Correlation between copy number variations of arm-level result and selected clinical features
Uterine Corpus Endometrioid Carcinoma (Primary solid tumor)
15 July 2014  |  analyses__2014_07_15
Maintainer Information
Citation Information
doi:10.7908/C1KP810P
Maintained by TCGA GDAC Team (Broad Institute/MD Anderson Cancer Center/Harvard Medical School)
Cite as Broad Institute TCGA Genome Data Analysis Center (2014): Correlation between copy number variations of arm-level result and selected clinical features. Broad Institute of MIT and Harvard. doi:10.7908/C1KP810P
Overview
Introduction

This pipeline computes the correlation between significant arm-level copy number variations (cnvs) and selected clinical features.

Summary

Testing the association between copy number variation 80 arm-level events and 7 clinical features across 485 patients, 76 significant findings detected with Q value < 0.25.

  • 1p gain cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 2p gain cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 2q gain cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 3q gain cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 5p gain cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 6p gain cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 6q gain cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 11p gain cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 12p gain cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 13q gain cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 14q gain cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 17q gain cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 18p gain cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 18q gain cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 19p gain cnv correlated to 'AGE' and 'HISTOLOGICAL.TYPE'.

  • 19q gain cnv correlated to 'AGE' and 'HISTOLOGICAL.TYPE'.

  • 20p gain cnv correlated to 'AGE' and 'HISTOLOGICAL.TYPE'.

  • 20q gain cnv correlated to 'AGE' and 'HISTOLOGICAL.TYPE'.

  • 21q gain cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 22q gain cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 1p loss cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 1q loss cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 3p loss cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 3q loss cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 4p loss cnv correlated to 'AGE' and 'HISTOLOGICAL.TYPE'.

  • 4q loss cnv correlated to 'AGE' and 'HISTOLOGICAL.TYPE'.

  • 5p loss cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 5q loss cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 6p loss cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 6q loss cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 7p loss cnv correlated to 'AGE' and 'HISTOLOGICAL.TYPE'.

  • 7q loss cnv correlated to 'AGE' and 'HISTOLOGICAL.TYPE'.

  • 8p loss cnv correlated to 'AGE' and 'HISTOLOGICAL.TYPE'.

  • 8q loss cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 9p loss cnv correlated to 'AGE' and 'HISTOLOGICAL.TYPE'.

  • 9q loss cnv correlated to 'AGE' and 'HISTOLOGICAL.TYPE'.

  • 10p loss cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 10q loss cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 11p loss cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 11q loss cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 12p loss cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 12q loss cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 13q loss cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 14q loss cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 15q loss cnv correlated to 'AGE' and 'HISTOLOGICAL.TYPE'.

  • 16p loss cnv correlated to 'AGE' and 'HISTOLOGICAL.TYPE'.

  • 16q loss cnv correlated to 'AGE' and 'HISTOLOGICAL.TYPE'.

  • 17p loss cnv correlated to 'AGE' and 'HISTOLOGICAL.TYPE'.

  • 17q loss cnv correlated to 'AGE' and 'HISTOLOGICAL.TYPE'.

  • 18p loss cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 18q loss cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 19p loss cnv correlated to 'Time to Death' and 'HISTOLOGICAL.TYPE'.

  • 19q loss cnv correlated to 'Time to Death' and 'HISTOLOGICAL.TYPE'.

  • 21q loss cnv correlated to 'HISTOLOGICAL.TYPE'.

  • 22q loss cnv correlated to 'AGE' and 'HISTOLOGICAL.TYPE'.

  • xq loss cnv correlated to 'AGE' and 'HISTOLOGICAL.TYPE'.

Results
Overview of the results

Table 1.  Get Full Table Overview of the association between significant copy number variation of 80 arm-level events and 7 clinical features. Shown in the table are P values (Q values). Thresholded by Q value < 0.25, 76 significant findings detected.

