 2 FIGO GRADE 3
ALL 32 34 7
AMP PEAK 43(20Q13.33) MUTATED 2 6 4
AMP PEAK 43(20Q13.33) WILD-TYPE 30 28 3

Figure S42.  Get High-res Image Gene #43: 'amp_20q13.33' versus Clinical Feature #3: 'FIGO_GRADE'

'amp_20q13.33' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.000704 (Wilcoxon-test), Q value = 0.053

Table S43.  Gene #43: 'amp_20q13.33' versus Clinical Feature #4: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 58 91.9 (8.5)
AMP PEAK 43(20Q13.33) MUTATED 15 84.7 (11.3)
AMP PEAK 43(20Q13.33) WILD-TYPE 43 94.4 (5.5)

Figure S43.  Get High-res Image Gene #43: 'amp_20q13.33' versus Clinical Feature #4: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_20q13.33' versus 'PATHOLOGY_T_STAGE'

P value = 0.00025 (Wilcoxon-test), Q value = 0.03

Table S44.  Gene #43: 'amp_20q13.33' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

T1 T2 T3
ALL 78 11 10
AMP PEAK 43(20Q13.33) MUTATED 14 6 7
AMP PEAK 43(20Q13.33) WILD-TYPE 64 5 3

Figure S44.  Get High-res Image Gene #43: 'amp_20q13.33' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

'amp_20q13.33' versus 'PATHOLOGIC_STAGE'

P value = 0.00207 (Fisher's exact test), Q value = 0.092

Table S45.  Gene #43: 'amp_20q13.33' versus Clinical Feature #8: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE IB STAGE II STAGE III STAGE IV STAGE IVB
ALL 72 1 1 8 15 2 1
AMP PEAK 43(20Q13.33) MUTATED 13 0 0 5 8 1 1
AMP PEAK 43(20Q13.33) WILD-TYPE 59 1 1 3 7 1 0

Figure S45.  Get High-res Image Gene #43: 'amp_20q13.33' versus Clinical Feature #8: 'PATHOLOGIC_STAGE'

'del_1p36.12' versus 'PATHOLOGY_T_STAGE'

P value = 0.00576 (Wilcoxon-test), Q value = 0.17

Table S46.  Gene #50: 'del_1p36.12' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

T1 T2 T3
ALL 78 11 10
DEL PEAK 2(1P36.12) MUTATED 8 5 3
DEL PEAK 2(1P36.12) WILD-TYPE 70 6 7

Figure S46.  Get High-res Image Gene #50: 'del_1p36.12' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

'del_1p36.12' versus 'PATHOLOGIC_STAGE'

P value = 0.00035 (Fisher's exact test), Q value = 0.031

Table S47.  Gene #50: 'del_1p36.12' versus Clinical Feature #8: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE IB STAGE II STAGE III STAGE IV STAGE IVB
ALL 72 1 1 8 15 2 1
DEL PEAK 2(1P36.12) MUTATED 5 0 1 4 5 1 0
DEL PEAK 2(1P36.12) WILD-TYPE 67 1 0 4 10 1 1

Figure S47.  Get High-res Image Gene #50: 'del_1p36.12' versus Clinical Feature #8: 'PATHOLOGIC_STAGE'

'del_1p13.2' versus 'PATHOLOGY_T_STAGE'

P value = 0.00999 (Wilcoxon-test), Q value = 0.22

Table S48.  Gene #51: 'del_1p13.2' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

T1 T2 T3
ALL 78 11 10
DEL PEAK 3(1P13.2) MUTATED 6 2 4
DEL PEAK 3(1P13.2) WILD-TYPE 72 9 6

Figure S48.  Get High-res Image Gene #51: 'del_1p13.2' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

'del_3p26.3' versus 'PATHOLOGY_N_STAGE'

P value = 0.0114 (Wilcoxon-test), Q value = 0.23

Table S49.  Gene #54: 'del_3p26.3' versus Clinical Feature #7: 'PATHOLOGY_N_STAGE'

