Correlation between copy number variations of arm-level result and selected clinical features
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 14 clinical features across 482 patients, 497 significant findings detected with Q value < 0.25.

  • 1p gain cnv correlated to 'PATHOLOGY_T_STAGE',  'COMPLETENESS_OF_RESECTION',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY',  'GLEASON_SCORE', and 'PSA_RESULT_PREOP'.

  • 1q gain cnv correlated to 'PATHOLOGY_T_STAGE',  'COMPLETENESS_OF_RESECTION',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE', and 'PSA_RESULT_PREOP'.

  • 2p gain cnv correlated to 'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE', and 'PSA_VALUE'.

  • 2q gain cnv correlated to 'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY', and 'PSA_VALUE'.

  • 3p gain cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'HISTOLOGICAL_TYPE',  'COMPLETENESS_OF_RESECTION',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY', and 'GLEASON_SCORE'.

  • 3q gain cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'COMPLETENESS_OF_RESECTION',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY',  'GLEASON_SCORE',  'PSA_RESULT_PREOP', and 'PSA_VALUE'.

  • 4q gain cnv correlated to 'PATHOLOGY_N_STAGE'.

  • 5p gain cnv correlated to 'YEARS_TO_BIRTH',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'COMPLETENESS_OF_RESECTION',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE', and 'PSA_RESULT_PREOP'.

  • 5q gain cnv correlated to 'YEARS_TO_BIRTH',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'COMPLETENESS_OF_RESECTION',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE', and 'PSA_RESULT_PREOP'.

  • 6p gain cnv correlated to 'Time to Death',  'PATHOLOGY_N_STAGE',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY', and 'GLEASON_SCORE'.

  • 6q gain cnv correlated to 'YEARS_TO_BIRTH',  'GLEASON_SCORE_COMBINED', and 'GLEASON_SCORE_PRIMARY'.

  • 7p gain cnv correlated to 'YEARS_TO_BIRTH',  'PATHOLOGY_T_STAGE',  'COMPLETENESS_OF_RESECTION',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY', and 'GLEASON_SCORE'.

  • 7q gain cnv correlated to 'YEARS_TO_BIRTH',  'PATHOLOGY_T_STAGE',  'COMPLETENESS_OF_RESECTION',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY', and 'GLEASON_SCORE'.

  • 8p gain cnv correlated to 'YEARS_TO_BIRTH',  'PATHOLOGY_T_STAGE',  'COMPLETENESS_OF_RESECTION',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY',  'GLEASON_SCORE',  'PSA_RESULT_PREOP', and 'PSA_VALUE'.

  • 8q gain cnv correlated to 'YEARS_TO_BIRTH',  'PATHOLOGY_T_STAGE',  'COMPLETENESS_OF_RESECTION',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY',  'GLEASON_SCORE',  'PSA_RESULT_PREOP', and 'PSA_VALUE'.

  • 9p gain cnv correlated to 'YEARS_TO_BIRTH',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'COMPLETENESS_OF_RESECTION',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY',  'GLEASON_SCORE', and 'PSA_RESULT_PREOP'.

  • 9q gain cnv correlated to 'YEARS_TO_BIRTH',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'COMPLETENESS_OF_RESECTION',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY',  'GLEASON_SCORE', and 'PSA_RESULT_PREOP'.

  • 10p gain cnv correlated to 'PATHOLOGY_N_STAGE',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_SECONDARY', and 'GLEASON_SCORE'.

  • 10q gain cnv correlated to 'GLEASON_SCORE'.

  • 11p gain cnv correlated to 'YEARS_TO_BIRTH',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'COMPLETENESS_OF_RESECTION',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY', and 'GLEASON_SCORE'.

  • 11q gain cnv correlated to 'YEARS_TO_BIRTH',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'COMPLETENESS_OF_RESECTION',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY', and 'GLEASON_SCORE'.

  • 12p gain cnv correlated to 'YEARS_TO_BIRTH',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'COMPLETENESS_OF_RESECTION',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE', and 'PSA_RESULT_PREOP'.

  • 12q gain cnv correlated to 'YEARS_TO_BIRTH',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'COMPLETENESS_OF_RESECTION',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE', and 'PSA_RESULT_PREOP'.

  • 14q gain cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'COMPLETENESS_OF_RESECTION',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY', and 'GLEASON_SCORE'.

  • 15q gain cnv correlated to 'GLEASON_SCORE'.

  • 16p gain cnv correlated to 'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY', and 'GLEASON_SCORE'.

  • 16q gain cnv correlated to 'YEARS_TO_BIRTH',  'GLEASON_SCORE_PRIMARY', and 'GLEASON_SCORE'.

  • 17p gain cnv correlated to 'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY', and 'GLEASON_SCORE'.

  • 17q gain cnv correlated to 'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED', and 'GLEASON_SCORE_PRIMARY'.

  • 18p gain cnv correlated to 'YEARS_TO_BIRTH',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'NUMBER_OF_LYMPH_NODES', and 'GLEASON_SCORE_COMBINED'.

  • 18q gain cnv correlated to 'YEARS_TO_BIRTH' and 'PATHOLOGY_T_STAGE'.

  • 19p gain cnv correlated to 'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY',  'GLEASON_SCORE', and 'PSA_RESULT_PREOP'.

  • 19q gain cnv correlated to 'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY',  'GLEASON_SCORE', and 'PSA_RESULT_PREOP'.

  • 20p gain cnv correlated to 'YEARS_TO_BIRTH',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY', and 'GLEASON_SCORE'.

  • 20q gain cnv correlated to 'YEARS_TO_BIRTH',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'COMPLETENESS_OF_RESECTION',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY', and 'GLEASON_SCORE'.

  • 21q gain cnv correlated to 'YEARS_TO_BIRTH',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'COMPLETENESS_OF_RESECTION',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY', and 'GLEASON_SCORE'.

  • 22q gain cnv correlated to 'GLEASON_SCORE'.

  • xp gain cnv correlated to 'PATHOLOGY_T_STAGE',  'COMPLETENESS_OF_RESECTION',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY', and 'GLEASON_SCORE'.

  • xq gain cnv correlated to 'PATHOLOGY_T_STAGE',  'COMPLETENESS_OF_RESECTION',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY', and 'GLEASON_SCORE'.

  • 1p loss cnv correlated to 'PATHOLOGY_T_STAGE',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY', and 'GLEASON_SCORE'.

  • 1q loss cnv correlated to 'COMPLETENESS_OF_RESECTION',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_PRIMARY', and 'GLEASON_SCORE'.

  • 2p loss cnv correlated to 'YEARS_TO_BIRTH',  'PATHOLOGY_T_STAGE',  'COMPLETENESS_OF_RESECTION',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE', and 'PSA_RESULT_PREOP'.

  • 2q loss cnv correlated to 'YEARS_TO_BIRTH',  'PATHOLOGY_T_STAGE',  'COMPLETENESS_OF_RESECTION',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY', and 'GLEASON_SCORE'.

  • 3p loss cnv correlated to 'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY', and 'GLEASON_SCORE'.

  • 3q loss cnv correlated to 'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY',  'GLEASON_SCORE', and 'PSA_RESULT_PREOP'.

  • 4p loss cnv correlated to 'YEARS_TO_BIRTH',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'COMPLETENESS_OF_RESECTION',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY', and 'GLEASON_SCORE'.

  • 4q loss cnv correlated to 'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'COMPLETENESS_OF_RESECTION',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY', and 'GLEASON_SCORE'.

  • 5p loss cnv correlated to 'PATHOLOGY_T_STAGE',  'COMPLETENESS_OF_RESECTION',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE', and 'PSA_RESULT_PREOP'.

  • 5q loss cnv correlated to 'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'COMPLETENESS_OF_RESECTION',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY', and 'GLEASON_SCORE'.

  • 6p loss cnv correlated to 'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'COMPLETENESS_OF_RESECTION',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY', and 'GLEASON_SCORE'.

  • 6q loss cnv correlated to 'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY', and 'GLEASON_SCORE'.

  • 8p loss cnv correlated to 'PATHOLOGY_T_STAGE',  'NUMBER_OF_LYMPH_NODES', and 'GLEASON_SCORE_PRIMARY'.

  • 8q loss cnv correlated to 'Time to Death',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'NUMBER_OF_LYMPH_NODES', and 'GLEASON_SCORE'.

  • 9p loss cnv correlated to 'PATHOLOGY_T_STAGE',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED', and 'GLEASON_SCORE'.

  • 9q loss cnv correlated to 'GLEASON_SCORE_COMBINED' and 'GLEASON_SCORE'.

  • 10p loss cnv correlated to 'YEARS_TO_BIRTH',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'COMPLETENESS_OF_RESECTION',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY', and 'GLEASON_SCORE'.

  • 10q loss cnv correlated to 'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'COMPLETENESS_OF_RESECTION',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY',  'GLEASON_SCORE', and 'PSA_RESULT_PREOP'.

  • 11p loss cnv correlated to 'PATHOLOGY_T_STAGE',  'GLEASON_SCORE_PRIMARY', and 'GLEASON_SCORE'.

  • 11q loss cnv correlated to 'PATHOLOGY_T_STAGE',  'COMPLETENESS_OF_RESECTION',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_SECONDARY',  'GLEASON_SCORE', and 'PSA_RESULT_PREOP'.

  • 12p loss cnv correlated to 'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY',  'GLEASON_SCORE', and 'PSA_VALUE'.

  • 12q loss cnv correlated to 'PATHOLOGY_N_STAGE',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY', and 'GLEASON_SCORE'.

  • 13q loss cnv correlated to 'YEARS_TO_BIRTH',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'COMPLETENESS_OF_RESECTION',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY',  'GLEASON_SCORE', and 'PSA_RESULT_PREOP'.

  • 14q loss cnv correlated to 'YEARS_TO_BIRTH',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'COMPLETENESS_OF_RESECTION',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY', and 'GLEASON_SCORE'.

  • 15q loss cnv correlated to 'YEARS_TO_BIRTH',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY', and 'GLEASON_SCORE'.

  • 16q loss cnv correlated to 'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'COMPLETENESS_OF_RESECTION',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY',  'GLEASON_SCORE', and 'PSA_RESULT_PREOP'.

  • 17p loss cnv correlated to 'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'COMPLETENESS_OF_RESECTION',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY',  'GLEASON_SCORE', and 'PSA_VALUE'.

  • 17q loss cnv correlated to 'PATHOLOGY_T_STAGE',  'COMPLETENESS_OF_RESECTION',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY', and 'GLEASON_SCORE'.

  • 18p loss cnv correlated to 'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'COMPLETENESS_OF_RESECTION',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY',  'GLEASON_SCORE', and 'PSA_RESULT_PREOP'.

  • 18q loss cnv correlated to 'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'COMPLETENESS_OF_RESECTION',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY', and 'GLEASON_SCORE'.

  • 19p loss cnv correlated to 'YEARS_TO_BIRTH',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY', and 'GLEASON_SCORE'.

  • 19q loss cnv correlated to 'YEARS_TO_BIRTH',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY', and 'GLEASON_SCORE'.

  • 20p loss cnv correlated to 'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'NUMBER_OF_LYMPH_NODES', and 'GLEASON_SCORE_PRIMARY'.

  • 20q loss cnv correlated to 'PATHOLOGY_T_STAGE',  'GLEASON_SCORE_PRIMARY', and 'PSA_RESULT_PREOP'.

  • 21q loss cnv correlated to 'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY', and 'GLEASON_SCORE'.

  • 22q loss cnv correlated to 'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'COMPLETENESS_OF_RESECTION',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY',  'GLEASON_SCORE', and 'PSA_VALUE'.

  • xp loss cnv correlated to 'YEARS_TO_BIRTH',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY',  'GLEASON_SCORE', and 'PSA_VALUE'.

  • xq loss cnv correlated to 'YEARS_TO_BIRTH',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'NUMBER_OF_LYMPH_NODES',  'GLEASON_SCORE_COMBINED',  'GLEASON_SCORE_PRIMARY',  'GLEASON_SCORE_SECONDARY',  'GLEASON_SCORE', and 'PSA_VALUE'.

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 14 clinical features. Shown in the table are P values (Q values). Thresholded by Q value < 0.25, 497 significant findings detected.