Clinical
Features 		Time
to
Death 		AGE HISTOLOGICAL
TYPE 		RADIATIONS
RADIATION
REGIMENINDICATION 		COMPLETENESS
OF
RESECTION 		RACE ETHNICITY
nCNV (%) 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
19p gain 45 (9%) 440 0.0853
(1.00) 		2.93e-07
(0.000163) 		1e-05
(0.00552) 		0.389
(1.00) 		0.552
(1.00) 		0.0735
(1.00) 		1
(1.00)
19q gain 47 (10%) 438 0.0248
(1.00) 		2.65e-08
(1.48e-05) 		1e-05
(0.00552) 		1
(1.00) 		0.659
(1.00) 		0.00722
(1.00) 		0.376
(1.00)
20p gain 97 (20%) 388 0.0126
(1.00) 		4.44e-05
(0.022) 		1e-05
(0.00552) 		0.00362
(1.00) 		0.0616
(1.00) 		0.156
(1.00) 		1
(1.00)
20q gain 113 (23%) 372 0.00147
(0.699) 		6.15e-06
(0.00341) 		1e-05
(0.00552) 		0.00411
(1.00) 		0.0104
(1.00) 		0.0402
(1.00) 		0.491
(1.00)
4p loss 86 (18%) 399 0.0218
(1.00) 		5.32e-05
(0.0263) 		1e-05
(0.00552) 		0.113
(1.00) 		0.417
(1.00) 		0.31
(1.00) 		0.273
(1.00)
4q loss 86 (18%) 399 0.0103
(1.00) 		3.89e-05
(0.0193) 		1e-05
(0.00552) 		0.113
(1.00) 		0.423
(1.00) 		0.253
(1.00) 		1
(1.00)
7p loss 39 (8%) 446 0.0368
(1.00) 		1.94e-05
(0.00974) 		1e-05
(0.00552) 		0.354
(1.00) 		0.275
(1.00) 		0.0425
(1.00) 		1
(1.00)
7q loss 37 (8%) 448 0.436
(1.00) 		0.000255
(0.124) 		1e-05
(0.00552) 		0.448
(1.00) 		0.359
(1.00) 		0.244
(1.00) 		1
(1.00)
8p loss 69 (14%) 416 0.109
(1.00) 		1.73e-05
(0.00869) 		1e-05
(0.00552) 		1
(1.00) 		0.262
(1.00) 		0.0469
(1.00) 		1
(1.00)
9p loss 89 (18%) 396 0.0195
(1.00) 		9.19e-06
(0.00508) 		1e-05
(0.00552) 		0.437
(1.00) 		0.0338
(1.00) 		0.565
(1.00) 		1
(1.00)
9q loss 106 (22%) 379 0.0213
(1.00) 		1.12e-09
(6.26e-07) 		1e-05
(0.00552) 		0.225
(1.00) 		0.178
(1.00) 		0.182
(1.00) 		0.741
(1.00)
15q loss 94 (19%) 391 0.00416
(1.00) 		9.32e-07
(0.000518) 		1e-05
(0.00552) 		0.056
(1.00) 		0.269
(1.00) 		0.237
(1.00) 		1
(1.00)
16p loss 84 (17%) 401 0.0199
(1.00) 		1.11e-05
(0.0056) 		1e-05
(0.00552) 		0.231
(1.00) 		0.00727
(1.00) 		0.104
(1.00) 		0.46
(1.00)
16q loss 122 (25%) 363 0.0649
(1.00) 		2.41e-07
(0.000134) 		1e-05
(0.00552) 		0.0822
(1.00) 		0.0209
(1.00) 		0.0154
(1.00) 		1
(1.00)
17p loss 109 (22%) 376 0.00189
(0.885) 		1.07e-06
(0.000594) 		1e-05
(0.00552) 		0.547
(1.00) 		0.102
(1.00) 		0.0199
(1.00) 		0.501
(1.00)
17q loss 79 (16%) 406 0.0385
(1.00) 		7.32e-05
(0.0362) 		1e-05
(0.00552) 		0.414
(1.00) 		0.323
(1.00) 		0.33
(1.00) 		0.0473
(1.00)
19p loss 53 (11%) 432 0.000149
(0.0729) 		0.0482
(1.00) 		1e-05
(0.00552) 		0.872
(1.00) 		0.0964
(1.00) 		0.727
(1.00) 		0.168
(1.00)
19q loss 50 (10%) 435 0.000121
(0.0592) 		0.116
(1.00) 		1e-05
(0.00552) 		0.324
(1.00) 		0.152
(1.00) 		0.333
(1.00) 		0.131
(1.00)
22q loss 94 (19%) 391 0.0244
(1.00) 		1.71e-05
(0.00861) 		1e-05
(0.00552) 		0.056
(1.00) 		0.478
(1.00) 		0.181
(1.00) 		0.156
(1.00)
xq loss 64 (13%) 421 0.0165
(1.00) 		0.000394
(0.191) 		1e-05
(0.00552) 		0.0744
(1.00) 		0.177
(1.00) 		0.0846
(1.00) 		0.0936
(1.00)
1p gain 40 (8%) 445 0.00313
(1.00) 		0.136
(1.00) 		2e-05
(0.01) 		0.0656
(1.00) 		0.0333
(1.00) 		0.153
(1.00) 		1
(1.00)
2p gain 83 (17%) 402 0.00216
(1.00) 		0.00572
(1.00) 		1e-05
(0.00552) 		0.353
(1.00) 		0.568
(1.00) 		0.748
(1.00) 		0.136
(1.00)
2q gain 67 (14%) 418 0.0045
(1.00) 		0.0526
(1.00) 		2e-05
(0.01) 		0.307
(1.00) 		0.254
(1.00) 		0.772
(1.00) 		0.23
(1.00)
3q gain 67 (14%) 418 0.00171
(0.804) 		0.0106
(1.00) 		1e-05
(0.00552) 		0.662
(1.00) 		0.123
(1.00) 		0.0425
(1.00) 		1
(1.00)
5p gain 47 (10%) 438 0.000525
(0.254) 		0.00667
(1.00) 		1e-05
(0.00552) 		0.0877
(1.00) 		0.105
(1.00) 		0.0645