N0 N1 N2
ALL 46 6 3
DEL PEAK 7(3P26.3) MUTATED 4 2 2
DEL PEAK 7(3P26.3) WILD-TYPE 42 4 1

Figure S49.  Get High-res Image Gene #54: 'del_3p26.3' versus Clinical Feature #7: 'PATHOLOGY_N_STAGE'

'del_3p12.2' versus 'COUNTRY_OF_ORIGIN'

P value = 0.00325 (Fisher's exact test), Q value = 0.12

Table S50.  Gene #56: 'del_3p12.2' versus Clinical Feature #17: 'COUNTRY_OF_ORIGIN'

nPatients MEXICO POLAND UKRAINE UNITED STATES
ALL 2 5 32 36
DEL PEAK 9(3P12.2) MUTATED 1 4 3 8
DEL PEAK 9(3P12.2) WILD-TYPE 1 1 29 28

Figure S50.  Get High-res Image Gene #56: 'del_3p12.2' versus Clinical Feature #17: 'COUNTRY_OF_ORIGIN'

'del_4p15.31' versus 'DAYS_TO_DEATH_OR_LAST_FUP'

P value = 0.00186 (logrank test), Q value = 0.087

Table S51.  Gene #59: 'del_4p15.31' versus Clinical Feature #1: 'DAYS_TO_DEATH_OR_LAST_FUP'

nPatients nDeath Duration Range (Median), Month
ALL 99 3 0.0 - 130.4 (11.6)
DEL PEAK 12(4P15.31) MUTATED 12 2 0.0 - 23.1 (11.3)
DEL PEAK 12(4P15.31) WILD-TYPE 86 1 1.9 - 130.4 (11.6)

Figure S51.  Get High-res Image Gene #59: 'del_4p15.31' versus Clinical Feature #1: 'DAYS_TO_DEATH_OR_LAST_FUP'

'del_4p15.31' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0047

Table S52.  Gene #59: 'del_4p15.31' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
DEL PEAK 12(4P15.31) MUTATED 1 3 0 9
DEL PEAK 12(4P15.31) WILD-TYPE 0 74 1 12

Figure S52.  Get High-res Image Gene #59: 'del_4p15.31' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'del_4p15.31' versus 'FIGO_GRADE'

P value = 0.0111 (Fisher's exact test), Q value = 0.23

Table S53.  Gene #59: 'del_4p15.31' versus Clinical Feature #3: 'FIGO_GRADE'

nPatients FIGO GRADE 1 FIGO GRADE 2 FIGO GRADE 3
ALL 32 34 7
DEL PEAK 12(4P15.31) MUTATED 1 0 2
DEL PEAK 12(4P15.31) WILD-TYPE 31 34 5

Figure S53.  Get High-res Image Gene #59: 'del_4p15.31' versus Clinical Feature #3: 'FIGO_GRADE'

'del_4p15.31' versus 'PATHOLOGY_N_STAGE'

P value = 0.00597 (Wilcoxon-test), Q value = 0.17

Table S54.  Gene #59: 'del_4p15.31' versus Clinical Feature #7: 'PATHOLOGY_N_STAGE'

N0 N1 N2
ALL 46 6 3
DEL PEAK 12(4P15.31) MUTATED 4 3 2
DEL PEAK 12(4P15.31) WILD-TYPE 42 3 1

Figure S54.  Get High-res Image Gene #59: 'del_4p15.31' versus Clinical Feature #7: 'PATHOLOGY_N_STAGE'

'del_4p15.31' versus 'PATHOLOGIC_STAGE'

P value = 0.00394 (Fisher's exact test), Q value = 0.13

Table S55.  Gene #59: 'del_4p15.31' versus Clinical Feature #8: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE IB STAGE II STAGE III STAGE IV STAGE IVB
ALL 72 1 1 8 15 2 1
DEL PEAK 12(4P15.31) MUTATED 5 0 0 1 5 2 0
DEL PEAK 12(4P15.31) WILD-TYPE 67 1 1 7 10 0 1

Figure S55.  Get High-res Image Gene #59: 'del_4p15.31' versus Clinical Feature #8: 'PATHOLOGIC_STAGE'