Clinical
Features 		Time
to
Death 		YEARS
TO
BIRTH 		PATHOLOGY
T
STAGE 		PATHOLOGY
N
STAGE 		HISTOLOGICAL
TYPE 		COMPLETENESS
OF
RESECTION 		NUMBER
OF
LYMPH
NODES 		GLEASON
SCORE
COMBINED 		GLEASON
SCORE
PRIMARY 		GLEASON
SCORE
SECONDARY 		GLEASON
SCORE 		PSA
RESULT
PREOP 		PSA
VALUE 		RACE
nCNV (%) nWild-Type logrank test Wilcoxon-test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Wilcoxon-test Wilcoxon-test Wilcoxon-test Wilcoxon-test Wilcoxon-test Wilcoxon-test Wilcoxon-test Fisher's exact test
3q gain 52 (11%) 430 0.0153
(0.0552) 		0.0029
(0.0165) 		6e-05
(0.000804) 		0.0759
(0.189) 		0.184
(0.361) 		0.015
(0.0547) 		0.017
(0.0602) 		5.57e-06
(0.000142) 		2.15e-05
(0.00034) 		0.0132
(0.0504) 		8.96e-09
(2.51e-06) 		0.0245
(0.0783) 		0.0184
(0.0633) 		0.632
(0.828)
3p gain 38 (8%) 444 0.0621
(0.163) 		0.000892
(0.0064) 		0.00193
(0.0119) 		0.0717
(0.181) 		0.0898
(0.213) 		0.0349
(0.103) 		0.0148
(0.0546) 		7.76e-05
(0.000999) 		0.000308
(0.00292) 		0.0282
(0.0872) 		5.82e-08
(7.13e-06) 		0.362
(0.577) 		0.241
(0.439) 		0.526
(0.742)
9p gain 31 (6%) 451 0.501
(0.716) 		0.00403
(0.0206) 		0.00013
(0.00152) 		0.000776
(0.00587) 		0.225
(0.418) 		0.0267
(0.0838) 		0.000593
(0.00478) 		0.000442
(0.00387) 		0.000202
(0.00208) 		0.102
(0.234) 		1.04e-05
(0.000207) 		0.00523
(0.0253) 		0.381
(0.598) 		0.348
(0.565)
9q gain 47 (10%) 435 0.412
(0.63) 		0.015
(0.0547) 		1e-05
(0.000204) 		1.21e-05
(0.000229) 		0.147
(0.306) 		0.0201
(0.0675) 		2.16e-06
(7.79e-05) 		1.48e-06
(5.72e-05) 		2.33e-07
(1.53e-05) 		0.0257
(0.0814) 		6.37e-08
(7.13e-06) 		0.00331
(0.018) 		0.716
(0.88) 		0.464
(0.68)
13q loss 75 (16%) 407 0.211
(0.401) 		0.049
(0.134) 		0.00081
(0.00609) 		0.0172
(0.0602) 		0.707
(0.875) 		0.0213
(0.0707) 		0.00561
(0.0261) 		2.34e-09
(8.73e-07) 		3.88e-07
(2.17e-05) 		0.000148
(0.00165) 		7.13e-11
(7.99e-08) 		0.0151
(0.0549) 		0.266
(0.47) 		0.438
(0.657)
5p gain 23 (5%) 459 0.575
(0.787) 		0.00144
(0.00943) 		0.0002
(0.00207) 		0.00223
(0.0133) 		0.501
(0.716) 		0.0148
(0.0546) 		4.55e-05
(0.000634) 		0.000268
(0.00259) 		0.000103
(0.00126) 		0.121
(0.265) 		1.03e-06
(4.43e-05) 		0.00879
(0.0365) 		0.339
(0.555)
8p gain 70 (15%) 412 0.745
(0.906) 		0.00905
(0.0367) 		0.00732
(0.0312) 		0.863
(1.00) 		0.239
(0.437) 		0.00583
(0.0269) 		0.898
(1.00) 		2.46e-07
(1.53e-05) 		6.84e-06
(0.00016) 		0.00354
(0.0187) 		2.29e-07
(1.53e-05) 		0.0278
(0.0868) 		0.087
(0.209) 		0.658
(0.84)
8q gain 121 (25%) 361 0.283
(0.494) 		0.0761
(0.189) 		0.00018
(0.00192) 		0.201
(0.385) 		0.534
(0.747) 		0.00355
(0.0187) 		0.176
(0.35) 		5.29e-08
(7.13e-06) 		9.96e-10
(5.58e-07) 		0.0648
(0.168) 		6.2e-08
(7.13e-06) 		0.0056
(0.0261) 		0.0613
(0.162) 		0.733
(0.898)
11p gain 24 (5%) 458 0.567
(0.778) 		0.0547
(0.147) 		0.0032
(0.0176) 		0.00336
(0.018) 		1
(1.00) 		0.0341
(0.101) 		0.00431
(0.0218) 		0.000149
(0.00165) 		0.000215
(0.00219) 		0.0292
(0.0893) 		0.000107
(0.00129) 		0.635
(0.828) 		0.217
(0.408) 		0.263
(0.467)
11q gain 27 (6%) 455 0.533
(0.747) 		0.0602
(0.16) 		0.00553
(0.0261) 		0.00267
(0.0155) 		1
(1.00) 		0.0499
(0.136) 		0.00248
(0.0145) 		2.01e-05
(0.000321) 		1.9e-05
(0.000321) 		0.0267
(0.0838) 		1.55e-05
(0.000274) 		0.942
(1.00) 		0.522
(0.738) 		0.262
(0.465)
12p gain 13 (3%) 469 0.544
(0.755) 		0.0142
(0.053) 		0.00623
(0.0282) 		0.0207
(0.0689) 		1
(1.00) 		0.00184
(0.0116) 		0.0126
(0.0485) 		0.00172
(0.0109) 		0.000482
(0.00409) 		0.275
(0.483) 		1.45e-05
(0.000262) 		0.0138
(0.0522) 		0.326
(0.541)
12q gain 16 (3%) 466 0.549
(0.759) 		0.0771
(0.19) 		0.00634
(0.0283) 		0.0174
(0.0608) 		1
(1.00) 		2e-05
(0.000321) 		0.00735
(0.0312) 		0.000449
(0.00389) 		4.76e-06
(0.000127) 		0.473
(0.69) 		8.1e-06
(0.000182) 		0.00119
(0.00788) 		0.659
(0.841)
4p loss 23 (5%) 459 0.595
(0.803) 		0.0488
(0.134) 		0.0214
(0.0707) 		0.000142
(0.00161) 		0.501
(0.716) 		0.00422
(0.0215) 		8.27e-06
(0.000182) 		1.76e-07
(1.41e-05) 		1.29e-05
(0.000237) 		0.000652
(0.005) 		4.55e-07
(2.41e-05) 		0.581
(0.793) 		0.925
(1.00) 		1
(1.00)
10p loss 40 (8%) 442 0.713
(0.88) 		0.0938
(0.221) 		1e-05
(0.000204) 		0.0011
(0.00742) 		1
(1.00) 		0.00901
(0.0367) 		6.03e-05
(0.000804) 		4.17e-06
(0.000114) 		4.59e-05
(0.000634) 		0.003
(0.0168) 		3.05e-06
(9.48e-05) 		0.161
(0.328) 		0.308
(0.518) 		1
(1.00)
10q loss 41 (9%) 441 0.713
(0.88) 		0.276
(0.485) 		0.00019
(0.00199) 		0.000631
(0.0049) 		1
(1.00) 		0.00524
(0.0253) 		5.91e-05
(0.000804) 		8.32e-08
(8.42e-06) 		0.000116
(0.00138) 		1.1e-05
(0.000213) 		9.02e-08
(8.42e-06) 		0.0762
(0.189) 		0.3
(0.509) 		0.583
(0.794)
14q loss 25 (5%) 457 0.389
(0.603) 		0.089
(0.212) 		0.00053
(0.00446) 		0.0284
(0.0874) 		0.531
(0.746) 		0.015
(0.0547) 		0.0291
(0.0893) 		6.31e-05
(0.000832) 		0.00101
(0.00713) 		0.00532
(0.0255) 		0.000245
(0.00245) 		0.14
(0.295) 		0.141
(0.296) 		1
(1.00)
16q loss 102 (21%) 380 0.37
(0.588) 		0.351
(0.567) 		0.0035
(0.0187) 		0.093
(0.22) 		1
(1.00) 		0.0404
(0.116) 		0.0505
(0.137) 		4.86e-06
(0.000127) 		5.78e-06
(0.000144) 		0.0201
(0.0675) 		6.27e-06
(0.000153) 		0.0253
(0.0802) 		0.377
(0.596) 		1
(1.00)
17p loss 73 (15%) 409 0.5
(0.716) 		0.383
(0.6) 		0.00057
(0.00466) 		0.0059
(0.0271) 		0.705
(0.875) 		0.0624
(0.163) 		0.000955
(0.00681) 		1.98e-05
(0.000321) 		1.25e-05
(0.000234) 		0.0676
(0.172) 		6.48e-06
(0.000155) 		0.186
(0.363) 		0.0659
(0.169) 		0.706
(0.875)
18p loss 67 (14%) 415 0.217
(0.408) 		0.248
(0.448) 		0.00466
(0.0229) 		0.107
(0.244) 		0.425
(0.643) 		0.00373
(0.0193) 		0.0784
(0.192) 		1.1e-05
(0.000213) 		0.00105
(0.00731) 		0.000616
(0.00489) 		2.37e-07
(1.53e-05) 		0.107
(0.244) 		0.63
(0.827) 		0.702
(0.874)
22q loss 45 (9%) 437 0.557
(0.768) 		0.35
(0.566) 		3e-05
(0.000442) 		0.00149
(0.00951) 		0.382
(0.598) 		0.00466
(0.0229) 		0.00108
(0.00741) 		5.58e-07
(2.72e-05) 		1.37e-06
(5.62e-05) 		0.00637
(0.0283) 		1.24e-07
(1.07e-05) 		0.314
(0.526) 		0.0923
(0.219) 		0.494
(0.713)
xp loss 37 (8%) 445 0.412
(0.63) 		0.0498
(0.136) 		0.0105
(0.0413) 		0.0216
(0.0707) 		0.293
(0.503) 		0.544
(0.755) 		0.00712
(0.0307) 		3.96e-06
(0.000111) 		2.72e-06
(8.69e-05) 		0.0294
(0.0896) 		2.56e-06
(8.68e-05) 		0.3
(0.509) 		0.0386
(0.111) 		0.387
(0.602)
xq loss 37 (8%) 445 0.412
(0.63) 		0.0498
(0.136) 		0.0111
(0.0429) 		0.0216
(0.0707) 		0.293
(0.503) 		0.543
(0.755) 		0.00712
(0.0307) 		3.96e-06
(0.000111) 		2.72e-06
(8.69e-05) 		0.0294
(0.0896) 		2.56e-06
(8.68e-05) 		0.3
(0.509) 		0.0386
(0.111) 		0.385
(0.601)
5q gain 12 (2%) 470 0.679
(0.855) 		0.00014
(0.0016) 		0.00658
(0.029) 		0.0064
(0.0283) 		1
(1.00) 		0.019
(0.0646) 		0.000257
(0.00254) 		0.108
(0.245) 		0.165
(0.332) 		0.289
(0.499) 		0.00146
(0.00951) 		0.012
(0.0461) 		0.173
(0.344)
19p gain 11 (2%) 471 0.639
(0.828) 		0.285
(0.495) 		0.00054
(0.00447) 		0.0064
(0.0283) 		1
(1.00) 		0.142
(0.297) 		0.00321
(0.0176) 		0.00036
(0.0033) 		0.000601
(0.00481) 		0.0465
(0.129) 		0.000437
(0.00386) 		0.0105
(0.0413) 		0.843
(0.983)
19q gain 11 (2%) 471 0.61
(0.814) 		0.223
(0.416) 		0.00063
(0.0049) 		0.0064
(0.0283) 		1
(1.00) 		0.141
(0.296) 		0.00321
(0.0176) 		0.00036
(0.0033) 		0.00193
(0.0119) 		0.0167
(0.0594) 		0.000437
(0.00386) 		0.0158
(0.0564) 		0.963
(1.00) 		1
(1.00)
20p gain 24 (5%) 458 0.538
(0.75) 		0.0335
(0.0996) 		0.0103
(0.041) 		0.0405
(0.116) 		1
(1.00) 		0.361
(0.577) 		0.0259
(0.0818) 		0.00904
(0.0367) 		0.0277
(0.0865) 		0.0642
(0.167) 		0.00233
(0.0139) 		0.984
(1.00) 		0.322
(0.536)
20q gain 27 (6%) 455 0.492
(0.711) 		0.00444
(0.0223) 		0.00147
(0.00951) 		0.0284
(0.0874) 		1
(1.00) 		0.0955
(0.225) 		0.0187
(0.0639) 		0.00564
(0.0261) 		0.00294
(0.0167) 		0.201
(0.385) 		0.000229
(0.00232) 		0.511
(0.727) 		0.297
(0.508) 		1
(1.00)
21q gain 20 (4%) 462 0.496
(0.715) 		0.00507
(0.0247) 		0.014
(0.0527) 		0.0161
(0.0575) 		0.452
(0.669) 		0.107
(0.244) 		0.0109
(0.0424) 		0.01
(0.0403) 		0.00381
(0.0197) 		0.262
(0.465) 		8.77e-05
(0.00109) 		0.599
(0.805) 		0.743
(0.905) 		1
(1.00)
4q loss 16 (3%) 466 0.667
(0.847) 		0.163
(0.33) 		0.0176
(0.0611) 		0.0031
(0.0173) 		0.381
(0.598) 		0.028
(0.0871) 		0.000456
(0.00391) 		3.95e-06
(0.000111) 		0.000317
(0.00298) 		0.000873
(0.00635) 		1.89e-06
(7.06e-05) 		0.888
(1.00) 		0.414
(0.631) 		1
(1.00)
5q loss 22 (5%) 460 0.638
(0.828) 		0.926
(1.00) 		4e-05
(0.000574) 		0.00142
(0.00939) 		1
(1.00) 		0.0862
(0.207) 		0.000187
(0.00198) 		7.99e-07
(3.58e-05) 		4.73e-07
(2.41e-05) 		0.0471
(0.131) 		3.11e-07
(1.84e-05) 		0.237
(0.436) 		0.637
(0.828) 		1
(1.00)
12p loss 47 (10%) 435 0.378
(0.598) 		0.357
(0.575) 		0.0046
(0.0228) 		0.00194
(0.0119) 		0.38
(0.598) 		0.247
(0.447) 		0.00111
(0.00743) 		2.91e-05
(0.000442) 		0.000129
(0.00152) 		0.00747
(0.0314) 		0.000261
(0.00254) 		0.593
(0.802) 		0.077
(0.19) 		1
(1.00)
15q loss 36 (7%) 446 0.463
(0.68) 		0.0156
(0.0561) 		1e-05
(0.000204) 		0.0033
(0.018) 		1
(1.00) 		0.163
(0.33) 		0.00117
(0.00782) 		1.57e-05
(0.000274) 		1.4e-06
(5.62e-05) 		0.0972
(0.228) 		7.7e-06
(0.000176) 		0.401
(0.618) 		0.25
(0.449) 		1
(1.00)
18q loss 98 (20%) 384 0.431
(0.649) 		0.369
(0.588) 		0.00108
(0.00741) 		0.000534
(0.00446) 		1
(1.00) 		3e-05
(0.000442) 		0.000154
(0.00168) 		6.96e-07
(3.25e-05) 		0.000838
(0.00626) 		2.95e-05
(0.000442) 		1.2e-08
(2.68e-06) 		0.136
(0.288) 		0.169
(0.339) 		0.755
(0.913)
1p gain 16 (3%) 466 0.639
(0.828) 		0.129
(0.277) 		2e-05
(0.000321) 		0.163
(0.33) 		1
(1.00) 		0.0777
(0.191) 		0.158
(0.326) 		0.000855
(0.0063) 		0.00148
(0.00951) 		0.0636
(0.166) 		7.13e-05
(0.000929) 		0.00289
(0.0165) 		0.292
(0.503) 		1
(1.00)
7p gain 99 (21%) 383 0.163
(0.33) 		0.00737
(0.0312) 		0.0367
(0.106) 		0.64
(0.828) 		0.745
(0.906) 		0.00336
(0.018) 		0.576
(0.788) 		0.00105
(0.00731) 		0.00505
(0.0247) 		0.0172
(0.0602) 		0.000103
(0.00126) 		0.163
(0.33) 		0.627
(0.827) 		1
(1.00)
7q gain 92 (19%) 390 0.184
(0.361) 		0.0132
(0.0504) 		0.101
(0.233) 		0.518
(0.733) 		1
(1.00) 		0.00189
(0.0118) 		0.502
(0.716) 		0.00245
(0.0145) 		0.0133
(0.0504) 		0.0214
(0.0707) 		0.000327
(0.00305) 		0.17
(0.34) 		0.949
(1.00) 		1
(1.00)
16p gain 30 (6%) 452 0.342
(0.557) 		0.203
(0.389) 		0.00105
(0.00731) 		0.00385
(0.0198) 		0.598
(0.805) 		0.334
(0.549) 		0.00193
(0.0119) 		7.98e-05
(0.00102) 		4.38e-05
(0.000621) 		0.0349
(0.103) 		8.94e-06
(0.000193) 		0.797
(0.942) 		0.123
(0.269) 		1
(1.00)
2p loss 15 (3%) 467 0.606
(0.811) 		0.00212
(0.0128) 		0.00943
(0.038) 		1
(1.00) 		1
(1.00) 		0.078
(0.191) 		0.696
(0.868) 		0.0433
(0.121) 		0.0661
(0.169) 		0.277
(0.486) 		0.0754
(0.188) 		0.0448
(0.125) 		0.426
(0.643)
2q loss 18 (4%) 464 0.654
(0.838) 		0.017
(0.0602) 		0.0177
(0.0613) 		0.749
(0.908) 		1
(1.00) 		0.11
(0.248) 		0.541
(0.752) 		0.00755
(0.0317) 		0.0355
(0.104) 		0.0696
(0.176) 		0.0153
(0.0552) 		0.274
(0.483) 		0.705
(0.875)
6p loss 23 (5%) 459 0.567
(0.778) 		0.774
(0.931) 		0.00086
(0.0063) 		0.00619
(0.0282) 		1
(1.00) 		0.0874
(0.209) 		0.00364
(0.019) 		0.00171
(0.0109) 		0.000395
(0.00357) 		0.323
(0.538) 		1.97e-05
(0.000321) 		0.517
(0.732) 		0.123
(0.268) 		0.307
(0.518)
6q loss 37 (8%) 445 0.457
(0.675) 		0.398
(0.616) 		0.00107
(0.0074) 		0.00627
(0.0283) 		0.614
(0.819) 		0.148
(0.307) 		0.00299
(0.0168) 		3.27e-06
(9.89e-05) 		8.25e-05
(0.00104) 		0.00281
(0.0162) 		3.76e-08
(7.02e-06) 		0.548
(0.758) 		0.468
(0.686) 		0.126
(0.271)
21q loss 23 (5%) 459 0.606
(0.811) 		0.625
(0.827) 		0.00211
(0.0128) 		0.00893
(0.0367) 		0.501
(0.716) 		0.19
(0.369) 		0.00353
(0.0187) 		0.000151
(0.00165) 		0.000665
(0.00506) 		0.0104
(0.0411) 		0.000457
(0.00391) 		0.342
(0.557) 		0.138
(0.292) 		1
(1.00)
1q gain 25 (5%) 457 0.534
(0.747) 		0.143
(0.298) 		0.00018
(0.00192) 		0.17
(0.34) 		0.531
(0.746) 		0.0748
(0.187) 		0.181
(0.357) 		0.000883
(0.00638) 		0.000421
(0.00377) 		0.136
(0.288) 		0.000134
(0.00154) 		0.00359
(0.0188) 		0.499
(0.716) 		1
(1.00)
6p gain 9 (2%) 473 0.0409
(0.117) 		0.452
(0.669) 		0.25
(0.449) 		0.0612
(0.162) 		1
(1.00) 		0.307
(0.518) 		0.0505
(0.137) 		0.0108
(0.0422) 		0.0215
(0.0707) 		0.114
(0.254) 		0.0577
(0.154) 		0.593
(0.802) 		0.361
(0.577)
14q gain 9 (2%) 473 0.0221
(0.0721) 		0.0415
(0.118) 		0.792
(0.94) 		0.641
(0.828) 		0.235
(0.432) 		0.0849
(0.205) 		0.487
(0.706) 		0.044
(0.123) 		0.0215
(0.0707) 		0.605
(0.811) 		0.00698
(0.0303) 		0.714
(0.88) 		0.475
(0.691)
17p gain 7 (1%) 475 0.798
(0.942) 		0.426
(0.643) 		0.0201
(0.0675) 		0.0228
(0.0733) 		1
(1.00) 		0.594
(0.802) 		0.00546
(0.0259) 		0.101
(0.233) 		0.081
(0.197) 		0.322
(0.536) 		0.111
(0.249) 		0.501
(0.716) 		0.721
(0.884)
5p loss 12 (2%) 470 0.74
(0.903) 		0.802
(0.944) 		0.00039
(0.00355) 		0.12
(0.264) 		1
(1.00) 		0.0613
(0.162) 		0.139
(0.294) 		0.000635
(0.0049) 		0.000542
(0.00447) 		0.128
(0.276) 		3.9e-05
(0.000567) 		0.1
(0.233) 		0.214
(0.405) 		1
(1.00)
11q loss 5 (1%) 477 0.916
(1.00) 		0.325
(0.54) 		0.0281
(0.0871) 		0.331
(0.547) 		1
(1.00) 		0.1
(0.233) 		0.0765
(0.189) 		0.125
(0.271) 		0.0995
(0.233) 		0.0299
(0.0909) 		0.101
(0.233) 		0.681
(0.857)
12q loss 19 (4%) 463 0.597
(0.804) 		0.942
(1.00) 		0.132
(0.282) 		0.0593
(0.158) 		1
(1.00) 		0.265
(0.469) 		0.0365
(0.106) 		0.00258
(0.015) 		0.0147
(0.0546) 		0.0144
(0.0537) 		0.00208
(0.0127) 		0.716
(0.88) 		0.588
(0.798) 		1
(1.00)
17q gain 10 (2%) 472 0.77
(0.928) 		0.264
(0.468) 		0.00695
(0.0303) 		0.0207
(0.0689) 		1
(1.00) 		0.685
(0.86) 		0.00892
(0.0367) 		0.101
(0.233) 		0.043
(0.121) 		0.566
(0.778) 		0.122
(0.268) 		0.24
(0.439) 		0.333
(0.548)
18p gain 17 (4%) 465 0.622
(0.825) 		0.00546
(0.0259) 		0.00427
(0.0216) 		0.00934
(0.0378) 		1
(1.00) 		0.9
(1.00) 		0.00817
(0.0341) 		0.0908
(0.215) 		0.186
(0.364) 		0.225
(0.418) 		0.188
(0.365) 		0.95
(1.00) 		0.651
(0.835) 		1
(1.00)
xp gain 6 (1%) 476 0.78
(0.933) 		0.295
(0.506) 		0.0192
(0.0651) 		0.299
(0.509) 		1
(1.00) 		0.00728
(0.0312) 		0.472
(0.689) 		0.0432
(0.121) 		0.00559
(0.0261) 		0.99
(1.00) 		0.0111
(0.0429) 		0.371
(0.588) 		0.636
(0.828)
xq gain 6 (1%) 476 0.78
(0.933) 		0.295
(0.506) 		0.0185
(0.0634) 		0.299
(0.509) 		1
(1.00) 		0.00692
(0.0303) 		0.472
(0.689) 		0.0432
(0.121) 		0.00559
(0.0261) 		0.99
(1.00) 		0.0111
(0.0429) 		0.371
(0.588) 		0.636
(0.828)
1p loss 21 (4%) 461 0.535
(0.747) 		0.442
(0.659) 		0.0251
(0.0799) 		0.382
(0.598) 		1
(1.00) 		0.36
(0.577) 		0.317
(0.53) 		0.000258
(0.00254) 		0.000582
(0.00472) 		0.0362
(0.106) 		2.86e-05
(0.000442) 		0.642
(0.828) 		0.183
(0.361) 		1
(1.00)
3q loss 5 (1%) 477 0.663
(0.842) 		0.297
(0.508) 		0.689
(0.863) 		0.59
(0.8) 		1
(1.00) 		0.337
(0.552) 		0.281
(0.491) 		0.00855
(0.0356) 		0.0431
(0.121) 		0.0185
(0.0634) 		0.00332
(0.018) 		0.082
(0.199) 		0.217
(0.408)
8q loss 23 (5%) 459 0.000621
(0.0049) 		0.638
(0.828) 		0.0011
(0.00742) 		0.0355
(0.104) 		1
(1.00) 		0.361
(0.577) 		0.00455
(0.0226) 		0.115
(0.255) 		0.187
(0.364) 		0.246
(0.447) 		0.0844
(0.204) 		0.879
(1.00) 		0.794
(0.941) 		1
(1.00)
17q loss 19 (4%) 463 0.698
(0.869) 		0.446
(0.664) 		0.0171
(0.0602) 		0.36
(0.577) 		1
(1.00) 		0.0307
(0.0922) 		0.317
(0.53) 		0.00244
(0.0145) 		0.000851
(0.0063) 		0.25
(0.449) 		0.00737
(0.0312) 		0.953
(1.00) 		0.288
(0.498) 		1
(1.00)
2p gain 10 (2%) 472 0.714
(0.88) 		0.671
(0.85) 		1
(1.00) 		1
(1.00) 		1
(1.00) 		0.308
(0.518) 		0.983
(1.00) 		0.0425
(0.121) 		0.066
(0.169) 		0.281
(0.491) 		0.101
(0.233) 		0.449
(0.667) 		0.0249
(0.0796)
10p gain 14 (3%) 468 0.655
(0.838) 		0.181
(0.358) 		0.387
(0.602) 		0.0671
(0.171) 		0.342
(0.557) 		0.187
(0.364) 		0.0724
(0.183) 		0.125
(0.271) 		0.495
(0.714) 		0.105
(0.241) 		0.0045
(0.0225) 		0.344
(0.56) 		0.427
(0.643) 		1
(1.00)
1q loss 6 (1%) 476 0.738
(0.902) 		0.647
(0.832) 		0.195
(0.376) 		0.225
(0.418) 		1
(1.00) 		0.0543
(0.146) 		0.0734
(0.184) 		0.307
(0.518) 		0.0368
(0.106) 		0.509
(0.724) 		0.0807
(0.197) 		0.751
(0.91) 		0.374
(0.593)
3p loss 9 (2%) 473 0.643
(0.828) 		0.79
(0.939) 		0.251
(0.449) 		0.162
(0.33) 		1
(1.00) 		0.216
(0.408) 		0.134
(0.285) 		0.00533
(0.0255) 		0.0354
(0.104) 		0.0136
(0.0515) 		0.00279
(0.0161) 		0.333
(0.548) 		0.132
(0.282)
9p loss 20 (4%) 462 0.409
(0.629) 		0.423
(0.641) 		0.0233
(0.0748) 		0.13
(0.279) 		1
(1.00) 		0.834
(0.973) 		0.0505
(0.137) 		0.0476
(0.132) 		0.132
(0.282) 		0.123
(0.269) 		0.00894
(0.0367) 		0.796
(0.942) 		0.382
(0.598) 		1
(1.00)
19p loss 17 (4%) 465 0.619
(0.822) 		0.0103
(0.041) 		0.15
(0.309) 		1
(1.00) 		1
(1.00) 		0.415
(0.631) 		0.954
(1.00) 		0.0306
(0.0921) 		0.0223
(0.0722) 		0.25
(0.449) 		0.0309
(0.0922) 		0.411
(0.63) 		0.443
(0.659) 		1
(1.00)
19q loss 17 (4%) 465 0.619
(0.822) 		0.0103
(0.041) 		0.152
(0.312) 		1
(1.00) 		1
(1.00) 		0.412
(0.63) 		0.954
(1.00) 		0.0306
(0.0921) 		0.0223
(0.0722) 		0.25
(0.449) 		0.0309
(0.0922) 		0.411
(0.63) 		0.443
(0.659) 		1
(1.00)
20p loss 18 (4%) 464 0.115
(0.255) 		0.682
(0.857) 		0.0616
(0.162) 		0.0512
(0.138) 		1
(1.00) 		1
(1.00) 		0.0144
(0.0537) 		0.391
(0.606) 		0.0181
(0.0626) 		0.199
(0.382) 		0.488
(0.707) 		0.113
(0.252) 		0.687
(0.861) 		0.347
(0.562)
2q gain 7 (1%) 475 0.816
(0.956) 		0.388
(0.603) 		0.747
(0.907) 		1
(1.00) 		1
(1.00) 		0.185
(0.363) 		0.811
(0.952) 		0.0653
(0.169) 		0.031
(0.0923) 		0.626
(0.827) 		0.254
(0.453) 		0.228
(0.422) 		0.006
(0.0274)
6q gain 5 (1%) 477 0.721
(0.884) 		0.109
(0.246) 		0.686
(0.861) 		0.225
(0.418) 		1
(1.00) 		0.333
(0.548) 		0.165
(0.333) 		0.0565
(0.151) 		0.0224
(0.0724) 		0.645
(0.831) 		0.192
(0.371) 		0.395
(0.611) 		0.868
(1.00)
16q gain 8 (2%) 474 0.803
(0.944) 		0.00685
(0.0301) 		0.284
(0.495) 		1
(1.00) 		1
(1.00) 		1
(1.00) 		0.819
(0.958) 		0.125
(0.271) 		0.0655
(0.169) 		0.584
(0.794) 		0.073
(0.183) 		0.892
(1.00) 		0.954
(1.00) 		1
(1.00)
8p loss 162 (34%) 320 0.733
(0.898) 		0.537
(0.749) 		0.0003
(0.00287) 		0.178
(0.353) 		1
(1.00) 		0.415
(0.631) 		0.0839
(0.203) 		0.696
(0.868) 		0.0727
(0.183) 		0.233
(0.43) 		0.827
(0.966) 		0.141
(0.297) 		0.354
(0.571) 		0.162
(0.33)
11p loss 7 (1%) 475 0.763
(0.921) 		0.206
(0.392) 		0.1
(0.233) 		1
(1.00) 		1
(1.00) 		0.145
(0.303) 		0.709
(0.877) 		0.168
(0.337) 		0.081
(0.197) 		0.626
(0.827) 		0.064
(0.167) 		0.736
(0.9) 		0.462
(0.68)
20q loss 8 (2%) 474 0.79
(0.939) 		0.161
(0.328) 		0.0689
(0.175) 		1
(1.00) 		1
(1.00) 		1
(1.00) 		0.837
(0.977) 		0.171
(0.34) 		0.0149
(0.0547) 		0.566
(0.778) 		0.206
(0.392) 		0.0604
(0.16) 		0.62
(0.822) 		1
(1.00)
18q gain 8 (2%) 474 0.693
(0.866) 		0.067
(0.171) 		0.0479
(0.132) 		0.641
(0.828) 		1
(1.00) 		1
(1.00) 		0.778
(0.933) 		0.506
(0.721) 		0.787
(0.938) 		0.308
(0.518) 		0.677
(0.854) 		0.222
(0.415) 		0.799
(0.942)
9q loss 9 (2%) 473 0.754
(0.913) 		0.513
(0.728) 		0.119
(0.262) 		0.641
(0.828) 		1
(1.00) 		0.48
(0.697) 		0.457
(0.675) 		0.109
(0.246) 		0.415
(0.631) 		0.114
(0.254) 		0.0302
(0.0913) 		0.995
(1.00) 		0.113
(0.252) 		1
(1.00)
4q gain 10 (2%) 472 0.66
(0.841) 		0.191
(0.369) 		0.15
(0.31) 		0.0882
(0.211) 		0.257
(0.459) 		0.546
(0.756) 		0.112
(0.25) 		0.269
(0.475) 		0.191
(0.369) 		0.815
(0.956) 		0.534
(0.747) 		0.242
(0.44) 		0.218
(0.409)
10q gain 13 (3%) 469 0.629
(0.827) 		0.782
(0.934) 		0.441
(0.659) 		0.243
(0.442) 		0.322
(0.536) 		0.149
(0.308) 		0.159
(0.327) 		0.463
(0.68) 		0.586
(0.797) 		0.673
(0.85) 		0.0432
(0.121) 		0.863
(1.00) 		0.189
(0.367) 		1
(1.00)
15q gain 6 (1%) 476 0.759
(0.917) 		0.894
(1.00) 		1
(1.00) 		0.299
(0.509) 		1
(1.00) 		1
(1.00) 		0.387
(0.602) 		0.355
(0.571) 		0.607
(0.811) 		0.285
(0.495) 		0.0981
(0.23) 		0.764
(0.921) 		0.343
(0.558)
22q gain 4 (1%) 478 0.803
(0.944) 		0.419
(0.635) 		1
(1.00) 		0.553
(0.763) 		1
(1.00) 		0.657
(0.84) 		0.602
(0.808) 		0.628
(0.827) 		0.431
(0.649) 		0.239
(0.438) 		0.0192
(0.065) 		0.228
(0.422) 		0.247
(0.447)
4p gain 8 (2%) 474 0.663
(0.842) 		0.112
(0.25) 		0.285
(0.495) 		0.641
(0.828) 		1
(1.00) 		0.792
(0.94) 		0.778
(0.933) 		0.798
(0.942) 		0.787
(0.938) 		0.938
(1.00) 		0.677
(0.854) 		0.146
(0.304) 		0.462
(0.68) 		1
(1.00)
13q gain 8 (2%) 474 0.671
(0.85) 		0.438
(0.657) 		0.209
(0.396) 		0.616
(0.82) 		0.211
(0.401) 		0.481
(0.699) 		0.628
(0.827) 		0.581
(0.793) 		0.512
(0.727) 		0.13
(0.279) 		0.661
(0.841) 		0.651
(0.835) 		0.222
(0.415)
16p loss 30 (6%) 452 0.45
(0.667) 		0.901
(1.00) 		0.774
(0.931) 		0.442
(0.659) 		1
(1.00) 		0.534
(0.747) 		0.332
(0.548) 		0.238
(0.437) 		0.111
(0.25) 		0.787
(0.938) 		0.118
(0.261) 		0.954
(1.00) 		0.9
(1.00) 		1
(1.00)
'1p gain' versus 'PATHOLOGY_T_STAGE'