(1.00) 		0.367
(1.00)
6p gain 69 (14%) 416 0.784
(1.00) 		0.0249
(1.00) 		1e-05
(0.00552) 		0.476
(1.00) 		0.267
(1.00) 		0.0276
(1.00) 		1
(1.00)
6q gain 56 (12%) 429 0.893
(1.00) 		0.0562
(1.00) 		0.00013
(0.0637) 		0.754
(1.00) 		0.131
(1.00) 		0.0016
(0.758) 		1
(1.00)
11p gain 19 (4%) 466 0.0636
(1.00) 		0.0612
(1.00) 		0.00011
(0.0541) 		1
(1.00) 		0.15
(1.00) 		0.302
(1.00) 		0.395
(1.00)
12p gain 59 (12%) 426 0.123
(1.00) 		0.608
(1.00) 		0.00019
(0.0925) 		0.166
(1.00) 		0.797
(1.00) 		0.0372
(1.00) 		0.231
(1.00)
13q gain 27 (6%) 458 0.829
(1.00) 		0.00802
(1.00) 		1e-05
(0.00552) 		0.83
(1.00) 		0.182
(1.00) 		0.401
(1.00) 		1
(1.00)
14q gain 36 (7%) 449 0.314
(1.00) 		0.257
(1.00) 		1e-05
(0.00552) 		0.00369
(1.00) 		0.24
(1.00) 		0.512
(1.00) 		1
(1.00)
17q gain 25 (5%) 460 0.0106
(1.00) 		0.176
(1.00) 		0.00018
(0.0878) 		1
(1.00) 		0.0182
(1.00) 		0.00575
(1.00) 		0.523
(1.00)
18p gain 62 (13%) 423 0.0594
(1.00) 		0.000665
(0.32) 		1e-05
(0.00552) 		0.296
(1.00) 		0.00812
(1.00) 		0.00101
(0.483) 		0.667
(1.00)
18q gain 38 (8%) 447 0.0205
(1.00) 		0.0464
(1.00) 		1e-05
(0.00552) 		0.578
(1.00) 		0.0154
(1.00) 		0.228
(1.00) 		1
(1.00)
21q gain 32 (7%) 453 0.0905
(1.00) 		0.00416
(1.00) 		1e-05
(0.00552) 		0.232
(1.00) 		0.314
(1.00) 		0.228
(1.00) 		1
(1.00)
22q gain 29 (6%) 456 0.0533
(1.00) 		0.00258
(1.00) 		1e-05
(0.00552) 		0.676
(1.00) 		0.0249
(1.00) 		0.0425
(1.00) 		1
(1.00)
1p loss 21 (4%) 464 0.665
(1.00) 		0.0444
(1.00) 		1e-05
(0.00552) 		1
(1.00) 		0.00642
(1.00) 		0.58
(1.00) 		1
(1.00)
1q loss 13 (3%) 472 0.0875
(1.00) 		0.196
(1.00) 		8e-05
(0.0394) 		0.367
(1.00) 		0.018
(1.00) 		0.459
(1.00) 		1
(1.00)
3p loss 46 (9%) 439 0.185
(1.00) 		0.00633
(1.00) 		1e-05
(0.00552) 		0.607
(1.00) 		0.952
(1.00) 		0.279
(1.00) 		0.625
(1.00)
3q loss 29 (6%) 456 0.76
(1.00) 		0.0405
(1.00) 		1e-05
(0.00552) 		0.206
(1.00) 		0.473
(1.00) 		0.0454
(1.00) 		1
(1.00)
5p loss 48 (10%) 437 0.0118
(1.00) 		0.203
(1.00) 		1e-05
(0.00552) 		0.311
(1.00) 		0.0328
(1.00) 		0.292
(1.00) 		0.131
(1.00)
5q loss 66 (14%) 419 0.0113
(1.00) 		0.000778
(0.373) 		1e-05
(0.00552) 		0.558
(1.00) 		0.496
(1.00) 		0.281
(1.00) 		0.0824
(1.00)
6p loss 15 (3%) 470 0.666
(1.00) 		0.0735
(1.00) 		2e-05
(0.01) 		0.772
(1.00) 		0.628
(1.00) 		0.672
(1.00) 		0.319
(1.00)
6q loss 22 (5%) 463 0.551
(1.00) 		0.116
(1.00) 		1e-05
(0.00552) 		0.809
(1.00) 		0.534
(1.00) 		0.946
(1.00) 		0.441
(1.00)
8q loss 21 (4%) 464 0.74
(1.00) 		0.109
(1.00) 		1e-05
(0.00552) 		0.806
(1.00) 		0.399
(1.00) 		0.189
(1.00) 		0.441
(1.00)
10p loss 34 (7%) 451 0.16
(1.00) 		0.00258
(1.00) 		1e-05
(0.00552) 		0.331
(1.00) 		0.0778
(1.00) 		0.0334
(1.00) 		1
(1.00)
10q loss 33 (7%) 452 0.348
(1.00) 		0.00416
(1.00) 		1e-05
(0.00552) 		0.231
(1.00) 		0.469
(1.00) 		0.167
(1.00) 		0.611
(1.00)
11p loss 65 (13%) 420 0.00509
(1.00) 		0.00053
(0.256) 		1e-05
(0.00552) 		0.0269
(1.00) 		0.309
(1.00) 		0.124
(1.00) 		0.696
(1.00)
11q loss 62 (13%) 423 0.0106
(1.00) 		0.00159
(0.758) 		1e-05
(0.00552) 		0.0038
(1.00) 		0.0955
(1.00) 		0.117
(1.00) 		0.396
(1.00)
12p loss 39 (8%) 446 0.00162
(0.767) 		0.0461
(1.00) 		1e-05
(0.00552) 		0.143
(1.00) 		0.0546
(1.00) 		0.303
(1.00) 		1
(1.00)
12q loss 31 (6%) 454 0.000694
(0.334) 		0.0488
(1.00) 		1e-05
(0.00552) 		0.306
(1.00) 		0.624
(1.00) 		0.342
(1.00) 		0.56
(1.00)
13q loss 76 (16%) 409 0.0108
(1.00) 		0.00488
(1.00) 		1e-05
(0.00552) 		0.0725
(1.00) 		0.751
(1.00) 		0.777
(1.00) 		0.25
(1.00)
14q loss 53 (11%) 432 0.0585