'del_4q13.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.00781 (Fisher's exact test), Q value = 0.19

Table S56.  Gene #60: 'del_4q13.2' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
DEL PEAK 13(4Q13.2) MUTATED 1 14 0 10
DEL PEAK 13(4Q13.2) WILD-TYPE 0 63 1 11

Figure S56.  Get High-res Image Gene #60: 'del_4q13.2' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'del_4q21.21' versus 'HISTOLOGICAL_TYPE'

P value = 0.00082 (Fisher's exact test), Q value = 0.054

Table S57.  Gene #61: 'del_4q21.21' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
DEL PEAK 14(4Q21.21) MUTATED 1 12 0 11
DEL PEAK 14(4Q21.21) WILD-TYPE 0 65 1 10

Figure S57.  Get High-res Image Gene #61: 'del_4q21.21' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'del_5q23.1' versus 'DAYS_TO_DEATH_OR_LAST_FUP'

P value = 0.00766 (logrank test), Q value = 0.19

Table S58.  Gene #62: 'del_5q23.1' versus Clinical Feature #1: 'DAYS_TO_DEATH_OR_LAST_FUP'

nPatients nDeath Duration Range (Median), Month
ALL 99 3 0.0 - 130.4 (11.6)
DEL PEAK 15(5Q23.1) MUTATED 12 2 5.4 - 24.8 (13.1)
DEL PEAK 15(5Q23.1) WILD-TYPE 86 1 0.0 - 130.4 (11.5)

Figure S58.  Get High-res Image Gene #62: 'del_5q23.1' versus Clinical Feature #1: 'DAYS_TO_DEATH_OR_LAST_FUP'

'del_5q23.1' versus 'FIGO_GRADE'

P value = 0.00528 (Fisher's exact test), Q value = 0.16

Table S59.  Gene #62: 'del_5q23.1' versus Clinical Feature #3: 'FIGO_GRADE'

nPatients FIGO GRADE 1 FIGO GRADE 2 FIGO GRADE 3
ALL 32 34 7
DEL PEAK 15(5Q23.1) MUTATED 1 1 3
DEL PEAK 15(5Q23.1) WILD-TYPE 31 33 4

Figure S59.  Get High-res Image Gene #62: 'del_5q23.1' versus Clinical Feature #3: 'FIGO_GRADE'

'del_5q23.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.00594 (Wilcoxon-test), Q value = 0.17

Table S60.  Gene #62: 'del_5q23.1' versus Clinical Feature #7: 'PATHOLOGY_N_STAGE'

N0 N1 N2
ALL 46 6 3
DEL PEAK 15(5Q23.1) MUTATED 3 2 2
DEL PEAK 15(5Q23.1) WILD-TYPE 43 4 1

Figure S60.  Get High-res Image Gene #62: 'del_5q23.1' versus Clinical Feature #7: 'PATHOLOGY_N_STAGE'

'del_6q22.31' versus 'BMI'

P value = 0.00076 (Fisher's exact test), Q value = 0.053

Table S61.  Gene #63: 'del_6q22.31' versus Clinical Feature #14: 'BMI'

nPatients NORMAL OBESE OVERWEIGHT SEVERELY OBESE UNDERWEIGHT
ALL 8 47 21 21 3
DEL PEAK 16(6Q22.31) MUTATED 2 0 6 1 0
DEL PEAK 16(6Q22.31) WILD-TYPE 6 47 15 20 3

Figure S61.  Get High-res Image Gene #63: 'del_6q22.31' versus Clinical Feature #14: 'BMI'

'del_8p23.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.00299 (Fisher's exact test), Q value = 0.12

Table S62.  Gene #69: 'del_8p23.2' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
DEL PEAK 22(8P23.2) MUTATED 0 4 0 7
DEL PEAK 22(8P23.2) WILD-TYPE 1 73 1 14

Figure S62.  Get High-res Image Gene #69: 'del_8p23.2' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'del_9p24.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.00816 (Fisher's exact test), Q value = 0.2