P value = 2e-05 (Fisher's exact test), Q value = 0.00032

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

nPatients T2 T3 T4
ALL 188 281 10
1P GAIN MUTATED 0 13 3
1P GAIN WILD-TYPE 188 268 7

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

'1p gain' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.0777 (Fisher's exact test), Q value = 0.19

Table S2.  Gene #1: '1p gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
1P GAIN MUTATED 6 9 0 0
1P GAIN WILD-TYPE 304 129 5 15

Figure S2.  Get High-res Image Gene #1: '1p gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'1p gain' versus 'GLEASON_SCORE_COMBINED'

P value = 0.000855 (Wilcoxon-test), Q value = 0.0063

Table S3.  Gene #1: '1p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
1P GAIN MUTATED 16 8.4 (1.0)
1P GAIN WILD-TYPE 466 7.5 (1.0)

Figure S3.  Get High-res Image Gene #1: '1p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'1p gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.00148 (Wilcoxon-test), Q value = 0.0095

Table S4.  Gene #1: '1p gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
1P GAIN MUTATED 16 4.2 (0.7)
1P GAIN WILD-TYPE 466 3.7 (0.7)

Figure S4.  Get High-res Image Gene #1: '1p gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'1p gain' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.0636 (Wilcoxon-test), Q value = 0.17

Table S5.  Gene #1: '1p gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
1P GAIN MUTATED 16 4.2 (0.8)
1P GAIN WILD-TYPE 466 3.9 (0.7)

Figure S5.  Get High-res Image Gene #1: '1p gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'1p gain' versus 'GLEASON_SCORE'

P value = 7.13e-05 (Wilcoxon-test), Q value = 0.00093

Table S6.  Gene #1: '1p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
1P GAIN MUTATED 16 8.6 (0.9)
1P GAIN WILD-TYPE 466 7.6 (1.0)

Figure S6.  Get High-res Image Gene #1: '1p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'1p gain' versus 'PSA_RESULT_PREOP'

P value = 0.00289 (Wilcoxon-test), Q value = 0.016

Table S7.  Gene #1: '1p gain' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

nPatients Mean (Std.Dev)
ALL 479 10.8 (11.7)
1P GAIN MUTATED 16 20.5 (17.8)
1P GAIN WILD-TYPE 463 10.5 (11.3)

Figure S7.  Get High-res Image Gene #1: '1p gain' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

'1q gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.00018 (Fisher's exact test), Q value = 0.0019

Table S8.  Gene #2: '1q gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
1Q GAIN MUTATED 2 20 3
1Q GAIN WILD-TYPE 186 261 7

Figure S8.  Get High-res Image Gene #2: '1q gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'1q gain' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.0748 (Fisher's exact test), Q value = 0.19

Table S9.  Gene #2: '1q gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
1Q GAIN MUTATED 11 13 0 0
1Q GAIN WILD-TYPE 299 125 5 15

Figure S9.  Get High-res Image Gene #2: '1q gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'1q gain' versus 'GLEASON_SCORE_COMBINED'

P value = 0.000883 (Wilcoxon-test), Q value = 0.0064

Table S10.  Gene #2: '1q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
1Q GAIN MUTATED 25 8.2 (1.1)
1Q GAIN WILD-TYPE 457 7.5 (1.0)

Figure S10.  Get High-res Image Gene #2: '1q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'1q gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.000421 (Wilcoxon-test), Q value = 0.0038

Table S11.  Gene #2: '1q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
1Q GAIN MUTATED 25 4.2 (0.6)
1Q GAIN WILD-TYPE 457 3.7 (0.7)

Figure S11.  Get High-res Image Gene #2: '1q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'1q gain' versus 'GLEASON_SCORE'

P value = 0.000134 (Wilcoxon-test), Q value = 0.0015

Table S12.  Gene #2: '1q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
1Q GAIN MUTATED 25 8.4 (1.0)
1Q GAIN WILD-TYPE 457 7.5 (1.0)

Figure S12.  Get High-res Image Gene #2: '1q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'1q gain' versus 'PSA_RESULT_PREOP'

P value = 0.00359 (Wilcoxon-test), Q value = 0.019

Table S13.  Gene #2: '1q gain' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

nPatients Mean (Std.Dev)
ALL 479 10.8 (11.7)
1Q GAIN MUTATED 25 19.2 (17.2)
1Q GAIN WILD-TYPE 454 10.3 (11.1)

Figure S13.  Get High-res Image Gene #2: '1q gain' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

'2p gain' versus 'GLEASON_SCORE_COMBINED'

P value = 0.0425 (Wilcoxon-test), Q value = 0.12

Table S14.  Gene #3: '2p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
2P GAIN MUTATED 10 8.2 (1.0)
2P GAIN WILD-TYPE 472 7.5 (1.0)

Figure S14.  Get High-res Image Gene #3: '2p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'2p gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.066 (Wilcoxon-test), Q value = 0.17

Table S15.  Gene #3: '2p gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
2P GAIN MUTATED 10 4.1 (0.7)
2P GAIN WILD-TYPE 472 3.7 (0.7)

Figure S15.  Get High-res Image Gene #3: '2p gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'2p gain' versus 'GLEASON_SCORE'

P value = 0.101 (Wilcoxon-test), Q value = 0.23

Table S16.  Gene #3: '2p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
2P GAIN MUTATED 10 8.1 (1.1)
2P GAIN WILD-TYPE 472 7.6 (1.0)

Figure S16.  Get High-res Image Gene #3: '2p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'2p gain' versus 'PSA_VALUE'

P value = 0.0249 (Wilcoxon-test), Q value = 0.08

Table S17.  Gene #3: '2p gain' versus Clinical Feature #13: 'PSA_VALUE'

nPatients Mean (Std.Dev)
ALL 426 1.1 (4.1)
2P GAIN MUTATED 7 2.0 (2.7)
2P GAIN WILD-TYPE 419 1.1 (4.2)

Figure S17.  Get High-res Image Gene #3: '2p gain' versus Clinical Feature #13: 'PSA_VALUE'

'2q gain' versus 'GLEASON_SCORE_COMBINED'

P value = 0.0653 (Wilcoxon-test), Q value = 0.17

Table S18.  Gene #4: '2q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
2Q GAIN MUTATED 7 8.3 (1.1)
2Q GAIN WILD-TYPE 475 7.5 (1.0)

Figure S18.  Get High-res Image Gene #4: '2q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'2q gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.031 (Wilcoxon-test), Q value = 0.092

Table S19.  Gene #4: '2q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
2Q GAIN MUTATED 7 4.3 (0.8)
2Q GAIN WILD-TYPE 475 3.7 (0.7)

Figure S19.  Get High-res Image Gene #4: '2q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'2q gain' versus 'PSA_VALUE'

P value = 0.006 (Wilcoxon-test), Q value = 0.027

Table S20.  Gene #4: '2q gain' versus Clinical Feature #13: 'PSA_VALUE'

nPatients Mean (Std.Dev)
ALL 426 1.1 (4.1)
2Q GAIN MUTATED 5 2.6 (3.0)
2Q GAIN WILD-TYPE 421 1.1 (4.2)

Figure S20.  Get High-res Image Gene #4: '2q gain' versus Clinical Feature #13: 'PSA_VALUE'

'3p gain' versus 'Time to Death'

P value = 0.0621 (logrank test), Q value = 0.16

Table S21.  Gene #5: '3p gain' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 481 8 0.7 - 165.2 (26.7)
3P GAIN MUTATED 38 2 0.9 - 114.0 (24.4)
3P GAIN WILD-TYPE 443 6 0.7 - 165.2 (27.0)

Figure S21.  Get High-res Image Gene #5: '3p gain' versus Clinical Feature #1: 'Time to Death'

'3p gain' versus 'YEARS_TO_BIRTH'

P value = 0.000892 (Wilcoxon-test), Q value = 0.0064

Table S22.  Gene #5: '3p gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
3P GAIN MUTATED 36 64.5 (5.6)
3P GAIN WILD-TYPE 435 60.6 (6.8)

Figure S22.  Get High-res Image Gene #5: '3p gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'3p gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.00193 (Fisher's exact test), Q value = 0.012

Table S23.  Gene #5: '3p gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
3P GAIN MUTATED 7 28 3
3P GAIN WILD-TYPE 181 253 7

Figure S23.  Get High-res Image Gene #5: '3p gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'3p gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0717 (Fisher's exact test), Q value = 0.18

Table S24.  Gene #5: '3p gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
3P GAIN MUTATED 26 11
3P GAIN WILD-TYPE 312 64

Figure S24.  Get High-res Image Gene #5: '3p gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'3p gain' versus 'HISTOLOGICAL_TYPE'

P value = 0.0898 (Fisher's exact test), Q value = 0.21

Table S25.  Gene #5: '3p gain' versus Clinical Feature #5: 'HISTOLOGICAL_TYPE'

nPatients PROSTATE ADENOCARCINOMA OTHER SUBTYPE PROSTATE ADENOCARCINOMA ACINAR TYPE
ALL 14 468
3P GAIN MUTATED 3 35
3P GAIN WILD-TYPE 11 433

Figure S25.  Get High-res Image Gene #5: '3p gain' versus Clinical Feature #5: 'HISTOLOGICAL_TYPE'

'3p gain' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.0349 (Fisher's exact test), Q value = 0.1

Table S26.  Gene #5: '3p gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
3P GAIN MUTATED 17 17 1 1
3P GAIN WILD-TYPE 293 121 4 14

Figure S26.  Get High-res Image Gene #5: '3p gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'3p gain' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0148 (Wilcoxon-test), Q value = 0.055

Table S27.  Gene #5: '3p gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
3P GAIN MUTATED 33 1.1 (2.1)
3P GAIN WILD-TYPE 362 0.4 (1.3)

Figure S27.  Get High-res Image Gene #5: '3p gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'3p gain' versus 'GLEASON_SCORE_COMBINED'

P value = 7.76e-05 (Wilcoxon-test), Q value = 0.001

Table S28.  Gene #5: '3p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
3P GAIN MUTATED 38 8.2 (1.0)
3P GAIN WILD-TYPE 444 7.5 (1.0)

Figure S28.  Get High-res Image Gene #5: '3p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'3p gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.000308 (Wilcoxon-test), Q value = 0.0029

Table S29.  Gene #5: '3p gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
3P GAIN MUTATED 38 4.1 (0.7)
3P GAIN WILD-TYPE 444 3.7 (0.7)

Figure S29.  Get High-res Image Gene #5: '3p gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'3p gain' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.0282 (Wilcoxon-test), Q value = 0.087

Table S30.  Gene #5: '3p gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
3P GAIN MUTATED 38 4.1 (0.7)
3P GAIN WILD-TYPE 444 3.8 (0.7)

Figure S30.  Get High-res Image Gene #5: '3p gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'3p gain' versus 'GLEASON_SCORE'

P value = 5.82e-08 (Wilcoxon-test), Q value = 7.1e-06

Table S31.  Gene #5: '3p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
3P GAIN MUTATED 38 8.5 (0.9)
3P GAIN WILD-TYPE 444 7.5 (1.0)

Figure S31.  Get High-res Image Gene #5: '3p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'3q gain' versus 'Time to Death'

P value = 0.0153 (logrank test), Q value = 0.055

Table S32.  Gene #6: '3q gain' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 481 8 0.7 - 165.2 (26.7)
3Q GAIN MUTATED 52 3 0.8 - 114.0 (26.7)
3Q GAIN WILD-TYPE 429 5 0.7 - 165.2 (26.7)

Figure S32.  Get High-res Image Gene #6: '3q gain' versus Clinical Feature #1: 'Time to Death'

'3q gain' versus 'YEARS_TO_BIRTH'

P value = 0.0029 (Wilcoxon-test), Q value = 0.016

Table S33.  Gene #6: '3q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
3Q GAIN MUTATED 50 63.6 (6.1)
3Q GAIN WILD-TYPE 421 60.6 (6.8)

Figure S33.  Get High-res Image Gene #6: '3q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'3q gain' versus 'PATHOLOGY_T_STAGE'

P value = 6e-05 (Fisher's exact test), Q value = 8e-04

Table S34.  Gene #6: '3q gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
3Q GAIN MUTATED 8 40 4
3Q GAIN WILD-TYPE 180 241 6

Figure S34.  Get High-res Image Gene #6: '3q gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'3q gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0759 (Fisher's exact test), Q value = 0.19

Table S35.  Gene #6: '3q gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
3Q GAIN MUTATED 36 14
3Q GAIN WILD-TYPE 302 61

Figure S35.  Get High-res Image Gene #6: '3q gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'3q gain' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.015 (Fisher's exact test), Q value = 0.055

Table S36.  Gene #6: '3q gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
3Q GAIN MUTATED 24 24 1 1
3Q GAIN WILD-TYPE 286 114 4 14

Figure S36.  Get High-res Image Gene #6: '3q gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'3q gain' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.017 (Wilcoxon-test), Q value = 0.06

Table S37.  Gene #6: '3q gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
3Q GAIN MUTATED 45 0.9 (1.9)
3Q GAIN WILD-TYPE 350 0.4 (1.3)

Figure S37.  Get High-res Image Gene #6: '3q gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'3q gain' versus 'GLEASON_SCORE_COMBINED'

P value = 5.57e-06 (Wilcoxon-test), Q value = 0.00014

Table S38.  Gene #6: '3q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
3Q GAIN MUTATED 52 8.2 (1.0)
3Q GAIN WILD-TYPE 430 7.5 (1.0)

Figure S38.  Get High-res Image Gene #6: '3q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'3q gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 2.15e-05 (Wilcoxon-test), Q value = 0.00034

Table S39.  Gene #6: '3q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
3Q GAIN MUTATED 52 4.1 (0.6)
3Q GAIN WILD-TYPE 430 3.6 (0.7)

Figure S39.  Get High-res Image Gene #6: '3q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'3q gain' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.0132 (Wilcoxon-test), Q value = 0.05

Table S40.  Gene #6: '3q gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
3Q GAIN MUTATED 52 4.1 (0.7)
3Q GAIN WILD-TYPE 430 3.8 (0.7)

Figure S40.  Get High-res Image Gene #6: '3q gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'3q gain' versus 'GLEASON_SCORE'