(1.00) 		0.00178
(0.835) 		1e-05
(0.00552) 		0.523
(1.00) 		0.582
(1.00) 		0.00334
(1.00) 		0.114
(1.00)
18p loss 44 (9%) 441 0.239
(1.00) 		0.0211
(1.00) 		3e-05
(0.0149) 		0.293
(1.00) 		0.193
(1.00) 		0.959
(1.00) 		1
(1.00)
18q loss 55 (11%) 430 0.3
(1.00) 		0.0106
(1.00) 		1e-05
(0.00552) 		0.271
(1.00) 		0.197
(1.00) 		0.179
(1.00) 		0.684
(1.00)
21q loss 48 (10%) 437 0.0229
(1.00) 		0.00753
(1.00) 		1e-05
(0.00552) 		0.868
(1.00) 		0.254
(1.00) 		0.435
(1.00) 		1
(1.00)
1q gain 165 (34%) 320 0.142
(1.00) 		0.0237
(1.00) 		0.672
(1.00) 		0.915
(1.00) 		1
(1.00) 		0.696
(1.00) 		0.233
(1.00)
3p gain 38 (8%) 447 0.0484
(1.00) 		0.457
(1.00) 		0.0103
(1.00) 		0.0909
(1.00) 		0.155
(1.00) 		0.0466
(1.00) 		1
(1.00)
4p gain 12 (2%) 473 0.099
(1.00) 		0.0444
(1.00) 		0.00169
(0.798) 		0.748
(1.00) 		0.101
(1.00) 		0.0425
(1.00) 		0.235
(1.00)
4q gain 8 (2%) 477 0.669
(1.00) 		0.422
(1.00) 		0.0167
(1.00) 		0.45
(1.00) 		0.499
(1.00) 		0.27
(1.00) 		0.141
(1.00)
5q gain 18 (4%) 467 0.176
(1.00) 		0.711
(1.00) 		0.00219
(1.00) 		0.424
(1.00) 		0.245
(1.00) 		0.326
(1.00) 		1
(1.00)
7p gain 58 (12%) 427 0.0314
(1.00) 		0.255
(1.00) 		0.111
(1.00) 		0.352
(1.00) 		0.742
(1.00) 		0.843
(1.00) 		1
(1.00)
7q gain 56 (12%) 429 0.00175
(0.823) 		0.328
(1.00) 		0.211
(1.00) 		0.156
(1.00) 		0.523
(1.00) 		0.81
(1.00) 		1
(1.00)
8p gain 107 (22%) 378 0.0433
(1.00) 		0.0698
(1.00) 		0.638
(1.00) 		0.0888
(1.00) 		0.156
(1.00) 		0.598
(1.00) 		0.74
(1.00)
8q gain 139 (29%) 346 0.0084
(1.00) 		0.812
(1.00) 		0.00414
(1.00) 		0.0593
(1.00) 		0.232
(1.00) 		0.864
(1.00) 		0.358
(1.00)
9p gain 18 (4%) 467 0.471
(1.00) 		0.807
(1.00) 		0.248
(1.00) 		0.424
(1.00) 		0.307
(1.00) 		0.417
(1.00) 		0.00735
(1.00)
9q gain 7 (1%) 478 0.717
(1.00) 		0.913
(1.00) 		0.197
(1.00) 		0.679
(1.00) 		0.197
(1.00) 		0.0782
(1.00) 		0.174
(1.00)
10p gain 108 (22%) 377 0.754
(1.00) 		0.215
(1.00) 		0.772
(1.00) 		0.399
(1.00) 		0.822
(1.00) 		0.298
(1.00) 		0.312
(1.00)
10q gain 102 (21%) 383 0.679
(1.00) 		0.673
(1.00) 		0.823
(1.00) 		0.537
(1.00) 		0.37
(1.00) 		0.208
(1.00) 		1
(1.00)
11q gain 17 (4%) 468 0.00159
(0.758) 		0.17
(1.00) 		0.0326
(1.00) 		0.789
(1.00) 		0.249
(1.00) 		0.519
(1.00) 		1
(1.00)
12q gain 46 (9%) 439 0.122
(1.00) 		0.485
(1.00) 		0.151
(1.00) 		0.0876
(1.00) 		0.591
(1.00) 		0.0369
(1.00) 		0.378
(1.00)
15q gain 9 (2%) 476 0.00945
(1.00) 		0.762
(1.00) 		0.594
(1.00) 		0.456
(1.00) 		0.0611
(1.00) 		0.429
(1.00) 		0.264
(1.00)
16p gain 23 (5%) 462 0.549
(1.00) 		0.0454
(1.00) 		0.0646
(1.00) 		0.103
(1.00) 		0.186
(1.00) 		0.25
(1.00) 		0.463
(1.00)
16q gain 9 (2%) 476 0.914
(1.00) 		0.135
(1.00) 		0.164
(1.00) 		0.456
(1.00) 		0.00091
(0.436) 		0.136
(1.00) 		0.235
(1.00)
17p gain 11 (2%) 474 0.938
(1.00) 		0.654
(1.00) 		0.145
(1.00) 		1
(1.00) 		0.209
(1.00) 		1
(1.00) 		0.292
(1.00)
xq gain 58 (12%) 427 0.0119
(1.00) 		0.242
(1.00) 		0.33
(1.00) 		0.535
(1.00) 		0.234
(1.00) 		1
(1.00) 		1
(1.00)
2p loss 10 (2%) 475 0.0328
(1.00) 		0.112
(1.00) 		0.637
(1.00) 		0.0692
(1.00) 		0.0867
(1.00) 		0.374
(1.00) 		0.292
(1.00)
2q loss 16 (3%) 469 0.00474
(1.00) 		0.0583
(1.00) 		0.429
(1.00) 		0.0491
(1.00) 		0.33
(1.00) 		0.52
(1.00) 		0.418
(1.00)
20p loss 16 (3%) 469 0.646
(1.00) 		0.111
(1.00) 		0.00904
(1.00) 		0.0857
(1.00) 		0.146
(1.00) 		0.418
(1.00) 		0.371
(1.00)
20q loss 8 (2%) 477 0.263
(1.00) 		0.578
(1.00) 		0.00907
(1.00) 		0.0454
(1.00) 		1
(1.00) 		0.458
(1.00) 		1
(1.00)
'1p gain' versus 'HISTOLOGICAL.TYPE'