Table S63.  Gene #70: 'del_9p24.3' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
DEL PEAK 23(9P24.3) MUTATED 0 7 0 8
DEL PEAK 23(9P24.3) WILD-TYPE 1 70 1 13

Figure S63.  Get High-res Image Gene #70: 'del_9p24.3' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'del_9p24.3' versus 'PATHOLOGIC_STAGE'

P value = 0.00531 (Fisher's exact test), Q value = 0.16

Table S64.  Gene #70: 'del_9p24.3' versus Clinical Feature #8: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE IB STAGE II STAGE III STAGE IV STAGE IVB
ALL 72 1 1 8 15 2 1
DEL PEAK 23(9P24.3) MUTATED 6 0 0 3 4 2 0
DEL PEAK 23(9P24.3) WILD-TYPE 66 1 1 5 11 0 1

Figure S64.  Get High-res Image Gene #70: 'del_9p24.3' versus Clinical Feature #8: 'PATHOLOGIC_STAGE'

'del_9p24.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.00334 (Fisher's exact test), Q value = 0.12

Table S65.  Gene #71: 'del_9p24.1' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
DEL PEAK 24(9P24.1) MUTATED 0 4 0 7
DEL PEAK 24(9P24.1) WILD-TYPE 1 73 1 14

Figure S65.  Get High-res Image Gene #71: 'del_9p24.1' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'del_9p24.1' versus 'PATHOLOGY_N_STAGE'

P value = 0.0112 (Wilcoxon-test), Q value = 0.23

Table S66.  Gene #71: 'del_9p24.1' versus Clinical Feature #7: 'PATHOLOGY_N_STAGE'

N0 N1 N2
ALL 46 6 3
DEL PEAK 24(9P24.1) MUTATED 4 2 2
DEL PEAK 24(9P24.1) WILD-TYPE 42 4 1

Figure S66.  Get High-res Image Gene #71: 'del_9p24.1' versus Clinical Feature #7: 'PATHOLOGY_N_STAGE'

'del_9q21.32' versus 'HISTOLOGICAL_TYPE'

P value = 5e-04 (Fisher's exact test), Q value = 0.041

Table S67.  Gene #72: 'del_9q21.32' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
DEL PEAK 25(9Q21.32) MUTATED 1 16 0 13
DEL PEAK 25(9Q21.32) WILD-TYPE 0 61 1 8

Figure S67.  Get High-res Image Gene #72: 'del_9q21.32' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'del_10q11.22' versus 'PATHOLOGY_T_STAGE'

P value = 0.00605 (Wilcoxon-test), Q value = 0.17

Table S68.  Gene #73: 'del_10q11.22' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

T1 T2 T3
ALL 78 11 10
DEL PEAK 26(10Q11.22) MUTATED 2 1 3
DEL PEAK 26(10Q11.22) WILD-TYPE 76 10 7

Figure S68.  Get High-res Image Gene #73: 'del_10q11.22' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

'del_10q25.3' versus 'PATHOLOGIC_STAGE'

P value = 0.00845 (Fisher's exact test), Q value = 0.2

Table S69.  Gene #74: 'del_10q25.3' versus Clinical Feature #8: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE IB STAGE II STAGE III STAGE IV STAGE IVB
ALL 72 1 1 8 15 2 1
DEL PEAK 27(10Q25.3) MUTATED 5 0 1 1 5 1 0
DEL PEAK 27(10Q25.3) WILD-TYPE 67 1 0 7 10 1 1

Figure S69.  Get High-res Image Gene #74: 'del_10q25.3' versus Clinical Feature #8: 'PATHOLOGIC_STAGE'

'del_11p15.5' versus 'PATHOLOGY_T_STAGE'

P value = 0.00253 (Wilcoxon-test), Q value = 0.11

Table S70.  Gene #75: 'del_11p15.5' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

T1 T2 T3
ALL 78 11 10
DEL PEAK 28(11P15.5) MUTATED 6 0 5
DEL PEAK 28(11P15.5) WILD-TYPE 72 11 5

Figure S70.  Get High-res Image Gene #75: 'del_11p15.5' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