P value = 8.96e-09 (Wilcoxon-test), Q value = 2.5e-06

Table S41.  Gene #6: '3q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
3Q GAIN MUTATED 52 8.4 (0.9)
3Q GAIN WILD-TYPE 430 7.5 (1.0)

Figure S41.  Get High-res Image Gene #6: '3q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'3q gain' versus 'PSA_RESULT_PREOP'

P value = 0.0245 (Wilcoxon-test), Q value = 0.078

Table S42.  Gene #6: '3q gain' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

nPatients Mean (Std.Dev)
ALL 479 10.8 (11.7)
3Q GAIN MUTATED 52 15.4 (18.5)
3Q GAIN WILD-TYPE 427 10.2 (10.4)

Figure S42.  Get High-res Image Gene #6: '3q gain' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

'3q gain' versus 'PSA_VALUE'

P value = 0.0184 (Wilcoxon-test), Q value = 0.063

Table S43.  Gene #6: '3q gain' versus Clinical Feature #13: 'PSA_VALUE'

nPatients Mean (Std.Dev)
ALL 426 1.1 (4.1)
3Q GAIN MUTATED 43 2.4 (7.7)
3Q GAIN WILD-TYPE 383 0.9 (3.5)

Figure S43.  Get High-res Image Gene #6: '3q gain' versus Clinical Feature #13: 'PSA_VALUE'

'4q gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0882 (Fisher's exact test), Q value = 0.21

Table S44.  Gene #8: '4q gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
4Q GAIN MUTATED 6 4
4Q GAIN WILD-TYPE 332 71

Figure S44.  Get High-res Image Gene #8: '4q gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'5p gain' versus 'YEARS_TO_BIRTH'

P value = 0.00144 (Wilcoxon-test), Q value = 0.0094

Table S45.  Gene #9: '5p gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
5P GAIN MUTATED 23 65.3 (5.5)
5P GAIN WILD-TYPE 448 60.7 (6.8)

Figure S45.  Get High-res Image Gene #9: '5p gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'5p gain' versus 'PATHOLOGY_T_STAGE'

P value = 2e-04 (Fisher's exact test), Q value = 0.0021

Table S46.  Gene #9: '5p gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
5P GAIN MUTATED 1 20 2
5P GAIN WILD-TYPE 187 261 8

Figure S46.  Get High-res Image Gene #9: '5p gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'5p gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.00223 (Fisher's exact test), Q value = 0.013

Table S47.  Gene #9: '5p gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
5P GAIN MUTATED 12 10
5P GAIN WILD-TYPE 326 65

Figure S47.  Get High-res Image Gene #9: '5p gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'5p gain' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.0148 (Fisher's exact test), Q value = 0.055

Table S48.  Gene #9: '5p gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
5P GAIN MUTATED 9 12 1 1
5P GAIN WILD-TYPE 301 126 4 14

Figure S48.  Get High-res Image Gene #9: '5p gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'5p gain' versus 'NUMBER_OF_LYMPH_NODES'

P value = 4.55e-05 (Wilcoxon-test), Q value = 0.00063

Table S49.  Gene #9: '5p gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
5P GAIN MUTATED 19 1.7 (2.6)
5P GAIN WILD-TYPE 376 0.4 (1.3)

Figure S49.  Get High-res Image Gene #9: '5p gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'5p gain' versus 'GLEASON_SCORE_COMBINED'

P value = 0.000268 (Wilcoxon-test), Q value = 0.0026

Table S50.  Gene #9: '5p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
5P GAIN MUTATED 23 8.3 (1.1)
5P GAIN WILD-TYPE 459 7.5 (1.0)

Figure S50.  Get High-res Image Gene #9: '5p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'5p gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.000103 (Wilcoxon-test), Q value = 0.0013

Table S51.  Gene #9: '5p gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
5P GAIN MUTATED 23 4.3 (0.7)
5P GAIN WILD-TYPE 459 3.7 (0.7)

Figure S51.  Get High-res Image Gene #9: '5p gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'5p gain' versus 'GLEASON_SCORE'

P value = 1.03e-06 (Wilcoxon-test), Q value = 4.4e-05

Table S52.  Gene #9: '5p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
5P GAIN MUTATED 23 8.6 (0.8)
5P GAIN WILD-TYPE 459 7.5 (1.0)

Figure S52.  Get High-res Image Gene #9: '5p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'5p gain' versus 'PSA_RESULT_PREOP'

P value = 0.00879 (Wilcoxon-test), Q value = 0.036

Table S53.  Gene #9: '5p gain' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

nPatients Mean (Std.Dev)
ALL 479 10.8 (11.7)
5P GAIN MUTATED 23 16.7 (16.7)
5P GAIN WILD-TYPE 456 10.5 (11.3)

Figure S53.  Get High-res Image Gene #9: '5p gain' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

'5q gain' versus 'YEARS_TO_BIRTH'

P value = 0.00014 (Wilcoxon-test), Q value = 0.0016

Table S54.  Gene #10: '5q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
5Q GAIN MUTATED 12 68.1 (3.8)
5Q GAIN WILD-TYPE 459 60.7 (6.8)

Figure S54.  Get High-res Image Gene #10: '5q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'5q gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.00658 (Fisher's exact test), Q value = 0.029

Table S55.  Gene #10: '5q gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
5Q GAIN MUTATED 0 12 0
5Q GAIN WILD-TYPE 188 269 10

Figure S55.  Get High-res Image Gene #10: '5q gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'5q gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0064 (Fisher's exact test), Q value = 0.028

Table S56.  Gene #10: '5q gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
5Q GAIN MUTATED 5 6
5Q GAIN WILD-TYPE 333 69

Figure S56.  Get High-res Image Gene #10: '5q gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'5q gain' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.019 (Fisher's exact test), Q value = 0.065

Table S57.  Gene #10: '5q gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
5Q GAIN MUTATED 4 6 1 1
5Q GAIN WILD-TYPE 306 132 4 14

Figure S57.  Get High-res Image Gene #10: '5q gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'5q gain' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000257 (Wilcoxon-test), Q value = 0.0025

Table S58.  Gene #10: '5q gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
5Q GAIN MUTATED 10 2.3 (3.0)
5Q GAIN WILD-TYPE 385 0.4 (1.3)

Figure S58.  Get High-res Image Gene #10: '5q gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'5q gain' versus 'GLEASON_SCORE_COMBINED'

P value = 0.108 (Wilcoxon-test), Q value = 0.24

Table S59.  Gene #10: '5q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
5Q GAIN MUTATED 12 8.0 (1.0)
5Q GAIN WILD-TYPE 470 7.5 (1.0)

Figure S59.  Get High-res Image Gene #10: '5q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'5q gain' versus 'GLEASON_SCORE'

P value = 0.00146 (Wilcoxon-test), Q value = 0.0095

Table S60.  Gene #10: '5q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
5Q GAIN MUTATED 12 8.5 (0.8)
5Q GAIN WILD-TYPE 470 7.6 (1.0)

Figure S60.  Get High-res Image Gene #10: '5q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'5q gain' versus 'PSA_RESULT_PREOP'

P value = 0.012 (Wilcoxon-test), Q value = 0.046

Table S61.  Gene #10: '5q gain' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

nPatients Mean (Std.Dev)
ALL 479 10.8 (11.7)
5Q GAIN MUTATED 12 13.6 (8.9)
5Q GAIN WILD-TYPE 467 10.7 (11.7)

Figure S61.  Get High-res Image Gene #10: '5q gain' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

'6p gain' versus 'Time to Death'

P value = 0.0409 (logrank test), Q value = 0.12

Table S62.  Gene #11: '6p gain' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 481 8 0.7 - 165.2 (26.7)
6P GAIN MUTATED 9 1 4.3 - 86.4 (32.0)
6P GAIN WILD-TYPE 472 7 0.7 - 165.2 (26.5)

Figure S62.  Get High-res Image Gene #11: '6p gain' versus Clinical Feature #1: 'Time to Death'

'6p gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0612 (Fisher's exact test), Q value = 0.16

Table S63.  Gene #11: '6p gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
6P GAIN MUTATED 5 4
6P GAIN WILD-TYPE 333 71

Figure S63.  Get High-res Image Gene #11: '6p gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'6p gain' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0505 (Wilcoxon-test), Q value = 0.14

Table S64.  Gene #11: '6p gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
6P GAIN MUTATED 9 0.8 (1.1)
6P GAIN WILD-TYPE 386 0.4 (1.4)

Figure S64.  Get High-res Image Gene #11: '6p gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'6p gain' versus 'GLEASON_SCORE_COMBINED'

P value = 0.0108 (Wilcoxon-test), Q value = 0.042

Table S65.  Gene #11: '6p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
6P GAIN MUTATED 9 8.4 (1.0)
6P GAIN WILD-TYPE 473 7.5 (1.0)

Figure S65.  Get High-res Image Gene #11: '6p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'6p gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.0215 (Wilcoxon-test), Q value = 0.071

Table S66.  Gene #11: '6p gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
6P GAIN MUTATED 9 4.2 (0.7)
6P GAIN WILD-TYPE 473 3.7 (0.7)

Figure S66.  Get High-res Image Gene #11: '6p gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'6p gain' versus 'GLEASON_SCORE'

P value = 0.0577 (Wilcoxon-test), Q value = 0.15

Table S67.  Gene #11: '6p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
6P GAIN MUTATED 9 8.2 (1.0)
6P GAIN WILD-TYPE 473 7.6 (1.0)

Figure S67.  Get High-res Image Gene #11: '6p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'6q gain' versus 'YEARS_TO_BIRTH'

P value = 0.109 (Wilcoxon-test), Q value = 0.25

Table S68.  Gene #12: '6q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
6Q GAIN MUTATED 4 66.8 (5.7)
6Q GAIN WILD-TYPE 467 60.8 (6.8)

Figure S68.  Get High-res Image Gene #12: '6q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'6q gain' versus 'GLEASON_SCORE_COMBINED'

P value = 0.0565 (Wilcoxon-test), Q value = 0.15

Table S69.  Gene #12: '6q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
6Q GAIN MUTATED 5 8.4 (0.9)
6Q GAIN WILD-TYPE 477 7.5 (1.0)

Figure S69.  Get High-res Image Gene #12: '6q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'6q gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.0224 (Wilcoxon-test), Q value = 0.072

Table S70.  Gene #12: '6q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
6Q GAIN MUTATED 5 4.4 (0.5)
6Q GAIN WILD-TYPE 477 3.7 (0.7)

Figure S70.  Get High-res Image Gene #12: '6q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'7p gain' versus 'YEARS_TO_BIRTH'

P value = 0.00737 (Wilcoxon-test), Q value = 0.031

Table S71.  Gene #13: '7p gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
7P GAIN MUTATED 97 62.4 (6.7)
7P GAIN WILD-TYPE 374 60.5 (6.8)

Figure S71.  Get High-res Image Gene #13: '7p gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'7p gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.0367 (Fisher's exact test), Q value = 0.11

Table S72.  Gene #13: '7p gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
7P GAIN MUTATED 29 69 1
7P GAIN WILD-TYPE 159 212 9

Figure S72.  Get High-res Image Gene #13: '7p gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'7p gain' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.00336 (Fisher's exact test), Q value = 0.018

Table S73.  Gene #13: '7p gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
7P GAIN MUTATED 49 42 1 4
7P GAIN WILD-TYPE 261 96 4 11

Figure S73.  Get High-res Image Gene #13: '7p gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'7p gain' versus 'GLEASON_SCORE_COMBINED'

P value = 0.00105 (Wilcoxon-test), Q value = 0.0073

Table S74.  Gene #13: '7p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
7P GAIN MUTATED 99 7.9 (1.1)
7P GAIN WILD-TYPE 383 7.5 (1.0)

Figure S74.  Get High-res Image Gene #13: '7p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'7p gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.00505 (Wilcoxon-test), Q value = 0.025

Table S75.  Gene #13: '7p gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
7P GAIN MUTATED 99 3.9 (0.7)
7P GAIN WILD-TYPE 383 3.6 (0.7)

Figure S75.  Get High-res Image Gene #13: '7p gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'7p gain' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.0172 (Wilcoxon-test), Q value = 0.06

Table S76.  Gene #13: '7p gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
7P GAIN MUTATED 99 4.0 (0.8)
7P GAIN WILD-TYPE 383 3.8 (0.7)

Figure S76.  Get High-res Image Gene #13: '7p gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'7p gain' versus 'GLEASON_SCORE'

P value = 0.000103 (Wilcoxon-test), Q value = 0.0013

Table S77.  Gene #13: '7p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
7P GAIN MUTATED 99 8.0 (1.1)
7P GAIN WILD-TYPE 383 7.5 (1.0)

Figure S77.  Get High-res Image Gene #13: '7p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'7q gain' versus 'YEARS_TO_BIRTH'

P value = 0.0132 (Wilcoxon-test), Q value = 0.05

Table S78.  Gene #14: '7q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
7Q GAIN MUTATED 90 62.3 (6.8)
7Q GAIN WILD-TYPE 381 60.6 (6.8)

Figure S78.  Get High-res Image Gene #14: '7q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'7q gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.101 (Fisher's exact test), Q value = 0.23

Table S79.  Gene #14: '7q gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
7Q GAIN MUTATED 28 63 1
7Q GAIN WILD-TYPE 160 218 9

Figure S79.  Get High-res Image Gene #14: '7q gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'7q gain' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.00189 (Fisher's exact test), Q value = 0.012

Table S80.  Gene #14: '7q gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
7Q GAIN MUTATED 44 40 1 4
7Q GAIN WILD-TYPE 266 98 4 11

Figure S80.  Get High-res Image Gene #14: '7q gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'7q gain' versus 'GLEASON_SCORE_COMBINED'

P value = 0.00245 (Wilcoxon-test), Q value = 0.014

Table S81.  Gene #14: '7q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
7Q GAIN MUTATED 92 7.9 (1.1)
7Q GAIN WILD-TYPE 390 7.5 (1.0)

Figure S81.  Get High-res Image Gene #14: '7q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'7q gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.0133 (Wilcoxon-test), Q value = 0.05

Table S82.  Gene #14: '7q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
7Q GAIN MUTATED 92 3.8 (0.7)
7Q GAIN WILD-TYPE 390 3.7 (0.7)

Figure S82.  Get High-res Image Gene #14: '7q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'7q gain' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.0214 (Wilcoxon-test), Q value = 0.071

Table S83.  Gene #14: '7q gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
7Q GAIN MUTATED 92 4.0 (0.8)
7Q GAIN WILD-TYPE 390 3.8 (0.7)

Figure S83.  Get High-res Image Gene #14: '7q gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'7q gain' versus 'GLEASON_SCORE'

P value = 0.000327 (Wilcoxon-test), Q value = 0.0031

Table S84.  Gene #14: '7q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
7Q GAIN MUTATED 92 7.9 (1.1)
7Q GAIN WILD-TYPE 390 7.5 (1.0)

Figure S84.  Get High-res Image Gene #14: '7q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'8p gain' versus 'YEARS_TO_BIRTH'

P value = 0.00905 (Wilcoxon-test), Q value = 0.037

Table S85.  Gene #15: '8p gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
8P GAIN MUTATED 70 62.7 (6.6)
8P GAIN WILD-TYPE 401 60.6 (6.8)

Figure S85.  Get High-res Image Gene #15: '8p gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'8p gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.00732 (Fisher's exact test), Q value = 0.031

Table S86.  Gene #15: '8p gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
8P GAIN MUTATED 17 50 3
8P GAIN WILD-TYPE 171 231 7

Figure S86.  Get High-res Image Gene #15: '8p gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'8p gain' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.00583 (Fisher's exact test), Q value = 0.027

Table S87.  Gene #15: '8p gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
8P GAIN MUTATED 34 32 1 1
8P GAIN WILD-TYPE 276 106 4 14

Figure S87.  Get High-res Image Gene #15: '8p gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'8p gain' versus 'GLEASON_SCORE_COMBINED'

P value = 2.46e-07 (Wilcoxon-test), Q value = 1.5e-05

Table S88.  Gene #15: '8p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
8P GAIN MUTATED 70 8.1 (1.0)
8P GAIN WILD-TYPE 412 7.5 (1.0)

Figure S88.  Get High-res Image Gene #15: '8p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'8p gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 6.84e-06 (Wilcoxon-test), Q value = 0.00016

Table S89.  Gene #15: '8p gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
8P GAIN MUTATED 70 4.0 (0.7)
8P GAIN WILD-TYPE 412 3.6 (0.7)

Figure S89.  Get High-res Image Gene #15: '8p gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'8p gain' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.00354 (Wilcoxon-test), Q value = 0.019

Table S90.  Gene #15: '8p gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
8P GAIN MUTATED 70 4.1 (0.7)
8P GAIN WILD-TYPE 412 3.8 (0.7)

Figure S90.  Get High-res Image Gene #15: '8p gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'8p gain' versus 'GLEASON_SCORE'

P value = 2.29e-07 (Wilcoxon-test), Q value = 1.5e-05

Table S91.  Gene #15: '8p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
8P GAIN MUTATED 70 8.2 (1.0)
8P GAIN WILD-TYPE 412 7.5 (1.0)

Figure S91.  Get High-res Image Gene #15: '8p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'8p gain' versus 'PSA_RESULT_PREOP'

P value = 0.0278 (Wilcoxon-test), Q value = 0.087

Table S92.  Gene #15: '8p gain' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

nPatients Mean (Std.Dev)
ALL 479 10.8 (11.7)
8P GAIN MUTATED 70 14.8 (17.8)
8P GAIN WILD-TYPE 409 10.1 (10.1)

Figure S92.  Get High-res Image Gene #15: '8p gain' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

'8p gain' versus 'PSA_VALUE'

P value = 0.087 (Wilcoxon-test), Q value = 0.21

Table S93.  Gene #15: '8p gain' versus Clinical Feature #13: 'PSA_VALUE'

nPatients Mean (Std.Dev)
ALL 426 1.1 (4.1)
8P GAIN MUTATED 58 1.4 (4.3)
8P GAIN WILD-TYPE 368 1.0 (4.1)

Figure S93.  Get High-res Image Gene #15: '8p gain' versus Clinical Feature #13: 'PSA_VALUE'

'8q gain' versus 'YEARS_TO_BIRTH'

P value = 0.0761 (Wilcoxon-test), Q value = 0.19

Table S94.  Gene #16: '8q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
8Q GAIN MUTATED 118 61.8 (6.4)
8Q GAIN WILD-TYPE 353 60.6 (6.9)

Figure S94.  Get High-res Image Gene #16: '8q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'8q gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.00018 (Fisher's exact test), Q value = 0.0019

Table S95.  Gene #16: '8q gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
8Q GAIN MUTATED 29 89 3
8Q GAIN WILD-TYPE 159 192 7

Figure S95.  Get High-res Image Gene #16: '8q gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'8q gain' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.00355 (Fisher's exact test), Q value = 0.019

Table S96.  Gene #16: '8q gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
8Q GAIN MUTATED 62 49 1 5
8Q GAIN WILD-TYPE 248 89 4 10

Figure S96.  Get High-res Image Gene #16: '8q gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'8q gain' versus 'GLEASON_SCORE_COMBINED'

P value = 5.29e-08 (Wilcoxon-test), Q value = 7.1e-06

Table S97.  Gene #16: '8q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
8Q GAIN MUTATED 121 8.0 (1.0)
8Q GAIN WILD-TYPE 361 7.4 (1.0)

Figure S97.  Get High-res Image Gene #16: '8q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'8q gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 9.96e-10 (Wilcoxon-test), Q value = 5.6e-07

Table S98.  Gene #16: '8q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
8Q GAIN MUTATED 121 4.0 (0.7)
8Q GAIN WILD-TYPE 361 3.6 (0.6)

Figure S98.  Get High-res Image Gene #16: '8q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'8q gain' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.0648 (Wilcoxon-test), Q value = 0.17

Table S99.  Gene #16: '8q gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
8Q GAIN MUTATED 121 4.0 (0.7)
8Q GAIN WILD-TYPE 361 3.8 (0.7)

Figure S99.  Get High-res Image Gene #16: '8q gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'8q gain' versus 'GLEASON_SCORE'

P value = 6.2e-08 (Wilcoxon-test), Q value = 7.1e-06

Table S100.  Gene #16: '8q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
8Q GAIN MUTATED 121 8.0 (1.0)
8Q GAIN WILD-TYPE 361 7.4 (0.9)