P value = 2e-05 (Fisher's exact test), Q value = 0.01

Table S1.  Gene #1: '1p gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
1P GAIN MUTATED 17 2 21
1P GAIN WILD-TYPE 350 18 77

Figure S1.  Get High-res Image Gene #1: '1p gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'2p gain' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S2.  Gene #3: '2p gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
2P GAIN MUTATED 40 5 38
2P GAIN WILD-TYPE 327 15 60

Figure S2.  Get High-res Image Gene #3: '2p gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'2q gain' versus 'HISTOLOGICAL.TYPE'

P value = 2e-05 (Fisher's exact test), Q value = 0.01

Table S3.  Gene #4: '2q gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
2Q GAIN MUTATED 34 4 29
2Q GAIN WILD-TYPE 333 16 69

Figure S3.  Get High-res Image Gene #4: '2q gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'3q gain' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S4.  Gene #6: '3q gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
3Q GAIN MUTATED 30 4 33
3Q GAIN WILD-TYPE 337 16 65

Figure S4.  Get High-res Image Gene #6: '3q gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'5p gain' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S5.  Gene #9: '5p gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
5P GAIN MUTATED 16 3 28
5P GAIN WILD-TYPE 351 17 70

Figure S5.  Get High-res Image Gene #9: '5p gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'6p gain' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S6.  Gene #11: '6p gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
6P GAIN MUTATED 34 1 34
6P GAIN WILD-TYPE 333 19 64

Figure S6.  Get High-res Image Gene #11: '6p gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'6q gain' versus 'HISTOLOGICAL.TYPE'

P value = 0.00013 (Fisher's exact test), Q value = 0.064

Table S7.  Gene #12: '6q gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
6Q GAIN MUTATED 30 1 25
6Q GAIN WILD-TYPE 337 19 73

Figure S7.  Get High-res Image Gene #12: '6q gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'11p gain' versus 'HISTOLOGICAL.TYPE'

P value = 0.00011 (Fisher's exact test), Q value = 0.054

Table S8.  Gene #21: '11p gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
11P GAIN MUTATED 7 0 12
11P GAIN WILD-TYPE 360 20 86

Figure S8.  Get High-res Image Gene #21: '11p gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'12p gain' versus 'HISTOLOGICAL.TYPE'

P value = 0.00019 (Fisher's exact test), Q value = 0.093

Table S9.  Gene #23: '12p gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
12P GAIN MUTATED 32 3 24
12P GAIN WILD-TYPE 335 17 74

Figure S9.  Get High-res Image Gene #23: '12p gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'13q gain' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S10.  Gene #25: '13q gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
13Q GAIN MUTATED 8 1 18
13Q GAIN WILD-TYPE 359 19 80

Figure S10.  Get High-res Image Gene #25: '13q gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'14q gain' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S11.  Gene #26: '14q gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
14Q GAIN MUTATED 14 2 20
14Q GAIN WILD-TYPE 353 18 78

Figure S11.  Get High-res Image Gene #26: '14q gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'17q gain' versus 'HISTOLOGICAL.TYPE'

P value = 0.00018 (Fisher's exact test), Q value = 0.088

Table S12.  Gene #31: '17q gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
17Q GAIN MUTATED 11 0 14
17Q GAIN WILD-TYPE 356 20 84

Figure S12.  Get High-res Image Gene #31: '17q gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'18p gain' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S13.  Gene #32: '18p gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
18P GAIN MUTATED 18 5 39
18P GAIN WILD-TYPE 349 15 59

Figure S13.  Get High-res Image Gene #32: '18p gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'18q gain' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S14.  Gene #33: '18q gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
18Q GAIN MUTATED 14 4 20
18Q GAIN WILD-TYPE 353 16 78

Figure S14.  Get High-res Image Gene #33: '18q gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'19p gain' versus 'AGE'

P value = 2.93e-07 (Wilcoxon-test), Q value = 0.00016

Table S15.  Gene #34: '19p gain' versus Clinical Feature #2: 'AGE'

nPatients Mean (Std.Dev)
ALL 484 63.7 (11.3)
19P GAIN MUTATED 45 71.2 (8.4)
19P GAIN WILD-TYPE 439 63.0 (11.3)

Figure S15.  Get High-res Image Gene #34: '19p gain' versus Clinical Feature #2: 'AGE'

'19p gain' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S16.  Gene #34: '19p gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
19P GAIN MUTATED 18 3 24
19P GAIN WILD-TYPE 349 17 74

Figure S16.  Get High-res Image Gene #34: '19p gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'19q gain' versus 'AGE'

P value = 2.65e-08 (Wilcoxon-test), Q value = 1.5e-05

Table S17.  Gene #35: '19q gain' versus Clinical Feature #2: 'AGE'

nPatients Mean (Std.Dev)
ALL 484 63.7 (11.3)
19Q GAIN MUTATED 47 71.7 (8.6)
19Q GAIN WILD-TYPE 437 62.9 (11.2)

Figure S17.  Get High-res Image Gene #35: '19q gain' versus Clinical Feature #2: 'AGE'

'19q gain' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S18.  Gene #35: '19q gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
19Q GAIN MUTATED 12 3 32
19Q GAIN WILD-TYPE 355 17 66

Figure S18.  Get High-res Image Gene #35: '19q gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'20p gain' versus 'AGE'

P value = 4.44e-05 (Wilcoxon-test), Q value = 0.022

Table S19.  Gene #36: '20p gain' versus Clinical Feature #2: 'AGE'

nPatients Mean (Std.Dev)
ALL 484 63.7 (11.3)
20P GAIN MUTATED 97 67.6 (10.2)
20P GAIN WILD-TYPE 387 62.8 (11.3)

Figure S19.  Get High-res Image Gene #36: '20p gain' versus Clinical Feature #2: 'AGE'

'20p gain' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S20.  Gene #36: '20p gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
20P GAIN MUTATED 43 4 50
20P GAIN WILD-TYPE 324 16 48

Figure S20.  Get High-res Image Gene #36: '20p gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'20q gain' versus 'AGE'

P value = 6.15e-06 (Wilcoxon-test), Q value = 0.0034

Table S21.  Gene #37: '20q gain' versus Clinical Feature #2: 'AGE'

nPatients Mean (Std.Dev)
ALL 484 63.7 (11.3)
20Q GAIN MUTATED 113 67.6 (10.0)
20Q GAIN WILD-TYPE 371 62.6 (11.4)

Figure S21.  Get High-res Image Gene #37: '20q gain' versus Clinical Feature #2: 'AGE'

'20q gain' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S22.  Gene #37: '20q gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
20Q GAIN MUTATED 49 4 60
20Q GAIN WILD-TYPE 318 16 38