'del_11p15.5' versus 'PATHOLOGY_N_STAGE'

P value = 0.00757 (Wilcoxon-test), Q value = 0.19

Table S71.  Gene #75: 'del_11p15.5' versus Clinical Feature #7: 'PATHOLOGY_N_STAGE'

N0 N1 N2
ALL 46 6 3
DEL PEAK 28(11P15.5) MUTATED 2 1 2
DEL PEAK 28(11P15.5) WILD-TYPE 44 5 1

Figure S71.  Get High-res Image Gene #75: 'del_11p15.5' versus Clinical Feature #7: 'PATHOLOGY_N_STAGE'

'del_11p15.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.00083 (Fisher's exact test), Q value = 0.054

Table S72.  Gene #76: 'del_11p15.3' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
DEL PEAK 29(11P15.3) MUTATED 0 6 0 9
DEL PEAK 29(11P15.3) WILD-TYPE 1 71 1 12

Figure S72.  Get High-res Image Gene #76: 'del_11p15.3' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'del_11p15.3' versus 'PATHOLOGY_N_STAGE'

P value = 0.00075 (Wilcoxon-test), Q value = 0.053

Table S73.  Gene #76: 'del_11p15.3' versus Clinical Feature #7: 'PATHOLOGY_N_STAGE'

N0 N1 N2
ALL 46 6 3
DEL PEAK 29(11P15.3) MUTATED 2 3 2
DEL PEAK 29(11P15.3) WILD-TYPE 44 3 1

Figure S73.  Get High-res Image Gene #76: 'del_11p15.3' versus Clinical Feature #7: 'PATHOLOGY_N_STAGE'

'del_11q24.2' versus 'PATHOLOGY_T_STAGE'

P value = 0.0127 (Wilcoxon-test), Q value = 0.24

Table S74.  Gene #78: 'del_11q24.2' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

T1 T2 T3
ALL 78 11 10
DEL PEAK 31(11Q24.2) MUTATED 7 3 4
DEL PEAK 31(11Q24.2) WILD-TYPE 71 8 6

Figure S74.  Get High-res Image Gene #78: 'del_11q24.2' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

'del_13q12.11' versus 'HISTOLOGICAL_TYPE'

P value = 0.00677 (Fisher's exact test), Q value = 0.18

Table S75.  Gene #82: 'del_13q12.11' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
DEL PEAK 35(13Q12.11) MUTATED 1 8 0 7
DEL PEAK 35(13Q12.11) WILD-TYPE 0 69 1 14

Figure S75.  Get High-res Image Gene #82: 'del_13q12.11' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'del_13q12.11' versus 'BMI'

P value = 0.00231 (Fisher's exact test), Q value = 0.098

Table S76.  Gene #83: 'del_13q12.11' versus Clinical Feature #14: 'BMI'

nPatients NORMAL OBESE OVERWEIGHT SEVERELY OBESE UNDERWEIGHT
ALL 8 47 21 21 3
DEL PEAK 36(13Q12.11) MUTATED 1 1 7 4 1
DEL PEAK 36(13Q12.11) WILD-TYPE 7 46 14 17 2

Figure S76.  Get High-res Image Gene #83: 'del_13q12.11' versus Clinical Feature #14: 'BMI'

'del_13q31.3' versus 'FIGO_GRADE'

P value = 0.00027 (Fisher's exact test), Q value = 0.03

Table S77.  Gene #84: 'del_13q31.3' versus Clinical Feature #3: 'FIGO_GRADE'

nPatients FIGO GRADE 1 FIGO GRADE 2 FIGO GRADE 3
ALL 32 34 7
DEL PEAK 37(13Q31.3) MUTATED 0 3 4
DEL PEAK 37(13Q31.3) WILD-TYPE 32 31 3

Figure S77.  Get High-res Image Gene #84: 'del_13q31.3' versus Clinical Feature #3: 'FIGO_GRADE'

'del_15q11.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.00321 (Fisher's exact test), Q value = 0.12