Figure S100.  Get High-res Image Gene #16: '8q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'8q gain' versus 'PSA_RESULT_PREOP'

P value = 0.0056 (Wilcoxon-test), Q value = 0.026

Table S101.  Gene #16: '8q gain' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

nPatients Mean (Std.Dev)
ALL 479 10.8 (11.7)
8Q GAIN MUTATED 121 13.3 (15.2)
8Q GAIN WILD-TYPE 358 10.0 (10.1)

Figure S101.  Get High-res Image Gene #16: '8q gain' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

'8q gain' versus 'PSA_VALUE'

P value = 0.0613 (Wilcoxon-test), Q value = 0.16

Table S102.  Gene #16: '8q gain' versus Clinical Feature #13: 'PSA_VALUE'

nPatients Mean (Std.Dev)
ALL 426 1.1 (4.1)
8Q GAIN MUTATED 102 1.3 (4.0)
8Q GAIN WILD-TYPE 324 1.0 (4.2)

Figure S102.  Get High-res Image Gene #16: '8q gain' versus Clinical Feature #13: 'PSA_VALUE'

'9p gain' versus 'YEARS_TO_BIRTH'

P value = 0.00403 (Wilcoxon-test), Q value = 0.021

Table S103.  Gene #17: '9p gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
9P GAIN MUTATED 31 64.4 (6.1)
9P GAIN WILD-TYPE 440 60.6 (6.8)

Figure S103.  Get High-res Image Gene #17: '9p gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'9p gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.00013 (Fisher's exact test), Q value = 0.0015

Table S104.  Gene #17: '9p gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
9P GAIN MUTATED 2 28 1
9P GAIN WILD-TYPE 186 253 9

Figure S104.  Get High-res Image Gene #17: '9p gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'9p gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.000776 (Fisher's exact test), Q value = 0.0059

Table S105.  Gene #17: '9p gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
9P GAIN MUTATED 17 13
9P GAIN WILD-TYPE 321 62

Figure S105.  Get High-res Image Gene #17: '9p gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'9p gain' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.0267 (Fisher's exact test), Q value = 0.084

Table S106.  Gene #17: '9p gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
9P GAIN MUTATED 14 15 1 0
9P GAIN WILD-TYPE 296 123 4 15

Figure S106.  Get High-res Image Gene #17: '9p gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'9p gain' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000593 (Wilcoxon-test), Q value = 0.0048

Table S107.  Gene #17: '9p gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
9P GAIN MUTATED 30 0.8 (1.5)
9P GAIN WILD-TYPE 365 0.4 (1.4)

Figure S107.  Get High-res Image Gene #17: '9p gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'9p gain' versus 'GLEASON_SCORE_COMBINED'

P value = 0.000442 (Wilcoxon-test), Q value = 0.0039

Table S108.  Gene #17: '9p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
9P GAIN MUTATED 31 8.2 (1.1)
9P GAIN WILD-TYPE 451 7.5 (1.0)

Figure S108.  Get High-res Image Gene #17: '9p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'9p gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.000202 (Wilcoxon-test), Q value = 0.0021

Table S109.  Gene #17: '9p gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
9P GAIN MUTATED 31 4.2 (0.7)
9P GAIN WILD-TYPE 451 3.7 (0.7)

Figure S109.  Get High-res Image Gene #17: '9p gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'9p gain' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.102 (Wilcoxon-test), Q value = 0.23

Table S110.  Gene #17: '9p gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
9P GAIN MUTATED 31 4.1 (0.7)
9P GAIN WILD-TYPE 451 3.9 (0.7)

Figure S110.  Get High-res Image Gene #17: '9p gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'9p gain' versus 'GLEASON_SCORE'

P value = 1.04e-05 (Wilcoxon-test), Q value = 0.00021

Table S111.  Gene #17: '9p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
9P GAIN MUTATED 31 8.4 (0.9)
9P GAIN WILD-TYPE 451 7.5 (1.0)

Figure S111.  Get High-res Image Gene #17: '9p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'9p gain' versus 'PSA_RESULT_PREOP'

P value = 0.00523 (Wilcoxon-test), Q value = 0.025

Table S112.  Gene #17: '9p gain' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

nPatients Mean (Std.Dev)
ALL 479 10.8 (11.7)
9P GAIN MUTATED 31 14.8 (11.9)
9P GAIN WILD-TYPE 448 10.5 (11.6)

Figure S112.  Get High-res Image Gene #17: '9p gain' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

'9q gain' versus 'YEARS_TO_BIRTH'

P value = 0.015 (Wilcoxon-test), Q value = 0.055

Table S113.  Gene #18: '9q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
9Q GAIN MUTATED 47 63.3 (6.0)
9Q GAIN WILD-TYPE 424 60.6 (6.8)

Figure S113.  Get High-res Image Gene #18: '9q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'9q gain' versus 'PATHOLOGY_T_STAGE'

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

Table S114.  Gene #18: '9q gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
9Q GAIN MUTATED 4 41 2
9Q GAIN WILD-TYPE 184 240 8

Figure S114.  Get High-res Image Gene #18: '9q gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'9q gain' versus 'PATHOLOGY_N_STAGE'

P value = 1.21e-05 (Fisher's exact test), Q value = 0.00023

Table S115.  Gene #18: '9q gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
9Q GAIN MUTATED 25 20
9Q GAIN WILD-TYPE 313 55

Figure S115.  Get High-res Image Gene #18: '9q gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'9q gain' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.0201 (Fisher's exact test), Q value = 0.067

Table S116.  Gene #18: '9q gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
9Q GAIN MUTATED 22 22 1 1
9Q GAIN WILD-TYPE 288 116 4 14

Figure S116.  Get High-res Image Gene #18: '9q gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'9q gain' versus 'NUMBER_OF_LYMPH_NODES'

P value = 2.16e-06 (Wilcoxon-test), Q value = 7.8e-05

Table S117.  Gene #18: '9q gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
9Q GAIN MUTATED 45 1.3 (2.6)
9Q GAIN WILD-TYPE 350 0.3 (1.1)

Figure S117.  Get High-res Image Gene #18: '9q gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'9q gain' versus 'GLEASON_SCORE_COMBINED'

P value = 1.48e-06 (Wilcoxon-test), Q value = 5.7e-05

Table S118.  Gene #18: '9q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
9Q GAIN MUTATED 47 8.3 (1.1)
9Q GAIN WILD-TYPE 435 7.5 (1.0)

Figure S118.  Get High-res Image Gene #18: '9q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'9q gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 2.33e-07 (Wilcoxon-test), Q value = 1.5e-05

Table S119.  Gene #18: '9q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
9Q GAIN MUTATED 47 4.2 (0.6)
9Q GAIN WILD-TYPE 435 3.6 (0.7)

Figure S119.  Get High-res Image Gene #18: '9q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'9q gain' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.0257 (Wilcoxon-test), Q value = 0.081

Table S120.  Gene #18: '9q gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
9Q GAIN MUTATED 47 4.1 (0.7)
9Q GAIN WILD-TYPE 435 3.8 (0.7)

Figure S120.  Get High-res Image Gene #18: '9q gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'9q gain' versus 'GLEASON_SCORE'

P value = 6.37e-08 (Wilcoxon-test), Q value = 7.1e-06

Table S121.  Gene #18: '9q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
9Q GAIN MUTATED 47 8.3 (0.9)
9Q GAIN WILD-TYPE 435 7.5 (1.0)

Figure S121.  Get High-res Image Gene #18: '9q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'9q gain' versus 'PSA_RESULT_PREOP'

P value = 0.00331 (Wilcoxon-test), Q value = 0.018

Table S122.  Gene #18: '9q gain' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

nPatients Mean (Std.Dev)
ALL 479 10.8 (11.7)
9Q GAIN MUTATED 47 16.4 (16.4)
9Q GAIN WILD-TYPE 432 10.2 (10.9)

Figure S122.  Get High-res Image Gene #18: '9q gain' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

'10p gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0671 (Fisher's exact test), Q value = 0.17

Table S123.  Gene #19: '10p gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
10P GAIN MUTATED 8 5
10P GAIN WILD-TYPE 330 70

Figure S123.  Get High-res Image Gene #19: '10p gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'10p gain' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0724 (Wilcoxon-test), Q value = 0.18

Table S124.  Gene #19: '10p gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
10P GAIN MUTATED 13 1.2 (3.0)
10P GAIN WILD-TYPE 382 0.4 (1.3)

Figure S124.  Get High-res Image Gene #19: '10p gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'10p gain' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.105 (Wilcoxon-test), Q value = 0.24

Table S125.  Gene #19: '10p gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
10P GAIN MUTATED 14 4.1 (0.5)
10P GAIN WILD-TYPE 468 3.9 (0.7)

Figure S125.  Get High-res Image Gene #19: '10p gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'10p gain' versus 'GLEASON_SCORE'

P value = 0.0045 (Wilcoxon-test), Q value = 0.023

Table S126.  Gene #19: '10p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
10P GAIN MUTATED 14 8.4 (0.9)
10P GAIN WILD-TYPE 468 7.6 (1.0)

Figure S126.  Get High-res Image Gene #19: '10p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'10q gain' versus 'GLEASON_SCORE'

P value = 0.0432 (Wilcoxon-test), Q value = 0.12

Table S127.  Gene #20: '10q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
10Q GAIN MUTATED 13 8.2 (1.0)
10Q GAIN WILD-TYPE 469 7.6 (1.0)

Figure S127.  Get High-res Image Gene #20: '10q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'11p gain' versus 'YEARS_TO_BIRTH'

P value = 0.0547 (Wilcoxon-test), Q value = 0.15

Table S128.  Gene #21: '11p gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
11P GAIN MUTATED 24 63.2 (6.5)
11P GAIN WILD-TYPE 447 60.8 (6.8)

Figure S128.  Get High-res Image Gene #21: '11p gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'11p gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.0032 (Fisher's exact test), Q value = 0.018

Table S129.  Gene #21: '11p gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
11P GAIN MUTATED 3 19 2
11P GAIN WILD-TYPE 185 262 8

Figure S129.  Get High-res Image Gene #21: '11p gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'11p gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.00336 (Fisher's exact test), Q value = 0.018

Table S130.  Gene #21: '11p gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
11P GAIN MUTATED 13 10
11P GAIN WILD-TYPE 325 65

Figure S130.  Get High-res Image Gene #21: '11p gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'11p gain' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.0341 (Fisher's exact test), Q value = 0.1

Table S131.  Gene #21: '11p gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
11P GAIN MUTATED 10 12 0 2
11P GAIN WILD-TYPE 300 126 5 13

Figure S131.  Get High-res Image Gene #21: '11p gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'11p gain' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00431 (Wilcoxon-test), Q value = 0.022

Table S132.  Gene #21: '11p gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
11P GAIN MUTATED 23 0.8 (1.5)
11P GAIN WILD-TYPE 372 0.4 (1.4)

Figure S132.  Get High-res Image Gene #21: '11p gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'11p gain' versus 'GLEASON_SCORE_COMBINED'

P value = 0.000149 (Wilcoxon-test), Q value = 0.0017

Table S133.  Gene #21: '11p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
11P GAIN MUTATED 24 8.4 (1.1)
11P GAIN WILD-TYPE 458 7.5 (1.0)

Figure S133.  Get High-res Image Gene #21: '11p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'11p gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.000215 (Wilcoxon-test), Q value = 0.0022

Table S134.  Gene #21: '11p gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
11P GAIN MUTATED 24 4.2 (0.7)
11P GAIN WILD-TYPE 458 3.7 (0.7)

Figure S134.  Get High-res Image Gene #21: '11p gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'11p gain' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.0292 (Wilcoxon-test), Q value = 0.089

Table S135.  Gene #21: '11p gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
11P GAIN MUTATED 24 4.2 (0.7)
11P GAIN WILD-TYPE 458 3.8 (0.7)

Figure S135.  Get High-res Image Gene #21: '11p gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'11p gain' versus 'GLEASON_SCORE'

P value = 0.000107 (Wilcoxon-test), Q value = 0.0013

Table S136.  Gene #21: '11p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
11P GAIN MUTATED 24 8.4 (1.0)
11P GAIN WILD-TYPE 458 7.5 (1.0)

Figure S136.  Get High-res Image Gene #21: '11p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'11q gain' versus 'YEARS_TO_BIRTH'

P value = 0.0602 (Wilcoxon-test), Q value = 0.16

Table S137.  Gene #22: '11q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
11Q GAIN MUTATED 27 63.1 (6.5)
11Q GAIN WILD-TYPE 444 60.8 (6.8)

Figure S137.  Get High-res Image Gene #22: '11q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'11q gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.00553 (Fisher's exact test), Q value = 0.026

Table S138.  Gene #22: '11q gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
11Q GAIN MUTATED 4 21 2
11Q GAIN WILD-TYPE 184 260 8

Figure S138.  Get High-res Image Gene #22: '11q gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'11q gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.00267 (Fisher's exact test), Q value = 0.016

Table S139.  Gene #22: '11q gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
11Q GAIN MUTATED 15 11
11Q GAIN WILD-TYPE 323 64

Figure S139.  Get High-res Image Gene #22: '11q gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'11q gain' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.0499 (Fisher's exact test), Q value = 0.14

Table S140.  Gene #22: '11q gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
11Q GAIN MUTATED 12 13 0 2
11Q GAIN WILD-TYPE 298 125 5 13

Figure S140.  Get High-res Image Gene #22: '11q gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'11q gain' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00248 (Wilcoxon-test), Q value = 0.015

Table S141.  Gene #22: '11q gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
11Q GAIN MUTATED 25 0.8 (1.5)
11Q GAIN WILD-TYPE 370 0.4 (1.4)

Figure S141.  Get High-res Image Gene #22: '11q gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'11q gain' versus 'GLEASON_SCORE_COMBINED'

P value = 2.01e-05 (Wilcoxon-test), Q value = 0.00032

Table S142.  Gene #22: '11q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
11Q GAIN MUTATED 27 8.4 (1.0)
11Q GAIN WILD-TYPE 455 7.5 (1.0)

Figure S142.  Get High-res Image Gene #22: '11q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'11q gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 1.9e-05 (Wilcoxon-test), Q value = 0.00032

Table S143.  Gene #22: '11q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
11Q GAIN MUTATED 27 4.3 (0.7)
11Q GAIN WILD-TYPE 455 3.7 (0.7)

Figure S143.  Get High-res Image Gene #22: '11q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'11q gain' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.0267 (Wilcoxon-test), Q value = 0.084

Table S144.  Gene #22: '11q gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
11Q GAIN MUTATED 27 4.1 (0.7)
11Q GAIN WILD-TYPE 455 3.8 (0.7)

Figure S144.  Get High-res Image Gene #22: '11q gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'11q gain' versus 'GLEASON_SCORE'

P value = 1.55e-05 (Wilcoxon-test), Q value = 0.00027

Table S145.  Gene #22: '11q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
11Q GAIN MUTATED 27 8.4 (1.0)
11Q GAIN WILD-TYPE 455 7.5 (1.0)

Figure S145.  Get High-res Image Gene #22: '11q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'12p gain' versus 'YEARS_TO_BIRTH'

P value = 0.0142 (Wilcoxon-test), Q value = 0.053

Table S146.  Gene #23: '12p gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
12P GAIN MUTATED 13 65.6 (5.8)
12P GAIN WILD-TYPE 458 60.8 (6.8)

Figure S146.  Get High-res Image Gene #23: '12p gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'12p gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.00623 (Fisher's exact test), Q value = 0.028

Table S147.  Gene #23: '12p gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
12P GAIN MUTATED 0 13 0
12P GAIN WILD-TYPE 188 268 10

Figure S147.  Get High-res Image Gene #23: '12p gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'12p gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0207 (Fisher's exact test), Q value = 0.069

Table S148.  Gene #23: '12p gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
12P GAIN MUTATED 5 5
12P GAIN WILD-TYPE 333 70

Figure S148.  Get High-res Image Gene #23: '12p gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'12p gain' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.00184 (Fisher's exact test), Q value = 0.012

Table S149.  Gene #23: '12p gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
12P GAIN MUTATED 3 9 1 0
12P GAIN WILD-TYPE 307 129 4 15

Figure S149.  Get High-res Image Gene #23: '12p gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'12p gain' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0126 (Wilcoxon-test), Q value = 0.048

Table S150.  Gene #23: '12p gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
12P GAIN MUTATED 10 1.2 (2.1)
12P GAIN WILD-TYPE 385 0.4 (1.3)

Figure S150.  Get High-res Image Gene #23: '12p gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'12p gain' versus 'GLEASON_SCORE_COMBINED'

P value = 0.00172 (Wilcoxon-test), Q value = 0.011

Table S151.  Gene #23: '12p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
12P GAIN MUTATED 13 8.5 (1.0)
12P GAIN WILD-TYPE 469 7.5 (1.0)

Figure S151.  Get High-res Image Gene #23: '12p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'12p gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.000482 (Wilcoxon-test), Q value = 0.0041

Table S152.  Gene #23: '12p gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
12P GAIN MUTATED 13 4.4 (0.7)
12P GAIN WILD-TYPE 469 3.7 (0.7)

Figure S152.  Get High-res Image Gene #23: '12p gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'12p gain' versus 'GLEASON_SCORE'

P value = 1.45e-05 (Wilcoxon-test), Q value = 0.00026

Table S153.  Gene #23: '12p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
12P GAIN MUTATED 13 8.8 (0.7)
12P GAIN WILD-TYPE 469 7.6 (1.0)

Figure S153.  Get High-res Image Gene #23: '12p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'12p gain' versus 'PSA_RESULT_PREOP'

P value = 0.0138 (Wilcoxon-test), Q value = 0.052

Table S154.  Gene #23: '12p gain' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

nPatients Mean (Std.Dev)
ALL 479 10.8 (11.7)
12P GAIN MUTATED 13 16.8 (13.8)
12P GAIN WILD-TYPE 466 10.6 (11.6)

Figure S154.  Get High-res Image Gene #23: '12p gain' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

'12q gain' versus 'YEARS_TO_BIRTH'

P value = 0.0771 (Wilcoxon-test), Q value = 0.19

Table S155.  Gene #24: '12q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
12Q GAIN MUTATED 16 64.1 (6.1)
12Q GAIN WILD-TYPE 455 60.8 (6.8)

Figure S155.  Get High-res Image Gene #24: '12q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'12q gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.00634 (Fisher's exact test), Q value = 0.028

Table S156.  Gene #24: '12q gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
12Q GAIN MUTATED 1 14 1
12Q GAIN WILD-TYPE 187 267 9

Figure S156.  Get High-res Image Gene #24: '12q gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'12q gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0174 (Fisher's exact test), Q value = 0.061

Table S157.  Gene #24: '12q gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
12Q GAIN MUTATED 7 6
12Q GAIN WILD-TYPE 331 69

Figure S157.  Get High-res Image Gene #24: '12q gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'12q gain' versus 'COMPLETENESS_OF_RESECTION'

P value = 2e-05 (Fisher's exact test), Q value = 0.00032

Table S158.  Gene #24: '12q gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
12Q GAIN MUTATED 2 13 1 0
12Q GAIN WILD-TYPE 308 125 4 15

Figure S158.  Get High-res Image Gene #24: '12q gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'12q gain' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00735 (Wilcoxon-test), Q value = 0.031

Table S159.  Gene #24: '12q gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
12Q GAIN MUTATED 12 1.1 (2.0)
12Q GAIN WILD-TYPE 383 0.4 (1.3)

Figure S159.  Get High-res Image Gene #24: '12q gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'12q gain' versus 'GLEASON_SCORE_COMBINED'

P value = 0.000449 (Wilcoxon-test), Q value = 0.0039

Table S160.  Gene #24: '12q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
12Q GAIN MUTATED 16 8.5 (1.0)
12Q GAIN WILD-TYPE 466 7.5 (1.0)

Figure S160.  Get High-res Image Gene #24: '12q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'12q gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 4.76e-06 (Wilcoxon-test), Q value = 0.00013

Table S161.  Gene #24: '12q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
12Q GAIN MUTATED 16 4.5 (0.5)
12Q GAIN WILD-TYPE 466 3.7 (0.7)

Figure S161.  Get High-res Image Gene #24: '12q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'12q gain' versus 'GLEASON_SCORE'