Figure S22.  Get High-res Image Gene #37: '20q gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'21q gain' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S23.  Gene #38: '21q gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
21Q GAIN MUTATED 11 1 20
21Q GAIN WILD-TYPE 356 19 78

Figure S23.  Get High-res Image Gene #38: '21q gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'22q gain' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S24.  Gene #39: '22q gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
22Q GAIN MUTATED 7 1 21
22Q GAIN WILD-TYPE 360 19 77

Figure S24.  Get High-res Image Gene #39: '22q gain' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'1p loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S25.  Gene #41: '1p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
1P LOSS MUTATED 6 3 12
1P LOSS WILD-TYPE 361 17 86

Figure S25.  Get High-res Image Gene #41: '1p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'1q loss' versus 'HISTOLOGICAL.TYPE'

P value = 8e-05 (Fisher's exact test), Q value = 0.039

Table S26.  Gene #42: '1q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
1Q LOSS MUTATED 3 2 8
1Q LOSS WILD-TYPE 364 18 90

Figure S26.  Get High-res Image Gene #42: '1q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'3p loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S27.  Gene #45: '3p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
3P LOSS MUTATED 16 6 24
3P LOSS WILD-TYPE 351 14 74

Figure S27.  Get High-res Image Gene #45: '3p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'3q loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S28.  Gene #46: '3q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
3Q LOSS MUTATED 10 2 17
3Q LOSS WILD-TYPE 357 18 81

Figure S28.  Get High-res Image Gene #46: '3q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'4p loss' versus 'AGE'

P value = 5.32e-05 (Wilcoxon-test), Q value = 0.026

Table S29.  Gene #47: '4p loss' versus Clinical Feature #2: 'AGE'

nPatients Mean (Std.Dev)
ALL 484 63.7 (11.3)
4P LOSS MUTATED 86 68.1 (9.7)
4P LOSS WILD-TYPE 398 62.8 (11.4)

Figure S29.  Get High-res Image Gene #47: '4p loss' versus Clinical Feature #2: 'AGE'

'4p loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S30.  Gene #47: '4p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
4P LOSS MUTATED 29 5 52
4P LOSS WILD-TYPE 338 15 46

Figure S30.  Get High-res Image Gene #47: '4p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'4q loss' versus 'AGE'

P value = 3.89e-05 (Wilcoxon-test), Q value = 0.019

Table S31.  Gene #48: '4q loss' versus Clinical Feature #2: 'AGE'

nPatients Mean (Std.Dev)
ALL 484 63.7 (11.3)
4Q LOSS MUTATED 86 68.1 (9.9)
4Q LOSS WILD-TYPE 398 62.8 (11.3)

Figure S31.  Get High-res Image Gene #48: '4q loss' versus Clinical Feature #2: 'AGE'

'4q loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S32.  Gene #48: '4q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
4Q LOSS MUTATED 29 6 51
4Q LOSS WILD-TYPE 338 14 47

Figure S32.  Get High-res Image Gene #48: '4q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'5p loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S33.  Gene #49: '5p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
5P LOSS MUTATED 16 1 31
5P LOSS WILD-TYPE 351 19 67

Figure S33.  Get High-res Image Gene #49: '5p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'5q loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S34.  Gene #50: '5q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
5Q LOSS MUTATED 19 4 43
5Q LOSS WILD-TYPE 348 16 55

Figure S34.  Get High-res Image Gene #50: '5q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'6p loss' versus 'HISTOLOGICAL.TYPE'

P value = 2e-05 (Fisher's exact test), Q value = 0.01

Table S35.  Gene #51: '6p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
6P LOSS MUTATED 3 1 11
6P LOSS WILD-TYPE 364 19 87

Figure S35.  Get High-res Image Gene #51: '6p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'6q loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S36.  Gene #52: '6q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
6Q LOSS MUTATED 4 1 17
6Q LOSS WILD-TYPE 363 19 81

Figure S36.  Get High-res Image Gene #52: '6q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'7p loss' versus 'AGE'

P value = 1.94e-05 (Wilcoxon-test), Q value = 0.0097

Table S37.  Gene #53: '7p loss' versus Clinical Feature #2: 'AGE'

nPatients Mean (Std.Dev)
ALL 484 63.7 (11.3)
7P LOSS MUTATED 39 70.4 (9.7)
7P LOSS WILD-TYPE 445 63.2 (11.2)

Figure S37.  Get High-res Image Gene #53: '7p loss' versus Clinical Feature #2: 'AGE'

'7p loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S38.  Gene #53: '7p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
7P LOSS MUTATED 14 2 23
7P LOSS WILD-TYPE 353 18 75

Figure S38.  Get High-res Image Gene #53: '7p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'7q loss' versus 'AGE'

P value = 0.000255 (Wilcoxon-test), Q value = 0.12

Table S39.  Gene #54: '7q loss' versus Clinical Feature #2: 'AGE'

nPatients Mean (Std.Dev)
ALL 484 63.7 (11.3)
7Q LOSS MUTATED 37 69.5 (7.0)
7Q LOSS WILD-TYPE 447 63.3 (11.4)

Figure S39.  Get High-res Image Gene #54: '7q loss' versus Clinical Feature #2: 'AGE'

'7q loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S40.  Gene #54: '7q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
7Q LOSS MUTATED 8 2 27
7Q LOSS WILD-TYPE 359 18 71

Figure S40.  Get High-res Image Gene #54: '7q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'8p loss' versus 'AGE'

P value = 1.73e-05 (Wilcoxon-test), Q value = 0.0087

Table S41.  Gene #55: '8p loss' versus Clinical Feature #2: 'AGE'

nPatients Mean (Std.Dev)
ALL 484 63.7 (11.3)
8P LOSS MUTATED 69 68.5 (8.7)
8P LOSS WILD-TYPE 415 63.0 (11.5)