Table S78.  Gene #86: 'del_15q11.2' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
DEL PEAK 39(15Q11.2) MUTATED 0 10 0 10
DEL PEAK 39(15Q11.2) WILD-TYPE 1 67 1 11

Figure S78.  Get High-res Image Gene #86: 'del_15q11.2' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'del_16p13.3' versus 'HISTOLOGICAL_TYPE'

P value = 4e-05 (Fisher's exact test), Q value = 0.011

Table S79.  Gene #91: 'del_16p13.3' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
DEL PEAK 44(16P13.3) MUTATED 1 1 0 7
DEL PEAK 44(16P13.3) WILD-TYPE 0 76 1 14

Figure S79.  Get High-res Image Gene #91: 'del_16p13.3' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'del_16p13.3' versus 'PATHOLOGY_N_STAGE'

P value = 0.00274 (Wilcoxon-test), Q value = 0.11

Table S80.  Gene #91: 'del_16p13.3' versus Clinical Feature #7: 'PATHOLOGY_N_STAGE'

N0 N1 N2
ALL 46 6 3
DEL PEAK 44(16P13.3) MUTATED 3 4 0
DEL PEAK 44(16P13.3) WILD-TYPE 43 2 3

Figure S80.  Get High-res Image Gene #91: 'del_16p13.3' versus Clinical Feature #7: 'PATHOLOGY_N_STAGE'

'del_16q22.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0038 (Fisher's exact test), Q value = 0.13

Table S81.  Gene #93: 'del_16q22.1' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
DEL PEAK 46(16Q22.1) MUTATED 0 4 0 7
DEL PEAK 46(16Q22.1) WILD-TYPE 1 73 1 14

Figure S81.  Get High-res Image Gene #93: 'del_16q22.1' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'del_16q22.1' versus 'BMI'

P value = 0.00716 (Fisher's exact test), Q value = 0.18

Table S82.  Gene #93: 'del_16q22.1' versus Clinical Feature #14: 'BMI'

nPatients NORMAL OBESE OVERWEIGHT SEVERELY OBESE UNDERWEIGHT
ALL 8 47 21 21 3
DEL PEAK 46(16Q22.1) MUTATED 2 1 6 2 0
DEL PEAK 46(16Q22.1) WILD-TYPE 6 46 15 19 3

Figure S82.  Get High-res Image Gene #93: 'del_16q22.1' versus Clinical Feature #14: 'BMI'

'del_16q22.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.00704 (Fisher's exact test), Q value = 0.18

Table S83.  Gene #94: 'del_16q22.2' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
DEL PEAK 47(16Q22.2) MUTATED 1 8 0 7
DEL PEAK 47(16Q22.2) WILD-TYPE 0 69 1 14

Figure S83.  Get High-res Image Gene #94: 'del_16q22.2' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'del_17p11.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.00355 (Fisher's exact test), Q value = 0.13

Table S84.  Gene #95: 'del_17p11.2' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
DEL PEAK 48(17P11.2) MUTATED 0 8 0 9
DEL PEAK 48(17P11.2) WILD-TYPE 1 69 1 12

Figure S84.  Get High-res Image Gene #95: 'del_17p11.2' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'del_17q21.32' versus 'DAYS_TO_DEATH_OR_LAST_FUP'

P value = 0.000586 (logrank test), Q value = 0.046

Table S85.  Gene #96: 'del_17q21.32' versus Clinical Feature #1: 'DAYS_TO_DEATH_OR_LAST_FUP'

nPatients nDeath Duration Range (Median), Month
ALL 99 3 0.0 - 130.4 (11.6)
DEL PEAK 49(17Q21.32) MUTATED 10 2 0.0 - 24.8 (10.7)
DEL PEAK 49(17Q21.32) WILD-TYPE 88 1 1.9 - 130.4 (11.6)

Figure S85.  Get High-res Image Gene #96: 'del_17q21.32' versus Clinical Feature #1: 'DAYS_TO_DEATH_OR_LAST_FUP'

'del_17q21.32' versus 'FIGO_GRADE'