P value = 8.1e-06 (Wilcoxon-test), Q value = 0.00018

Table S162.  Gene #24: '12q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
12Q GAIN MUTATED 16 8.8 (0.8)
12Q GAIN WILD-TYPE 466 7.5 (1.0)

Figure S162.  Get High-res Image Gene #24: '12q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'12q gain' versus 'PSA_RESULT_PREOP'

P value = 0.00119 (Wilcoxon-test), Q value = 0.0079

Table S163.  Gene #24: '12q gain' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

nPatients Mean (Std.Dev)
ALL 479 10.8 (11.7)
12Q GAIN MUTATED 16 18.3 (13.3)
12Q GAIN WILD-TYPE 463 10.5 (11.5)

Figure S163.  Get High-res Image Gene #24: '12q gain' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

'14q gain' versus 'Time to Death'

P value = 0.0221 (logrank test), Q value = 0.072

Table S164.  Gene #26: '14q gain' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 481 8 0.7 - 165.2 (26.7)
14Q GAIN MUTATED 9 1 1.8 - 111.4 (26.0)
14Q GAIN WILD-TYPE 472 7 0.7 - 165.2 (26.8)

Figure S164.  Get High-res Image Gene #26: '14q gain' versus Clinical Feature #1: 'Time to Death'

'14q gain' versus 'YEARS_TO_BIRTH'

P value = 0.0415 (Wilcoxon-test), Q value = 0.12

Table S165.  Gene #26: '14q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
14Q GAIN MUTATED 9 65.1 (5.8)
14Q GAIN WILD-TYPE 462 60.8 (6.8)

Figure S165.  Get High-res Image Gene #26: '14q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'14q gain' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.0849 (Fisher's exact test), Q value = 0.2

Table S166.  Gene #26: '14q gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
14Q GAIN MUTATED 3 5 0 1
14Q GAIN WILD-TYPE 307 133 5 14

Figure S166.  Get High-res Image Gene #26: '14q gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'14q gain' versus 'GLEASON_SCORE_COMBINED'

P value = 0.044 (Wilcoxon-test), Q value = 0.12

Table S167.  Gene #26: '14q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
14Q GAIN MUTATED 9 8.2 (1.1)
14Q GAIN WILD-TYPE 473 7.5 (1.0)

Figure S167.  Get High-res Image Gene #26: '14q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'14q gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.0215 (Wilcoxon-test), Q value = 0.071

Table S168.  Gene #26: '14q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
14Q GAIN MUTATED 9 4.2 (0.7)
14Q GAIN WILD-TYPE 473 3.7 (0.7)

Figure S168.  Get High-res Image Gene #26: '14q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'14q gain' versus 'GLEASON_SCORE'

P value = 0.00698 (Wilcoxon-test), Q value = 0.03

Table S169.  Gene #26: '14q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
14Q GAIN MUTATED 9 8.4 (0.7)
14Q GAIN WILD-TYPE 473 7.6 (1.0)

Figure S169.  Get High-res Image Gene #26: '14q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'15q gain' versus 'GLEASON_SCORE'

P value = 0.0981 (Wilcoxon-test), Q value = 0.23

Table S170.  Gene #27: '15q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
15Q GAIN MUTATED 6 8.3 (1.2)
15Q GAIN WILD-TYPE 476 7.6 (1.0)

Figure S170.  Get High-res Image Gene #27: '15q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'16p gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.00105 (Fisher's exact test), Q value = 0.0073

Table S171.  Gene #28: '16p gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
16P GAIN MUTATED 3 26 1
16P GAIN WILD-TYPE 185 255 9

Figure S171.  Get High-res Image Gene #28: '16p gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'16p gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.00385 (Fisher's exact test), Q value = 0.02

Table S172.  Gene #28: '16p gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
16P GAIN MUTATED 16 11
16P GAIN WILD-TYPE 322 64

Figure S172.  Get High-res Image Gene #28: '16p gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'16p gain' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00193 (Wilcoxon-test), Q value = 0.012

Table S173.  Gene #28: '16p gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
16P GAIN MUTATED 25 0.8 (1.7)
16P GAIN WILD-TYPE 370 0.4 (1.3)

Figure S173.  Get High-res Image Gene #28: '16p gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'16p gain' versus 'GLEASON_SCORE_COMBINED'

P value = 7.98e-05 (Wilcoxon-test), Q value = 0.001

Table S174.  Gene #28: '16p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
16P GAIN MUTATED 30 8.3 (1.2)
16P GAIN WILD-TYPE 452 7.5 (1.0)

Figure S174.  Get High-res Image Gene #28: '16p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'16p gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 4.38e-05 (Wilcoxon-test), Q value = 0.00062

Table S175.  Gene #28: '16p gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
16P GAIN MUTATED 30 4.2 (0.7)
16P GAIN WILD-TYPE 452 3.7 (0.7)

Figure S175.  Get High-res Image Gene #28: '16p gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'16p gain' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.0349 (Wilcoxon-test), Q value = 0.1

Table S176.  Gene #28: '16p gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
16P GAIN MUTATED 30 4.1 (0.8)
16P GAIN WILD-TYPE 452 3.8 (0.7)

Figure S176.  Get High-res Image Gene #28: '16p gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'16p gain' versus 'GLEASON_SCORE'

P value = 8.94e-06 (Wilcoxon-test), Q value = 0.00019

Table S177.  Gene #28: '16p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
16P GAIN MUTATED 30 8.4 (1.0)
16P GAIN WILD-TYPE 452 7.5 (1.0)

Figure S177.  Get High-res Image Gene #28: '16p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'16q gain' versus 'YEARS_TO_BIRTH'

P value = 0.00685 (Wilcoxon-test), Q value = 0.03

Table S178.  Gene #29: '16q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
16Q GAIN MUTATED 8 66.9 (3.6)
16Q GAIN WILD-TYPE 463 60.8 (6.8)

Figure S178.  Get High-res Image Gene #29: '16q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'16q gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.0655 (Wilcoxon-test), Q value = 0.17

Table S179.  Gene #29: '16q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
16Q GAIN MUTATED 8 4.1 (0.6)
16Q GAIN WILD-TYPE 474 3.7 (0.7)

Figure S179.  Get High-res Image Gene #29: '16q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'16q gain' versus 'GLEASON_SCORE'

P value = 0.073 (Wilcoxon-test), Q value = 0.18

Table S180.  Gene #29: '16q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
16Q GAIN MUTATED 8 8.2 (1.0)
16Q GAIN WILD-TYPE 474 7.6 (1.0)

Figure S180.  Get High-res Image Gene #29: '16q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'17p gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.0201 (Fisher's exact test), Q value = 0.067

Table S181.  Gene #30: '17p gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
17P GAIN MUTATED 0 6 1
17P GAIN WILD-TYPE 188 275 9

Figure S181.  Get High-res Image Gene #30: '17p gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'17p gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0228 (Fisher's exact test), Q value = 0.073

Table S182.  Gene #30: '17p gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
17P GAIN MUTATED 3 4
17P GAIN WILD-TYPE 335 71

Figure S182.  Get High-res Image Gene #30: '17p gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'17p gain' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00546 (Wilcoxon-test), Q value = 0.026

Table S183.  Gene #30: '17p gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
17P GAIN MUTATED 7 2.3 (3.9)
17P GAIN WILD-TYPE 388 0.4 (1.3)

Figure S183.  Get High-res Image Gene #30: '17p gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'17p gain' versus 'GLEASON_SCORE_COMBINED'

P value = 0.101 (Wilcoxon-test), Q value = 0.23

Table S184.  Gene #30: '17p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
17P GAIN MUTATED 7 8.3 (1.3)
17P GAIN WILD-TYPE 475 7.5 (1.0)

Figure S184.  Get High-res Image Gene #30: '17p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'17p gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.081 (Wilcoxon-test), Q value = 0.2

Table S185.  Gene #30: '17p gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
17P GAIN MUTATED 7 4.1 (0.7)
17P GAIN WILD-TYPE 475 3.7 (0.7)

Figure S185.  Get High-res Image Gene #30: '17p gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'17p gain' versus 'GLEASON_SCORE'

P value = 0.111 (Wilcoxon-test), Q value = 0.25

Table S186.  Gene #30: '17p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
17P GAIN MUTATED 7 8.3 (1.3)
17P GAIN WILD-TYPE 475 7.6 (1.0)

Figure S186.  Get High-res Image Gene #30: '17p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'17q gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.00695 (Fisher's exact test), Q value = 0.03

Table S187.  Gene #31: '17q gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
17Q GAIN MUTATED 0 9 1
17Q GAIN WILD-TYPE 188 272 9

Figure S187.  Get High-res Image Gene #31: '17q gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'17q gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0207 (Fisher's exact test), Q value = 0.069

Table S188.  Gene #31: '17q gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
17Q GAIN MUTATED 5 5
17Q GAIN WILD-TYPE 333 70

Figure S188.  Get High-res Image Gene #31: '17q gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'17q gain' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00892 (Wilcoxon-test), Q value = 0.037

Table S189.  Gene #31: '17q gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
17Q GAIN MUTATED 10 1.7 (3.4)
17Q GAIN WILD-TYPE 385 0.4 (1.3)

Figure S189.  Get High-res Image Gene #31: '17q gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'17q gain' versus 'GLEASON_SCORE_COMBINED'

P value = 0.101 (Wilcoxon-test), Q value = 0.23

Table S190.  Gene #31: '17q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
17Q GAIN MUTATED 10 8.1 (1.1)
17Q GAIN WILD-TYPE 472 7.5 (1.0)

Figure S190.  Get High-res Image Gene #31: '17q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'17q gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.043 (Wilcoxon-test), Q value = 0.12

Table S191.  Gene #31: '17q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
17Q GAIN MUTATED 10 4.1 (0.6)
17Q GAIN WILD-TYPE 472 3.7 (0.7)

Figure S191.  Get High-res Image Gene #31: '17q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'18p gain' versus 'YEARS_TO_BIRTH'

P value = 0.00546 (Wilcoxon-test), Q value = 0.026

Table S192.  Gene #32: '18p gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
18P GAIN MUTATED 17 65.4 (6.2)
18P GAIN WILD-TYPE 454 60.7 (6.8)

Figure S192.  Get High-res Image Gene #32: '18p gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'18p gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.00427 (Fisher's exact test), Q value = 0.022

Table S193.  Gene #32: '18p gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
18P GAIN MUTATED 1 15 1
18P GAIN WILD-TYPE 187 266 9

Figure S193.  Get High-res Image Gene #32: '18p gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'18p gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.00934 (Fisher's exact test), Q value = 0.038

Table S194.  Gene #32: '18p gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
18P GAIN MUTATED 8 7
18P GAIN WILD-TYPE 330 68

Figure S194.  Get High-res Image Gene #32: '18p gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'18p gain' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00817 (Wilcoxon-test), Q value = 0.034

Table S195.  Gene #32: '18p gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
18P GAIN MUTATED 15 1.2 (2.8)
18P GAIN WILD-TYPE 380 0.4 (1.3)

Figure S195.  Get High-res Image Gene #32: '18p gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'18p gain' versus 'GLEASON_SCORE_COMBINED'

P value = 0.0908 (Wilcoxon-test), Q value = 0.22

Table S196.  Gene #32: '18p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
18P GAIN MUTATED 17 8.0 (1.1)
18P GAIN WILD-TYPE 465 7.5 (1.0)

Figure S196.  Get High-res Image Gene #32: '18p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'18q gain' versus 'YEARS_TO_BIRTH'

P value = 0.067 (Wilcoxon-test), Q value = 0.17

Table S197.  Gene #33: '18q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
18Q GAIN MUTATED 8 64.8 (3.2)
18Q GAIN WILD-TYPE 463 60.8 (6.8)

Figure S197.  Get High-res Image Gene #33: '18q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'18q gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.0479 (Fisher's exact test), Q value = 0.13

Table S198.  Gene #33: '18q gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
18Q GAIN MUTATED 0 8 0
18Q GAIN WILD-TYPE 188 273 10

Figure S198.  Get High-res Image Gene #33: '18q gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'19p gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.00054 (Fisher's exact test), Q value = 0.0045

Table S199.  Gene #34: '19p gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
19P GAIN MUTATED 0 9 2
19P GAIN WILD-TYPE 188 272 8

Figure S199.  Get High-res Image Gene #34: '19p gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'19p gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0064 (Fisher's exact test), Q value = 0.028

Table S200.  Gene #34: '19p gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
19P GAIN MUTATED 5 6
19P GAIN WILD-TYPE 333 69

Figure S200.  Get High-res Image Gene #34: '19p gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'19p gain' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00321 (Wilcoxon-test), Q value = 0.018

Table S201.  Gene #34: '19p gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
19P GAIN MUTATED 11 1.3 (2.3)
19P GAIN WILD-TYPE 384 0.4 (1.3)

Figure S201.  Get High-res Image Gene #34: '19p gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'19p gain' versus 'GLEASON_SCORE_COMBINED'

P value = 0.00036 (Wilcoxon-test), Q value = 0.0033

Table S202.  Gene #34: '19p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
19P GAIN MUTATED 11 8.7 (0.9)
19P GAIN WILD-TYPE 471 7.5 (1.0)

Figure S202.  Get High-res Image Gene #34: '19p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'19p gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.000601 (Wilcoxon-test), Q value = 0.0048

Table S203.  Gene #34: '19p gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
19P GAIN MUTATED 11 4.5 (0.7)
19P GAIN WILD-TYPE 471 3.7 (0.7)

Figure S203.  Get High-res Image Gene #34: '19p gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'19p gain' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.0465 (Wilcoxon-test), Q value = 0.13

Table S204.  Gene #34: '19p gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
19P GAIN MUTATED 11 4.3 (0.6)
19P GAIN WILD-TYPE 471 3.9 (0.7)

Figure S204.  Get High-res Image Gene #34: '19p gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'19p gain' versus 'GLEASON_SCORE'

P value = 0.000437 (Wilcoxon-test), Q value = 0.0039

Table S205.  Gene #34: '19p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
19P GAIN MUTATED 11 8.7 (0.9)
19P GAIN WILD-TYPE 471 7.6 (1.0)

Figure S205.  Get High-res Image Gene #34: '19p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'19p gain' versus 'PSA_RESULT_PREOP'

P value = 0.0105 (Wilcoxon-test), Q value = 0.041

Table S206.  Gene #34: '19p gain' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

nPatients Mean (Std.Dev)
ALL 479 10.8 (11.7)
19P GAIN MUTATED 11 16.0 (10.0)
19P GAIN WILD-TYPE 468 10.7 (11.7)

Figure S206.  Get High-res Image Gene #34: '19p gain' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

'19q gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.00063 (Fisher's exact test), Q value = 0.0049

Table S207.  Gene #35: '19q gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
19Q GAIN MUTATED 0 9 2
19Q GAIN WILD-TYPE 188 272 8

Figure S207.  Get High-res Image Gene #35: '19q gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'19q gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0064 (Fisher's exact test), Q value = 0.028

Table S208.  Gene #35: '19q gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
19Q GAIN MUTATED 5 6
19Q GAIN WILD-TYPE 333 69

Figure S208.  Get High-res Image Gene #35: '19q gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'19q gain' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00321 (Wilcoxon-test), Q value = 0.018

Table S209.  Gene #35: '19q gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
19Q GAIN MUTATED 11 1.3 (2.3)
19Q GAIN WILD-TYPE 384 0.4 (1.3)

Figure S209.  Get High-res Image Gene #35: '19q gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'19q gain' versus 'GLEASON_SCORE_COMBINED'

P value = 0.00036 (Wilcoxon-test), Q value = 0.0033

Table S210.  Gene #35: '19q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
19Q GAIN MUTATED 11 8.7 (0.9)
19Q GAIN WILD-TYPE 471 7.5 (1.0)

Figure S210.  Get High-res Image Gene #35: '19q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'19q gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.00193 (Wilcoxon-test), Q value = 0.012

Table S211.  Gene #35: '19q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
19Q GAIN MUTATED 11 4.4 (0.7)
19Q GAIN WILD-TYPE 471 3.7 (0.7)

Figure S211.  Get High-res Image Gene #35: '19q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'19q gain' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.0167 (Wilcoxon-test), Q value = 0.059

Table S212.  Gene #35: '19q gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
19Q GAIN MUTATED 11 4.4 (0.7)
19Q GAIN WILD-TYPE 471 3.9 (0.7)

Figure S212.  Get High-res Image Gene #35: '19q gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'19q gain' versus 'GLEASON_SCORE'

P value = 0.000437 (Wilcoxon-test), Q value = 0.0039

Table S213.  Gene #35: '19q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
19Q GAIN MUTATED 11 8.7 (0.9)
19Q GAIN WILD-TYPE 471 7.6 (1.0)

Figure S213.  Get High-res Image Gene #35: '19q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'19q gain' versus 'PSA_RESULT_PREOP'

P value = 0.0158 (Wilcoxon-test), Q value = 0.056

Table S214.  Gene #35: '19q gain' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

nPatients Mean (Std.Dev)
ALL 479 10.8 (11.7)
19Q GAIN MUTATED 11 15.9 (10.1)
19Q GAIN WILD-TYPE 468 10.7 (11.7)

Figure S214.  Get High-res Image Gene #35: '19q gain' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

'20p gain' versus 'YEARS_TO_BIRTH'

P value = 0.0335 (Wilcoxon-test), Q value = 0.1

Table S215.  Gene #36: '20p gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
20P GAIN MUTATED 23 63.6 (4.7)
20P GAIN WILD-TYPE 448 60.8 (6.9)

Figure S215.  Get High-res Image Gene #36: '20p gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'20p gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.0103 (Fisher's exact test), Q value = 0.041

Table S216.  Gene #36: '20p gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
20P GAIN MUTATED 3 20 1
20P GAIN WILD-TYPE 185 261 9

Figure S216.  Get High-res Image Gene #36: '20p gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'20p gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0405 (Fisher's exact test), Q value = 0.12

Table S217.  Gene #36: '20p gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
20P GAIN MUTATED 14 8
20P GAIN WILD-TYPE 324 67

Figure S217.  Get High-res Image Gene #36: '20p gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'20p gain' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0259 (Wilcoxon-test), Q value = 0.082

Table S218.  Gene #36: '20p gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
20P GAIN MUTATED 21 0.8 (1.4)
20P GAIN WILD-TYPE 374 0.4 (1.4)

Figure S218.  Get High-res Image Gene #36: '20p gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'20p gain' versus 'GLEASON_SCORE_COMBINED'

P value = 0.00904 (Wilcoxon-test), Q value = 0.037

Table S219.  Gene #36: '20p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
20P GAIN MUTATED 24 8.1 (1.2)
20P GAIN WILD-TYPE 458 7.5 (1.0)

Figure S219.  Get High-res Image Gene #36: '20p gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'20p gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.0277 (Wilcoxon-test), Q value = 0.087

Table S220.  Gene #36: '20p gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
20P GAIN MUTATED 24 4.0 (0.7)
20P GAIN WILD-TYPE 458 3.7 (0.7)

Figure S220.  Get High-res Image Gene #36: '20p gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'20p gain' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.0642 (Wilcoxon-test), Q value = 0.17

Table S221.  Gene #36: '20p gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
20P GAIN MUTATED 24 4.1 (0.7)
20P GAIN WILD-TYPE 458 3.9 (0.7)

Figure S221.  Get High-res Image Gene #36: '20p gain' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'20p gain' versus 'GLEASON_SCORE'

P value = 0.00233 (Wilcoxon-test), Q value = 0.014

Table S222.  Gene #36: '20p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
20P GAIN MUTATED 24 8.2 (1.2)
20P GAIN WILD-TYPE 458 7.6 (1.0)

Figure S222.  Get High-res Image Gene #36: '20p gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'20q gain' versus 'YEARS_TO_BIRTH'

P value = 0.00444 (Wilcoxon-test), Q value = 0.022

Table S223.  Gene #37: '20q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
20Q GAIN MUTATED 26 64.3 (4.5)
20Q GAIN WILD-TYPE 445 60.7 (6.9)

Figure S223.  Get High-res Image Gene #37: '20q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'20q gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.00147 (Fisher's exact test), Q value = 0.0095

Table S224.  Gene #37: '20q gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
20Q GAIN MUTATED 3 22 2
20Q GAIN WILD-TYPE 185 259 8