Figure S41.  Get High-res Image Gene #55: '8p loss' versus Clinical Feature #2: 'AGE'

'8p loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S42.  Gene #55: '8p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
8P LOSS MUTATED 15 4 50
8P LOSS WILD-TYPE 352 16 48

Figure S42.  Get High-res Image Gene #55: '8p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'8q loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S43.  Gene #56: '8q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
8Q LOSS MUTATED 2 1 18
8Q LOSS WILD-TYPE 365 19 80

Figure S43.  Get High-res Image Gene #56: '8q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'9p loss' versus 'AGE'

P value = 9.19e-06 (Wilcoxon-test), Q value = 0.0051

Table S44.  Gene #57: '9p loss' versus Clinical Feature #2: 'AGE'

nPatients Mean (Std.Dev)
ALL 484 63.7 (11.3)
9P LOSS MUTATED 89 68.1 (8.6)
9P LOSS WILD-TYPE 395 62.8 (11.6)

Figure S44.  Get High-res Image Gene #57: '9p loss' versus Clinical Feature #2: 'AGE'

'9p loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S45.  Gene #57: '9p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
9P LOSS MUTATED 30 8 51
9P LOSS WILD-TYPE 337 12 47

Figure S45.  Get High-res Image Gene #57: '9p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'9q loss' versus 'AGE'

P value = 1.12e-09 (Wilcoxon-test), Q value = 6.3e-07

Table S46.  Gene #58: '9q loss' versus Clinical Feature #2: 'AGE'

nPatients Mean (Std.Dev)
ALL 484 63.7 (11.3)
9Q LOSS MUTATED 106 69.3 (8.8)
9Q LOSS WILD-TYPE 378 62.2 (11.4)

Figure S46.  Get High-res Image Gene #58: '9q loss' versus Clinical Feature #2: 'AGE'

'9q loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S47.  Gene #58: '9q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
9Q LOSS MUTATED 42 9 55
9Q LOSS WILD-TYPE 325 11 43

Figure S47.  Get High-res Image Gene #58: '9q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'10p loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S48.  Gene #59: '10p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
10P LOSS MUTATED 9 4 21
10P LOSS WILD-TYPE 358 16 77

Figure S48.  Get High-res Image Gene #59: '10p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'10q loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S49.  Gene #60: '10q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
10Q LOSS MUTATED 11 4 18
10Q LOSS WILD-TYPE 356 16 80

Figure S49.  Get High-res Image Gene #60: '10q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'11p loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S50.  Gene #61: '11p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
11P LOSS MUTATED 23 6 36
11P LOSS WILD-TYPE 344 14 62

Figure S50.  Get High-res Image Gene #61: '11p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'11q loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S51.  Gene #62: '11q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
11Q LOSS MUTATED 20 7 35
11Q LOSS WILD-TYPE 347 13 63

Figure S51.  Get High-res Image Gene #62: '11q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'12p loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S52.  Gene #63: '12p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
12P LOSS MUTATED 13 1 25
12P LOSS WILD-TYPE 354 19 73

Figure S52.  Get High-res Image Gene #63: '12p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'12q loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S53.  Gene #64: '12q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
12Q LOSS MUTATED 8 1 22
12Q LOSS WILD-TYPE 359 19 76

Figure S53.  Get High-res Image Gene #64: '12q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'13q loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S54.  Gene #65: '13q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
13Q LOSS MUTATED 40 5 31
13Q LOSS WILD-TYPE 327 15 67

Figure S54.  Get High-res Image Gene #65: '13q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'14q loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S55.  Gene #66: '14q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
14Q LOSS MUTATED 19 3 31
14Q LOSS WILD-TYPE 348 17 67

Figure S55.  Get High-res Image Gene #66: '14q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'15q loss' versus 'AGE'

P value = 9.32e-07 (Wilcoxon-test), Q value = 0.00052

Table S56.  Gene #67: '15q loss' versus Clinical Feature #2: 'AGE'

nPatients Mean (Std.Dev)
ALL 484 63.7 (11.3)
15Q LOSS MUTATED 94 68.7 (10.4)
15Q LOSS WILD-TYPE 390 62.6 (11.2)

Figure S56.  Get High-res Image Gene #67: '15q loss' versus Clinical Feature #2: 'AGE'

'15q loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S57.  Gene #67: '15q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
15Q LOSS MUTATED 33 8 53
15Q LOSS WILD-TYPE 334 12 45

Figure S57.  Get High-res Image Gene #67: '15q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'16p loss' versus 'AGE'

P value = 1.11e-05 (Wilcoxon-test), Q value = 0.0056

Table S58.  Gene #68: '16p loss' versus Clinical Feature #2: 'AGE'

nPatients Mean (Std.Dev)
ALL 484 63.7 (11.3)
16P LOSS MUTATED 84 68.2 (9.9)
16P LOSS WILD-TYPE 400 62.8 (11.3)

Figure S58.  Get High-res Image Gene #68: '16p loss' versus Clinical Feature #2: 'AGE'

'16p loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S59.  Gene #68: '16p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
16P LOSS MUTATED 29 6 49
16P LOSS WILD-TYPE 338 14 49

Figure S59.  Get High-res Image Gene #68: '16p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'16q loss' versus 'AGE'

P value = 2.41e-07 (Wilcoxon-test), Q value = 0.00013

Table S60.  Gene #69: '16q loss' versus Clinical Feature #2: 'AGE'

nPatients Mean (Std.Dev)
ALL 484 63.7 (11.3)
16Q LOSS MUTATED 122 68.0 (9.5)
16Q LOSS WILD-TYPE 362 62.3 (11.5)

Figure S60.  Get High-res Image Gene #69: '16q loss' versus Clinical Feature #2: 'AGE'

'16q loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S61.  Gene #69: '16q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
16Q LOSS MUTATED 49 7 66
16Q LOSS WILD-TYPE 318 13 32