P value = 0.00231 (Fisher's exact test), Q value = 0.098

Table S86.  Gene #96: 'del_17q21.32' versus Clinical Feature #3: 'FIGO_GRADE'

nPatients FIGO GRADE 1 FIGO GRADE 2 FIGO GRADE 3
ALL 32 34 7
DEL PEAK 49(17Q21.32) MUTATED 0 2 3
DEL PEAK 49(17Q21.32) WILD-TYPE 32 32 4

Figure S86.  Get High-res Image Gene #96: 'del_17q21.32' versus Clinical Feature #3: 'FIGO_GRADE'

'del_17q24.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.00372 (Fisher's exact test), Q value = 0.13

Table S87.  Gene #97: 'del_17q24.1' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
DEL PEAK 50(17Q24.1) MUTATED 0 4 0 7
DEL PEAK 50(17Q24.1) WILD-TYPE 1 73 1 14

Figure S87.  Get High-res Image Gene #97: 'del_17q24.1' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'del_18q22.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.00694 (Fisher's exact test), Q value = 0.18

Table S88.  Gene #98: 'del_18q22.1' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
DEL PEAK 51(18Q22.1) MUTATED 1 8 0 7
DEL PEAK 51(18Q22.1) WILD-TYPE 0 69 1 14

Figure S88.  Get High-res Image Gene #98: 'del_18q22.1' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'del_19p13.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.0118 (Fisher's exact test), Q value = 0.23

Table S89.  Gene #99: 'del_19p13.3' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
DEL PEAK 52(19P13.3) MUTATED 1 13 0 9
DEL PEAK 52(19P13.3) WILD-TYPE 0 64 1 12

Figure S89.  Get High-res Image Gene #99: 'del_19p13.3' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'del_19p13.2' versus 'COUNTRY_OF_ORIGIN'

P value = 0.00198 (Fisher's exact test), Q value = 0.09

Table S90.  Gene #100: 'del_19p13.2' versus Clinical Feature #17: 'COUNTRY_OF_ORIGIN'

nPatients MEXICO POLAND UKRAINE UNITED STATES
ALL 2 5 32 36
DEL PEAK 53(19P13.2) MUTATED 0 4 2 5
DEL PEAK 53(19P13.2) WILD-TYPE 2 1 30 31

Figure S90.  Get High-res Image Gene #100: 'del_19p13.2' versus Clinical Feature #17: 'COUNTRY_OF_ORIGIN'

'del_xp11.23' versus 'HISTOLOGICAL_TYPE'

P value = 0.00108 (Fisher's exact test), Q value = 0.064

Table S91.  Gene #107: 'del_xp11.23' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
DEL PEAK 60(XP11.23) MUTATED 1 21 0 14
DEL PEAK 60(XP11.23) WILD-TYPE 0 56 1 7

Figure S91.  Get High-res Image Gene #107: 'del_xp11.23' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'del_xp11.22' versus 'PATHOLOGY_T_STAGE'

P value = 0.00515 (Wilcoxon-test), Q value = 0.16

Table S92.  Gene #108: 'del_xp11.22' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

T1 T2 T3
ALL 78 11 10
DEL PEAK 61(XP11.22) MUTATED 17 7 5
DEL PEAK 61(XP11.22) WILD-TYPE 61 4 5

Figure S92.  Get High-res Image Gene #108: 'del_xp11.22' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

'del_xp11.22' versus 'PATHOLOGY_N_STAGE'

P value = 0.00937 (Wilcoxon-test), Q value = 0.22

Table S93.  Gene #108: 'del_xp11.22' versus Clinical Feature #7: 'PATHOLOGY_N_STAGE'

N0 N1 N2
ALL 46 6 3
DEL PEAK 61(XP11.22) MUTATED 16 0 3
DEL PEAK 61(XP11.22) WILD-TYPE 30 6 0

Figure S93.  Get High-res Image Gene #108: 'del_xp11.22' versus Clinical Feature #7: 'PATHOLOGY_N_STAGE'

'del_xp11.22' versus 'PATHOLOGIC_STAGE'