Figure S224.  Get High-res Image Gene #37: '20q gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'20q gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0284 (Fisher's exact test), Q value = 0.087

Table S225.  Gene #37: '20q gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
20Q GAIN MUTATED 16 9
20Q GAIN WILD-TYPE 322 66

Figure S225.  Get High-res Image Gene #37: '20q gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'20q gain' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.0955 (Fisher's exact test), Q value = 0.22

Table S226.  Gene #37: '20q gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
20Q GAIN MUTATED 12 13 0 1
20Q GAIN WILD-TYPE 298 125 5 14

Figure S226.  Get High-res Image Gene #37: '20q gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'20q gain' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0187 (Wilcoxon-test), Q value = 0.064

Table S227.  Gene #37: '20q gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
20Q GAIN MUTATED 24 0.8 (1.4)
20Q GAIN WILD-TYPE 371 0.4 (1.4)

Figure S227.  Get High-res Image Gene #37: '20q gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'20q gain' versus 'GLEASON_SCORE_COMBINED'

P value = 0.00564 (Wilcoxon-test), Q value = 0.026

Table S228.  Gene #37: '20q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
20Q GAIN MUTATED 27 8.1 (1.1)
20Q GAIN WILD-TYPE 455 7.5 (1.0)

Figure S228.  Get High-res Image Gene #37: '20q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'20q gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.00294 (Wilcoxon-test), Q value = 0.017

Table S229.  Gene #37: '20q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
20Q GAIN MUTATED 27 4.1 (0.7)
20Q GAIN WILD-TYPE 455 3.7 (0.7)

Figure S229.  Get High-res Image Gene #37: '20q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'20q gain' versus 'GLEASON_SCORE'

P value = 0.000229 (Wilcoxon-test), Q value = 0.0023

Table S230.  Gene #37: '20q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
20Q GAIN MUTATED 27 8.3 (1.1)
20Q GAIN WILD-TYPE 455 7.5 (1.0)

Figure S230.  Get High-res Image Gene #37: '20q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'21q gain' versus 'YEARS_TO_BIRTH'

P value = 0.00507 (Wilcoxon-test), Q value = 0.025

Table S231.  Gene #38: '21q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
21Q GAIN MUTATED 20 65.0 (5.5)
21Q GAIN WILD-TYPE 451 60.7 (6.8)

Figure S231.  Get High-res Image Gene #38: '21q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'21q gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.014 (Fisher's exact test), Q value = 0.053

Table S232.  Gene #38: '21q gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
21Q GAIN MUTATED 2 18 0
21Q GAIN WILD-TYPE 186 263 10

Figure S232.  Get High-res Image Gene #38: '21q gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'21q gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0161 (Fisher's exact test), Q value = 0.057

Table S233.  Gene #38: '21q gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
21Q GAIN MUTATED 12 8
21Q GAIN WILD-TYPE 326 67

Figure S233.  Get High-res Image Gene #38: '21q gain' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'21q gain' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.107 (Fisher's exact test), Q value = 0.24

Table S234.  Gene #38: '21q gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
21Q GAIN MUTATED 10 8 1 1
21Q GAIN WILD-TYPE 300 130 4 14

Figure S234.  Get High-res Image Gene #38: '21q gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'21q gain' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0109 (Wilcoxon-test), Q value = 0.042

Table S235.  Gene #38: '21q gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
21Q GAIN MUTATED 20 1.2 (2.3)
21Q GAIN WILD-TYPE 375 0.4 (1.3)

Figure S235.  Get High-res Image Gene #38: '21q gain' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'21q gain' versus 'GLEASON_SCORE_COMBINED'

P value = 0.01 (Wilcoxon-test), Q value = 0.04

Table S236.  Gene #38: '21q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
21Q GAIN MUTATED 20 8.2 (1.1)
21Q GAIN WILD-TYPE 462 7.5 (1.0)

Figure S236.  Get High-res Image Gene #38: '21q gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'21q gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.00381 (Wilcoxon-test), Q value = 0.02

Table S237.  Gene #38: '21q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
21Q GAIN MUTATED 20 4.1 (0.6)
21Q GAIN WILD-TYPE 462 3.7 (0.7)

Figure S237.  Get High-res Image Gene #38: '21q gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'21q gain' versus 'GLEASON_SCORE'

P value = 8.77e-05 (Wilcoxon-test), Q value = 0.0011

Table S238.  Gene #38: '21q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
21Q GAIN MUTATED 20 8.5 (0.9)
21Q GAIN WILD-TYPE 462 7.5 (1.0)

Figure S238.  Get High-res Image Gene #38: '21q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'22q gain' versus 'GLEASON_SCORE'

P value = 0.0192 (Wilcoxon-test), Q value = 0.065

Table S239.  Gene #39: '22q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
22Q GAIN MUTATED 4 8.8 (0.5)
22Q GAIN WILD-TYPE 478 7.6 (1.0)

Figure S239.  Get High-res Image Gene #39: '22q gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'xp gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.0192 (Fisher's exact test), Q value = 0.065

Table S240.  Gene #40: 'xp gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
XP GAIN MUTATED 0 5 1
XP GAIN WILD-TYPE 188 276 9

Figure S240.  Get High-res Image Gene #40: 'xp gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'xp gain' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.00728 (Fisher's exact test), Q value = 0.031

Table S241.  Gene #40: 'xp gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
XP GAIN MUTATED 1 4 1 0
XP GAIN WILD-TYPE 309 134 4 15

Figure S241.  Get High-res Image Gene #40: 'xp gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'xp gain' versus 'GLEASON_SCORE_COMBINED'

P value = 0.0432 (Wilcoxon-test), Q value = 0.12

Table S242.  Gene #40: 'xp gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
XP GAIN MUTATED 6 8.3 (0.8)
XP GAIN WILD-TYPE 476 7.5 (1.0)

Figure S242.  Get High-res Image Gene #40: 'xp gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'xp gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.00559 (Wilcoxon-test), Q value = 0.026

Table S243.  Gene #40: 'xp gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
XP GAIN MUTATED 6 4.5 (0.5)
XP GAIN WILD-TYPE 476 3.7 (0.7)

Figure S243.  Get High-res Image Gene #40: 'xp gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'xp gain' versus 'GLEASON_SCORE'

P value = 0.0111 (Wilcoxon-test), Q value = 0.043

Table S244.  Gene #40: 'xp gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
XP GAIN MUTATED 6 8.7 (0.8)
XP GAIN WILD-TYPE 476 7.6 (1.0)

Figure S244.  Get High-res Image Gene #40: 'xp gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'xq gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.0185 (Fisher's exact test), Q value = 0.063

Table S245.  Gene #41: 'xq gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
XQ GAIN MUTATED 0 5 1
XQ GAIN WILD-TYPE 188 276 9

Figure S245.  Get High-res Image Gene #41: 'xq gain' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'xq gain' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.00692 (Fisher's exact test), Q value = 0.03

Table S246.  Gene #41: 'xq gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
XQ GAIN MUTATED 1 4 1 0
XQ GAIN WILD-TYPE 309 134 4 15

Figure S246.  Get High-res Image Gene #41: 'xq gain' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'xq gain' versus 'GLEASON_SCORE_COMBINED'

P value = 0.0432 (Wilcoxon-test), Q value = 0.12

Table S247.  Gene #41: 'xq gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
XQ GAIN MUTATED 6 8.3 (0.8)
XQ GAIN WILD-TYPE 476 7.5 (1.0)

Figure S247.  Get High-res Image Gene #41: 'xq gain' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'xq gain' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.00559 (Wilcoxon-test), Q value = 0.026

Table S248.  Gene #41: 'xq gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
XQ GAIN MUTATED 6 4.5 (0.5)
XQ GAIN WILD-TYPE 476 3.7 (0.7)

Figure S248.  Get High-res Image Gene #41: 'xq gain' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'xq gain' versus 'GLEASON_SCORE'

P value = 0.0111 (Wilcoxon-test), Q value = 0.043

Table S249.  Gene #41: 'xq gain' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
XQ GAIN MUTATED 6 8.7 (0.8)
XQ GAIN WILD-TYPE 476 7.6 (1.0)

Figure S249.  Get High-res Image Gene #41: 'xq gain' versus Clinical Feature #11: 'GLEASON_SCORE'

'1p loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.0251 (Fisher's exact test), Q value = 0.08

Table S250.  Gene #42: '1p loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
1P LOSS MUTATED 3 17 1
1P LOSS WILD-TYPE 185 264 9

Figure S250.  Get High-res Image Gene #42: '1p loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'1p loss' versus 'GLEASON_SCORE_COMBINED'

P value = 0.000258 (Wilcoxon-test), Q value = 0.0025

Table S251.  Gene #42: '1p loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
1P LOSS MUTATED 21 8.4 (1.0)
1P LOSS WILD-TYPE 461 7.5 (1.0)

Figure S251.  Get High-res Image Gene #42: '1p loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'1p loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.000582 (Wilcoxon-test), Q value = 0.0047

Table S252.  Gene #42: '1p loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
1P LOSS MUTATED 21 4.2 (0.6)
1P LOSS WILD-TYPE 461 3.7 (0.7)

Figure S252.  Get High-res Image Gene #42: '1p loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'1p loss' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.0362 (Wilcoxon-test), Q value = 0.11

Table S253.  Gene #42: '1p loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
1P LOSS MUTATED 21 4.2 (0.8)
1P LOSS WILD-TYPE 461 3.9 (0.7)

Figure S253.  Get High-res Image Gene #42: '1p loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'1p loss' versus 'GLEASON_SCORE'

P value = 2.86e-05 (Wilcoxon-test), Q value = 0.00044

Table S254.  Gene #42: '1p loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
1P LOSS MUTATED 21 8.5 (0.9)
1P LOSS WILD-TYPE 461 7.5 (1.0)

Figure S254.  Get High-res Image Gene #42: '1p loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'1q loss' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.0543 (Fisher's exact test), Q value = 0.15

Table S255.  Gene #43: '1q loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
1Q LOSS MUTATED 1 5 0 0
1Q LOSS WILD-TYPE 309 133 5 15

Figure S255.  Get High-res Image Gene #43: '1q loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'1q loss' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0734 (Wilcoxon-test), Q value = 0.18

Table S256.  Gene #43: '1q loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
1Q LOSS MUTATED 4 1.2 (1.5)
1Q LOSS WILD-TYPE 391 0.4 (1.4)

Figure S256.  Get High-res Image Gene #43: '1q loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'1q loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.0368 (Wilcoxon-test), Q value = 0.11

Table S257.  Gene #43: '1q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
1Q LOSS MUTATED 6 4.3 (0.8)
1Q LOSS WILD-TYPE 476 3.7 (0.7)

Figure S257.  Get High-res Image Gene #43: '1q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'1q loss' versus 'GLEASON_SCORE'

P value = 0.0807 (Wilcoxon-test), Q value = 0.2

Table S258.  Gene #43: '1q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
1Q LOSS MUTATED 6 8.3 (1.0)
1Q LOSS WILD-TYPE 476 7.6 (1.0)

Figure S258.  Get High-res Image Gene #43: '1q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'2p loss' versus 'YEARS_TO_BIRTH'

P value = 0.00212 (Wilcoxon-test), Q value = 0.013

Table S259.  Gene #44: '2p loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
2P LOSS MUTATED 15 66.2 (6.0)
2P LOSS WILD-TYPE 456 60.7 (6.8)

Figure S259.  Get High-res Image Gene #44: '2p loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'2p loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.00943 (Fisher's exact test), Q value = 0.038

Table S260.  Gene #44: '2p loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
2P LOSS MUTATED 1 13 1
2P LOSS WILD-TYPE 187 268 9

Figure S260.  Get High-res Image Gene #44: '2p loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'2p loss' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.078 (Fisher's exact test), Q value = 0.19

Table S261.  Gene #44: '2p loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
2P LOSS MUTATED 6 9 0 0
2P LOSS WILD-TYPE 304 129 5 15

Figure S261.  Get High-res Image Gene #44: '2p loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'2p loss' versus 'GLEASON_SCORE_COMBINED'

P value = 0.0433 (Wilcoxon-test), Q value = 0.12

Table S262.  Gene #44: '2p loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
2P LOSS MUTATED 15 8.1 (1.0)
2P LOSS WILD-TYPE 467 7.5 (1.0)

Figure S262.  Get High-res Image Gene #44: '2p loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'2p loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.0661 (Wilcoxon-test), Q value = 0.17

Table S263.  Gene #44: '2p loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
2P LOSS MUTATED 15 4.0 (0.7)
2P LOSS WILD-TYPE 467 3.7 (0.7)

Figure S263.  Get High-res Image Gene #44: '2p loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'2p loss' versus 'GLEASON_SCORE'

P value = 0.0754 (Wilcoxon-test), Q value = 0.19

Table S264.  Gene #44: '2p loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
2P LOSS MUTATED 15 8.1 (1.0)
2P LOSS WILD-TYPE 467 7.6 (1.0)

Figure S264.  Get High-res Image Gene #44: '2p loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'2p loss' versus 'PSA_RESULT_PREOP'

P value = 0.0448 (Wilcoxon-test), Q value = 0.12

Table S265.  Gene #44: '2p loss' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

nPatients Mean (Std.Dev)
ALL 479 10.8 (11.7)
2P LOSS MUTATED 15 14.0 (10.3)
2P LOSS WILD-TYPE 464 10.7 (11.7)

Figure S265.  Get High-res Image Gene #44: '2p loss' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

'2q loss' versus 'YEARS_TO_BIRTH'

P value = 0.017 (Wilcoxon-test), Q value = 0.06

Table S266.  Gene #45: '2q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
2Q LOSS MUTATED 18 64.8 (6.5)
2Q LOSS WILD-TYPE 453 60.7 (6.8)

Figure S266.  Get High-res Image Gene #45: '2q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'2q loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.0177 (Fisher's exact test), Q value = 0.061

Table S267.  Gene #45: '2q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
2Q LOSS MUTATED 2 15 1
2Q LOSS WILD-TYPE 186 266 9

Figure S267.  Get High-res Image Gene #45: '2q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'2q loss' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.11 (Fisher's exact test), Q value = 0.25

Table S268.  Gene #45: '2q loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
2Q LOSS MUTATED 8 10 0 0
2Q LOSS WILD-TYPE 302 128 5 15

Figure S268.  Get High-res Image Gene #45: '2q loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'2q loss' versus 'GLEASON_SCORE_COMBINED'

P value = 0.00755 (Wilcoxon-test), Q value = 0.032

Table S269.  Gene #45: '2q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
2Q LOSS MUTATED 18 8.2 (0.9)
2Q LOSS WILD-TYPE 464 7.5 (1.0)

Figure S269.  Get High-res Image Gene #45: '2q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'2q loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.0355 (Wilcoxon-test), Q value = 0.1

Table S270.  Gene #45: '2q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
2Q LOSS MUTATED 18 4.0 (0.6)
2Q LOSS WILD-TYPE 464 3.7 (0.7)

Figure S270.  Get High-res Image Gene #45: '2q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'2q loss' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.0696 (Wilcoxon-test), Q value = 0.18

Table S271.  Gene #45: '2q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
2Q LOSS MUTATED 18 4.2 (0.8)
2Q LOSS WILD-TYPE 464 3.9 (0.7)

Figure S271.  Get High-res Image Gene #45: '2q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'2q loss' versus 'GLEASON_SCORE'

P value = 0.0153 (Wilcoxon-test), Q value = 0.055

Table S272.  Gene #45: '2q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
2Q LOSS MUTATED 18 8.2 (1.0)
2Q LOSS WILD-TYPE 464 7.6 (1.0)

Figure S272.  Get High-res Image Gene #45: '2q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'3p loss' versus 'GLEASON_SCORE_COMBINED'

P value = 0.00533 (Wilcoxon-test), Q value = 0.026

Table S273.  Gene #46: '3p loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
3P LOSS MUTATED 9 8.7 (1.3)
3P LOSS WILD-TYPE 473 7.5 (1.0)

Figure S273.  Get High-res Image Gene #46: '3p loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'3p loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.0354 (Wilcoxon-test), Q value = 0.1

Table S274.  Gene #46: '3p loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
3P LOSS MUTATED 9 4.2 (0.8)
3P LOSS WILD-TYPE 473 3.7 (0.7)

Figure S274.  Get High-res Image Gene #46: '3p loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'3p loss' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.0136 (Wilcoxon-test), Q value = 0.052

Table S275.  Gene #46: '3p loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
3P LOSS MUTATED 9 4.4 (0.7)
3P LOSS WILD-TYPE 473 3.9 (0.7)

Figure S275.  Get High-res Image Gene #46: '3p loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'3p loss' versus 'GLEASON_SCORE'

P value = 0.00279 (Wilcoxon-test), Q value = 0.016

Table S276.  Gene #46: '3p loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
3P LOSS MUTATED 9 8.7 (1.1)
3P LOSS WILD-TYPE 473 7.6 (1.0)

Figure S276.  Get High-res Image Gene #46: '3p loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'3q loss' versus 'GLEASON_SCORE_COMBINED'

P value = 0.00855 (Wilcoxon-test), Q value = 0.036

Table S277.  Gene #47: '3q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
3Q LOSS MUTATED 5 9.0 (1.2)
3Q LOSS WILD-TYPE 477 7.5 (1.0)

Figure S277.  Get High-res Image Gene #47: '3q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'3q loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.0431 (Wilcoxon-test), Q value = 0.12

Table S278.  Gene #47: '3q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
3Q LOSS MUTATED 5 4.4 (0.9)
3Q LOSS WILD-TYPE 477 3.7 (0.7)

Figure S278.  Get High-res Image Gene #47: '3q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'3q loss' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.0185 (Wilcoxon-test), Q value = 0.063

Table S279.  Gene #47: '3q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
3Q LOSS MUTATED 5 4.6 (0.5)
3Q LOSS WILD-TYPE 477 3.9 (0.7)

Figure S279.  Get High-res Image Gene #47: '3q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'3q loss' versus 'GLEASON_SCORE'

P value = 0.00332 (Wilcoxon-test), Q value = 0.018

Table S280.  Gene #47: '3q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
3Q LOSS MUTATED 5 9.0 (0.7)
3Q LOSS WILD-TYPE 477 7.6 (1.0)

Figure S280.  Get High-res Image Gene #47: '3q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'3q loss' versus 'PSA_RESULT_PREOP'

P value = 0.082 (Wilcoxon-test), Q value = 0.2

Table S281.  Gene #47: '3q loss' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

nPatients Mean (Std.Dev)
ALL 479 10.8 (11.7)
3Q LOSS MUTATED 5 20.4 (24.5)
3Q LOSS WILD-TYPE 474 10.7 (11.5)

Figure S281.  Get High-res Image Gene #47: '3q loss' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

'4p loss' versus 'YEARS_TO_BIRTH'

P value = 0.0488 (Wilcoxon-test), Q value = 0.13

Table S282.  Gene #48: '4p loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
4P LOSS MUTATED 23 63.5 (7.6)
4P LOSS WILD-TYPE 448 60.8 (6.7)

Figure S282.  Get High-res Image Gene #48: '4p loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'4p loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.0214 (Fisher's exact test), Q value = 0.071

Table S283.  Gene #48: '4p loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
4P LOSS MUTATED 4 17 2
4P LOSS WILD-TYPE 184 264 8

Figure S283.  Get High-res Image Gene #48: '4p loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'4p loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.000142 (Fisher's exact test), Q value = 0.0016

Table S284.  Gene #48: '4p loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
4P LOSS MUTATED 11 12
4P LOSS WILD-TYPE 327 63

Figure S284.  Get High-res Image Gene #48: '4p loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'4p loss' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.00422 (Fisher's exact test), Q value = 0.021

Table S285.  Gene #48: '4p loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
4P LOSS MUTATED 7 14 0 1
4P LOSS WILD-TYPE 303 124 5 14

Figure S285.  Get High-res Image Gene #48: '4p loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'4p loss' versus 'NUMBER_OF_LYMPH_NODES'

P value = 8.27e-06 (Wilcoxon-test), Q value = 0.00018

Table S286.  Gene #48: '4p loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
4P LOSS MUTATED 22 1.3 (1.7)
4P LOSS WILD-TYPE 373 0.4 (1.3)