Figure S61.  Get High-res Image Gene #69: '16q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'17p loss' versus 'AGE'

P value = 1.07e-06 (Wilcoxon-test), Q value = 0.00059

Table S62.  Gene #70: '17p loss' versus Clinical Feature #2: 'AGE'

nPatients Mean (Std.Dev)
ALL 484 63.7 (11.3)
17P LOSS MUTATED 109 68.0 (9.2)
17P LOSS WILD-TYPE 375 62.5 (11.5)

Figure S62.  Get High-res Image Gene #70: '17p loss' versus Clinical Feature #2: 'AGE'

'17p loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S63.  Gene #70: '17p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
17P LOSS MUTATED 39 9 61
17P LOSS WILD-TYPE 328 11 37

Figure S63.  Get High-res Image Gene #70: '17p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'17q loss' versus 'AGE'

P value = 7.32e-05 (Wilcoxon-test), Q value = 0.036

Table S64.  Gene #71: '17q loss' versus Clinical Feature #2: 'AGE'

nPatients Mean (Std.Dev)
ALL 484 63.7 (11.3)
17Q LOSS MUTATED 79 68.0 (9.8)
17Q LOSS WILD-TYPE 405 62.9 (11.4)

Figure S64.  Get High-res Image Gene #71: '17q loss' versus Clinical Feature #2: 'AGE'

'17q loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S65.  Gene #71: '17q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
17Q LOSS MUTATED 32 7 40
17Q LOSS WILD-TYPE 335 13 58

Figure S65.  Get High-res Image Gene #71: '17q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'18p loss' versus 'HISTOLOGICAL.TYPE'

P value = 3e-05 (Fisher's exact test), Q value = 0.015

Table S66.  Gene #72: '18p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
18P LOSS MUTATED 20 5 19
18P LOSS WILD-TYPE 347 15 79

Figure S66.  Get High-res Image Gene #72: '18p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'18q loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S67.  Gene #73: '18q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
18Q LOSS MUTATED 23 6 26
18Q LOSS WILD-TYPE 344 14 72

Figure S67.  Get High-res Image Gene #73: '18q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'19p loss' versus 'Time to Death'

P value = 0.000149 (logrank test), Q value = 0.073

Table S68.  Gene #74: '19p loss' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 483 60 0.0 - 191.8 (22.8)
19P LOSS MUTATED 52 14 0.0 - 96.7 (15.6)
19P LOSS WILD-TYPE 431 46 0.1 - 191.8 (23.3)

Figure S68.  Get High-res Image Gene #74: '19p loss' versus Clinical Feature #1: 'Time to Death'

'19p loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S69.  Gene #74: '19p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
19P LOSS MUTATED 16 4 33
19P LOSS WILD-TYPE 351 16 65

Figure S69.  Get High-res Image Gene #74: '19p loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'19q loss' versus 'Time to Death'

P value = 0.000121 (logrank test), Q value = 0.059

Table S70.  Gene #75: '19q loss' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 483 60 0.0 - 191.8 (22.8)
19Q LOSS MUTATED 49 14 0.0 - 125.4 (14.4)
19Q LOSS WILD-TYPE 434 46 0.1 - 191.8 (23.3)

Figure S70.  Get High-res Image Gene #75: '19q loss' versus Clinical Feature #1: 'Time to Death'

'19q loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S71.  Gene #75: '19q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
19Q LOSS MUTATED 16 4 30
19Q LOSS WILD-TYPE 351 16 68

Figure S71.  Get High-res Image Gene #75: '19q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'21q loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S72.  Gene #78: '21q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
21Q LOSS MUTATED 17 4 27
21Q LOSS WILD-TYPE 350 16 71

Figure S72.  Get High-res Image Gene #78: '21q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'22q loss' versus 'AGE'

P value = 1.71e-05 (Wilcoxon-test), Q value = 0.0086

Table S73.  Gene #79: '22q loss' versus Clinical Feature #2: 'AGE'

nPatients Mean (Std.Dev)
ALL 484 63.7 (11.3)
22Q LOSS MUTATED 94 68.0 (9.0)
22Q LOSS WILD-TYPE 390 62.7 (11.5)

Figure S73.  Get High-res Image Gene #79: '22q loss' versus Clinical Feature #2: 'AGE'

'22q loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S74.  Gene #79: '22q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
22Q LOSS MUTATED 39 10 45
22Q LOSS WILD-TYPE 328 10 53

Figure S74.  Get High-res Image Gene #79: '22q loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

'xq loss' versus 'AGE'

P value = 0.000394 (Wilcoxon-test), Q value = 0.19

Table S75.  Gene #80: 'xq loss' versus Clinical Feature #2: 'AGE'

nPatients Mean (Std.Dev)
ALL 484 63.7 (11.3)
XQ LOSS MUTATED 64 68.2 (9.7)
XQ LOSS WILD-TYPE 420 63.1 (11.3)

Figure S75.  Get High-res Image Gene #80: 'xq loss' versus Clinical Feature #2: 'AGE'

'xq loss' versus 'HISTOLOGICAL.TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.0055

Table S76.  Gene #80: 'xq loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

nPatients ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
ALL 367 20 98
XQ LOSS MUTATED 27 3 34
XQ LOSS WILD-TYPE 340 17 64

Figure S76.  Get High-res Image Gene #80: 'xq loss' versus Clinical Feature #3: 'HISTOLOGICAL.TYPE'

Methods & Data
Input

  • Copy number data file = transformed.cor.cli.txt

  • Clinical data file = UCEC-TP.merged_data.txt

  • Number of patients = 485

  • Number of significantly arm-level cnvs = 80

  • Number of selected clinical features = 7

  • Exclude regions 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.

Download Results

In addition to the links below, the full results of the analysis summarized in this report can also be downloaded programmatically using firehose_get, or interactively from either the Broad GDAC website or TCGA Data Coordination Center Portal.

References
[1] 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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