P value = 0.00727 (Fisher's exact test), Q value = 0.18

Table S94.  Gene #108: 'del_xp11.22' versus Clinical Feature #8: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE IB STAGE II STAGE III STAGE IV STAGE IVB
ALL 72 1 1 8 15 2 1
DEL PEAK 61(XP11.22) MUTATED 15 0 0 6 7 1 0
DEL PEAK 61(XP11.22) WILD-TYPE 57 1 1 2 8 1 1

Figure S94.  Get High-res Image Gene #108: 'del_xp11.22' versus Clinical Feature #8: 'PATHOLOGIC_STAGE'

'del_xq24' versus 'HISTOLOGICAL_TYPE'

P value = 0.00542 (Fisher's exact test), Q value = 0.16

Table S95.  Gene #109: 'del_xq24' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
DEL PEAK 62(XQ24) MUTATED 1 19 0 12
DEL PEAK 62(XQ24) WILD-TYPE 0 58 1 9

Figure S95.  Get High-res Image Gene #109: 'del_xq24' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'del_xq27.3' versus 'HISTOLOGICAL_TYPE'

P value = 1e-04 (Fisher's exact test), Q value = 0.019

Table S96.  Gene #110: 'del_xq27.3' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

nPatients CLEAR CELL CARCINOMA ENDOMETRIOID CARCINOMA MIXED CELL ADENOCARCINOMA SEROUS CARCINOMA
ALL 1 77 1 21
DEL PEAK 63(XQ27.3) MUTATED 1 18 0 15
DEL PEAK 63(XQ27.3) WILD-TYPE 0 59 1 6

Figure S96.  Get High-res Image Gene #110: 'del_xq27.3' versus Clinical Feature #2: 'HISTOLOGICAL_TYPE'

'del_xq27.3' versus 'PATHOLOGY_T_STAGE'

P value = 0.00955 (Wilcoxon-test), Q value = 0.22

Table S97.  Gene #110: 'del_xq27.3' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

T1 T2 T3
ALL 78 11 10
DEL PEAK 63(XQ27.3) MUTATED 21 7 6
DEL PEAK 63(XQ27.3) WILD-TYPE 57 4 4

Figure S97.  Get High-res Image Gene #110: 'del_xq27.3' versus Clinical Feature #6: 'PATHOLOGY_T_STAGE'

'del_xq27.3' versus 'PATHOLOGIC_STAGE'

P value = 0.00014 (Fisher's exact test), Q value = 0.024

Table S98.  Gene #110: 'del_xq27.3' versus Clinical Feature #8: 'PATHOLOGIC_STAGE'

nPatients STAGE I STAGE IA STAGE IB STAGE II STAGE III STAGE IV STAGE IVB
ALL 72 1 1 8 15 2 1
DEL PEAK 63(XQ27.3) MUTATED 16 1 1 6 8 2 0
DEL PEAK 63(XQ27.3) WILD-TYPE 56 0 0 2 7 0 1

Figure S98.  Get High-res Image Gene #110: 'del_xq27.3' versus Clinical Feature #8: 'PATHOLOGIC_STAGE'

Methods & Data
Input

  • Copy number data file = all_lesions.txt from GISTIC pipeline

  • Processed Copy number data file = /cromwell_root/fc-8b2df640-93e1-40a2-b735-5b7a14ef6398/f6846b1d-7088-48fb-8f46-873c7df79a36/correlate_genomic_events_all/d12c7c14-9beb-4a78-bdce-dba51ebbe929/call-preprocess_genomic_event/transformed.cor.cli.txt

  • Clinical data file = /cromwell_root/fc-8b2df640-93e1-40a2-b735-5b7a14ef6398/f48b4003-eaf7-47c4-8ca4-0ddbd4729902/normalize_clinical_cptac/0ea0fb0d-64a4-4204-8245-a79f52e6cd0a/call-normalize_clinical_cptac_task_1/CPTAC3-UCEC-TP.clin.merged.picked.txt

  • Number of patients = 100

  • Number of significantly focal cnvs = 110

  • Number of selected clinical features = 17

  • 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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