Figure S286.  Get High-res Image Gene #48: '4p loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'4p loss' versus 'GLEASON_SCORE_COMBINED'

P value = 1.76e-07 (Wilcoxon-test), Q value = 1.4e-05

Table S287.  Gene #48: '4p loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
4P LOSS MUTATED 23 8.7 (0.8)
4P LOSS WILD-TYPE 459 7.5 (1.0)

Figure S287.  Get High-res Image Gene #48: '4p loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'4p loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 1.29e-05 (Wilcoxon-test), Q value = 0.00024

Table S288.  Gene #48: '4p loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
4P LOSS MUTATED 23 4.3 (0.6)
4P LOSS WILD-TYPE 459 3.7 (0.7)

Figure S288.  Get High-res Image Gene #48: '4p loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'4p loss' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.000652 (Wilcoxon-test), Q value = 0.005

Table S289.  Gene #48: '4p loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
4P LOSS MUTATED 23 4.3 (0.6)
4P LOSS WILD-TYPE 459 3.8 (0.7)

Figure S289.  Get High-res Image Gene #48: '4p loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'4p loss' versus 'GLEASON_SCORE'

P value = 4.55e-07 (Wilcoxon-test), Q value = 2.4e-05

Table S290.  Gene #48: '4p loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
4P LOSS MUTATED 23 8.7 (0.8)
4P LOSS WILD-TYPE 459 7.5 (1.0)

Figure S290.  Get High-res Image Gene #48: '4p loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'4q loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.0176 (Fisher's exact test), Q value = 0.061

Table S291.  Gene #49: '4q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
4Q LOSS MUTATED 3 11 2
4Q LOSS WILD-TYPE 185 270 8

Figure S291.  Get High-res Image Gene #49: '4q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'4q loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0031 (Fisher's exact test), Q value = 0.017

Table S292.  Gene #49: '4q loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
4Q LOSS MUTATED 8 8
4Q LOSS WILD-TYPE 330 67

Figure S292.  Get High-res Image Gene #49: '4q loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'4q loss' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.028 (Fisher's exact test), Q value = 0.087

Table S293.  Gene #49: '4q loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
4Q LOSS MUTATED 5 10 0 0
4Q LOSS WILD-TYPE 305 128 5 15

Figure S293.  Get High-res Image Gene #49: '4q loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'4q loss' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000456 (Wilcoxon-test), Q value = 0.0039

Table S294.  Gene #49: '4q loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
4Q LOSS MUTATED 15 1.2 (1.7)
4Q LOSS WILD-TYPE 380 0.4 (1.4)

Figure S294.  Get High-res Image Gene #49: '4q loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'4q loss' versus 'GLEASON_SCORE_COMBINED'

P value = 3.95e-06 (Wilcoxon-test), Q value = 0.00011

Table S295.  Gene #49: '4q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
4Q LOSS MUTATED 16 8.8 (0.8)
4Q LOSS WILD-TYPE 466 7.5 (1.0)

Figure S295.  Get High-res Image Gene #49: '4q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'4q loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.000317 (Wilcoxon-test), Q value = 0.003

Table S296.  Gene #49: '4q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
4Q LOSS MUTATED 16 4.3 (0.6)
4Q LOSS WILD-TYPE 466 3.7 (0.7)

Figure S296.  Get High-res Image Gene #49: '4q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'4q loss' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.000873 (Wilcoxon-test), Q value = 0.0063

Table S297.  Gene #49: '4q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
4Q LOSS MUTATED 16 4.4 (0.6)
4Q LOSS WILD-TYPE 466 3.8 (0.7)

Figure S297.  Get High-res Image Gene #49: '4q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'4q loss' versus 'GLEASON_SCORE'

P value = 1.89e-06 (Wilcoxon-test), Q value = 7.1e-05

Table S298.  Gene #49: '4q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
4Q LOSS MUTATED 16 8.8 (0.7)
4Q LOSS WILD-TYPE 466 7.5 (1.0)

Figure S298.  Get High-res Image Gene #49: '4q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'5p loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.00039 (Fisher's exact test), Q value = 0.0036

Table S299.  Gene #50: '5p loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
5P LOSS MUTATED 0 10 2
5P LOSS WILD-TYPE 188 271 8

Figure S299.  Get High-res Image Gene #50: '5p loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'5p loss' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.0613 (Fisher's exact test), Q value = 0.16

Table S300.  Gene #50: '5p loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
5P LOSS MUTATED 4 8 0 0
5P LOSS WILD-TYPE 306 130 5 15

Figure S300.  Get High-res Image Gene #50: '5p loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'5p loss' versus 'GLEASON_SCORE_COMBINED'

P value = 0.000635 (Wilcoxon-test), Q value = 0.0049

Table S301.  Gene #50: '5p loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
5P LOSS MUTATED 12 8.6 (0.9)
5P LOSS WILD-TYPE 470 7.5 (1.0)

Figure S301.  Get High-res Image Gene #50: '5p loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'5p loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.000542 (Wilcoxon-test), Q value = 0.0045

Table S302.  Gene #50: '5p loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
5P LOSS MUTATED 12 4.4 (0.7)
5P LOSS WILD-TYPE 470 3.7 (0.7)

Figure S302.  Get High-res Image Gene #50: '5p loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'5p loss' versus 'GLEASON_SCORE'

P value = 3.9e-05 (Wilcoxon-test), Q value = 0.00057

Table S303.  Gene #50: '5p loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
5P LOSS MUTATED 12 8.8 (0.7)
5P LOSS WILD-TYPE 470 7.6 (1.0)

Figure S303.  Get High-res Image Gene #50: '5p loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'5p loss' versus 'PSA_RESULT_PREOP'

P value = 0.1 (Wilcoxon-test), Q value = 0.23

Table S304.  Gene #50: '5p loss' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

nPatients Mean (Std.Dev)
ALL 479 10.8 (11.7)
5P LOSS MUTATED 12 13.0 (11.1)
5P LOSS WILD-TYPE 467 10.7 (11.7)

Figure S304.  Get High-res Image Gene #50: '5p loss' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

'5q loss' versus 'PATHOLOGY_T_STAGE'

P value = 4e-05 (Fisher's exact test), Q value = 0.00057

Table S305.  Gene #51: '5q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
5Q LOSS MUTATED 2 16 4
5Q LOSS WILD-TYPE 186 265 6

Figure S305.  Get High-res Image Gene #51: '5q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'5q loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.00142 (Fisher's exact test), Q value = 0.0094

Table S306.  Gene #51: '5q loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
5Q LOSS MUTATED 11 10
5Q LOSS WILD-TYPE 327 65

Figure S306.  Get High-res Image Gene #51: '5q loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'5q loss' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.0862 (Fisher's exact test), Q value = 0.21

Table S307.  Gene #51: '5q loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
5Q LOSS MUTATED 10 12 0 0
5Q LOSS WILD-TYPE 300 126 5 15

Figure S307.  Get High-res Image Gene #51: '5q loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'5q loss' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000187 (Wilcoxon-test), Q value = 0.002

Table S308.  Gene #51: '5q loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
5Q LOSS MUTATED 19 1.0 (1.5)
5Q LOSS WILD-TYPE 376 0.4 (1.4)

Figure S308.  Get High-res Image Gene #51: '5q loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'5q loss' versus 'GLEASON_SCORE_COMBINED'

P value = 7.99e-07 (Wilcoxon-test), Q value = 3.6e-05

Table S309.  Gene #51: '5q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
5Q LOSS MUTATED 22 8.6 (0.7)
5Q LOSS WILD-TYPE 460 7.5 (1.0)

Figure S309.  Get High-res Image Gene #51: '5q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'5q loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 4.73e-07 (Wilcoxon-test), Q value = 2.4e-05

Table S310.  Gene #51: '5q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
5Q LOSS MUTATED 22 4.5 (0.6)
5Q LOSS WILD-TYPE 460 3.7 (0.7)

Figure S310.  Get High-res Image Gene #51: '5q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'5q loss' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.0471 (Wilcoxon-test), Q value = 0.13

Table S311.  Gene #51: '5q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
5Q LOSS MUTATED 22 4.1 (0.6)
5Q LOSS WILD-TYPE 460 3.9 (0.7)

Figure S311.  Get High-res Image Gene #51: '5q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'5q loss' versus 'GLEASON_SCORE'

P value = 3.11e-07 (Wilcoxon-test), Q value = 1.8e-05

Table S312.  Gene #51: '5q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
5Q LOSS MUTATED 22 8.7 (0.7)
5Q LOSS WILD-TYPE 460 7.5 (1.0)

Figure S312.  Get High-res Image Gene #51: '5q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'6p loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.00086 (Fisher's exact test), Q value = 0.0063

Table S313.  Gene #52: '6p loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
6P LOSS MUTATED 3 17 3
6P LOSS WILD-TYPE 185 264 7

Figure S313.  Get High-res Image Gene #52: '6p loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'6p loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.00619 (Fisher's exact test), Q value = 0.028

Table S314.  Gene #52: '6p loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
6P LOSS MUTATED 12 9
6P LOSS WILD-TYPE 326 66

Figure S314.  Get High-res Image Gene #52: '6p loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'6p loss' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.0874 (Fisher's exact test), Q value = 0.21

Table S315.  Gene #52: '6p loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
6P LOSS MUTATED 10 12 0 0
6P LOSS WILD-TYPE 300 126 5 15

Figure S315.  Get High-res Image Gene #52: '6p loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'6p loss' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00364 (Wilcoxon-test), Q value = 0.019

Table S316.  Gene #52: '6p loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
6P LOSS MUTATED 20 0.7 (0.8)
6P LOSS WILD-TYPE 375 0.4 (1.4)

Figure S316.  Get High-res Image Gene #52: '6p loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'6p loss' versus 'GLEASON_SCORE_COMBINED'

P value = 0.00171 (Wilcoxon-test), Q value = 0.011

Table S317.  Gene #52: '6p loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
6P LOSS MUTATED 23 8.2 (0.9)
6P LOSS WILD-TYPE 459 7.5 (1.0)

Figure S317.  Get High-res Image Gene #52: '6p loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'6p loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.000395 (Wilcoxon-test), Q value = 0.0036

Table S318.  Gene #52: '6p loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
6P LOSS MUTATED 23 4.2 (0.6)
6P LOSS WILD-TYPE 459 3.7 (0.7)

Figure S318.  Get High-res Image Gene #52: '6p loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'6p loss' versus 'GLEASON_SCORE'

P value = 1.97e-05 (Wilcoxon-test), Q value = 0.00032

Table S319.  Gene #52: '6p loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
6P LOSS MUTATED 23 8.5 (0.8)
6P LOSS WILD-TYPE 459 7.5 (1.0)

Figure S319.  Get High-res Image Gene #52: '6p loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'6q loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.00107 (Fisher's exact test), Q value = 0.0074

Table S320.  Gene #53: '6q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
6Q LOSS MUTATED 6 28 3
6Q LOSS WILD-TYPE 182 253 7

Figure S320.  Get High-res Image Gene #53: '6q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'6q loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.00627 (Fisher's exact test), Q value = 0.028

Table S321.  Gene #53: '6q loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
6Q LOSS MUTATED 23 13
6Q LOSS WILD-TYPE 315 62

Figure S321.  Get High-res Image Gene #53: '6q loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'6q loss' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00299 (Wilcoxon-test), Q value = 0.017

Table S322.  Gene #53: '6q loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
6Q LOSS MUTATED 35 0.8 (1.3)
6Q LOSS WILD-TYPE 360 0.4 (1.4)

Figure S322.  Get High-res Image Gene #53: '6q loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'6q loss' versus 'GLEASON_SCORE_COMBINED'

P value = 3.27e-06 (Wilcoxon-test), Q value = 9.9e-05

Table S323.  Gene #53: '6q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
6Q LOSS MUTATED 37 8.3 (0.9)
6Q LOSS WILD-TYPE 445 7.5 (1.0)

Figure S323.  Get High-res Image Gene #53: '6q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'6q loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 8.25e-05 (Wilcoxon-test), Q value = 0.001

Table S324.  Gene #53: '6q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
6Q LOSS MUTATED 37 4.1 (0.6)
6Q LOSS WILD-TYPE 445 3.7 (0.7)

Figure S324.  Get High-res Image Gene #53: '6q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'6q loss' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.00281 (Wilcoxon-test), Q value = 0.016

Table S325.  Gene #53: '6q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
6Q LOSS MUTATED 37 4.2 (0.7)
6Q LOSS WILD-TYPE 445 3.8 (0.7)

Figure S325.  Get High-res Image Gene #53: '6q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'6q loss' versus 'GLEASON_SCORE'

P value = 3.76e-08 (Wilcoxon-test), Q value = 7e-06

Table S326.  Gene #53: '6q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
6Q LOSS MUTATED 37 8.5 (0.9)
6Q LOSS WILD-TYPE 445 7.5 (1.0)

Figure S326.  Get High-res Image Gene #53: '6q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'8p loss' versus 'PATHOLOGY_T_STAGE'

P value = 3e-04 (Fisher's exact test), Q value = 0.0029

Table S327.  Gene #54: '8p loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
8P LOSS MUTATED 44 115 3
8P LOSS WILD-TYPE 144 166 7

Figure S327.  Get High-res Image Gene #54: '8p loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'8p loss' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0839 (Wilcoxon-test), Q value = 0.2

Table S328.  Gene #54: '8p loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
8P LOSS MUTATED 134 0.7 (1.8)
8P LOSS WILD-TYPE 261 0.3 (1.0)

Figure S328.  Get High-res Image Gene #54: '8p loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'8p loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.0727 (Wilcoxon-test), Q value = 0.18

Table S329.  Gene #54: '8p loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
8P LOSS MUTATED 162 3.8 (0.6)
8P LOSS WILD-TYPE 320 3.7 (0.7)

Figure S329.  Get High-res Image Gene #54: '8p loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'8q loss' versus 'Time to Death'

P value = 0.000621 (logrank test), Q value = 0.0049

Table S330.  Gene #55: '8q loss' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 481 8 0.7 - 165.2 (26.7)
8Q LOSS MUTATED 23 2 1.0 - 78.6 (26.0)
8Q LOSS WILD-TYPE 458 6 0.7 - 165.2 (27.0)

Figure S330.  Get High-res Image Gene #55: '8q loss' versus Clinical Feature #1: 'Time to Death'

'8q loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.0011 (Fisher's exact test), Q value = 0.0074

Table S331.  Gene #55: '8q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
8Q LOSS MUTATED 2 19 2
8Q LOSS WILD-TYPE 186 262 8

Figure S331.  Get High-res Image Gene #55: '8q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'8q loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0355 (Fisher's exact test), Q value = 0.1

Table S332.  Gene #55: '8q loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
8Q LOSS MUTATED 13 8
8Q LOSS WILD-TYPE 325 67

Figure S332.  Get High-res Image Gene #55: '8q loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'8q loss' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00455 (Wilcoxon-test), Q value = 0.023

Table S333.  Gene #55: '8q loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
8Q LOSS MUTATED 19 1.0 (1.5)
8Q LOSS WILD-TYPE 376 0.4 (1.4)

Figure S333.  Get High-res Image Gene #55: '8q loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'8q loss' versus 'GLEASON_SCORE'

P value = 0.0844 (Wilcoxon-test), Q value = 0.2

Table S334.  Gene #55: '8q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
8Q LOSS MUTATED 23 8.0 (1.1)
8Q LOSS WILD-TYPE 459 7.6 (1.0)

Figure S334.  Get High-res Image Gene #55: '8q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'9p loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.0233 (Fisher's exact test), Q value = 0.075

Table S335.  Gene #56: '9p loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
9P LOSS MUTATED 4 14 2
9P LOSS WILD-TYPE 184 267 8

Figure S335.  Get High-res Image Gene #56: '9p loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'9p loss' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0505 (Wilcoxon-test), Q value = 0.14

Table S336.  Gene #56: '9p loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
9P LOSS MUTATED 17 1.4 (2.9)
9P LOSS WILD-TYPE 378 0.4 (1.2)

Figure S336.  Get High-res Image Gene #56: '9p loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'9p loss' versus 'GLEASON_SCORE_COMBINED'

P value = 0.0476 (Wilcoxon-test), Q value = 0.13

Table S337.  Gene #56: '9p loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
9P LOSS MUTATED 20 8.0 (1.1)
9P LOSS WILD-TYPE 462 7.5 (1.0)

Figure S337.  Get High-res Image Gene #56: '9p loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'9p loss' versus 'GLEASON_SCORE'

P value = 0.00894 (Wilcoxon-test), Q value = 0.037

Table S338.  Gene #56: '9p loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
9P LOSS MUTATED 20 8.2 (1.1)
9P LOSS WILD-TYPE 462 7.6 (1.0)

Figure S338.  Get High-res Image Gene #56: '9p loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'9q loss' versus 'GLEASON_SCORE_COMBINED'

P value = 0.109 (Wilcoxon-test), Q value = 0.25

Table S339.  Gene #57: '9q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
9Q LOSS MUTATED 9 8.1 (1.2)
9Q LOSS WILD-TYPE 473 7.5 (1.0)

Figure S339.  Get High-res Image Gene #57: '9q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'9q loss' versus 'GLEASON_SCORE'

P value = 0.0302 (Wilcoxon-test), Q value = 0.091

Table S340.  Gene #57: '9q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
9Q LOSS MUTATED 9 8.3 (1.1)
9Q LOSS WILD-TYPE 473 7.6 (1.0)

Figure S340.  Get High-res Image Gene #57: '9q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'10p loss' versus 'YEARS_TO_BIRTH'

P value = 0.0938 (Wilcoxon-test), Q value = 0.22

Table S341.  Gene #58: '10p loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
10P LOSS MUTATED 40 62.6 (6.7)
10P LOSS WILD-TYPE 431 60.7 (6.8)

Figure S341.  Get High-res Image Gene #58: '10p loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'10p loss' versus 'PATHOLOGY_T_STAGE'

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

Table S342.  Gene #58: '10p loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
10P LOSS MUTATED 7 27 6
10P LOSS WILD-TYPE 181 254 4

Figure S342.  Get High-res Image Gene #58: '10p loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'10p loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0011 (Fisher's exact test), Q value = 0.0074

Table S343.  Gene #58: '10p loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
10P LOSS MUTATED 22 15
10P LOSS WILD-TYPE 316 60

Figure S343.  Get High-res Image Gene #58: '10p loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'10p loss' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.00901 (Fisher's exact test), Q value = 0.037

Table S344.  Gene #58: '10p loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
10P LOSS MUTATED 18 20 1 0
10P LOSS WILD-TYPE 292 118 4 15

Figure S344.  Get High-res Image Gene #58: '10p loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'10p loss' versus 'NUMBER_OF_LYMPH_NODES'

P value = 6.03e-05 (Wilcoxon-test), Q value = 8e-04

Table S345.  Gene #58: '10p loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
10P LOSS MUTATED 36 1.3 (2.2)
10P LOSS WILD-TYPE 359 0.3 (1.2)

Figure S345.  Get High-res Image Gene #58: '10p loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'10p loss' versus 'GLEASON_SCORE_COMBINED'

P value = 4.17e-06 (Wilcoxon-test), Q value = 0.00011

Table S346.  Gene #58: '10p loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
10P LOSS MUTATED 40 8.3 (1.0)
10P LOSS WILD-TYPE 442 7.5 (1.0)

Figure S346.  Get High-res Image Gene #58: '10p loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'10p loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 4.59e-05 (Wilcoxon-test), Q value = 0.00063

Table S347.  Gene #58: '10p loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
10P LOSS MUTATED 40 4.1 (0.7)
10P LOSS WILD-TYPE 442 3.7 (0.7)

Figure S347.  Get High-res Image Gene #58: '10p loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'10p loss' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.003 (Wilcoxon-test), Q value = 0.017

Table S348.  Gene #58: '10p loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
10P LOSS MUTATED 40 4.2 (0.7)
10P LOSS WILD-TYPE 442 3.8 (0.7)

Figure S348.  Get High-res Image Gene #58: '10p loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'10p loss' versus 'GLEASON_SCORE'

P value = 3.05e-06 (Wilcoxon-test), Q value = 9.5e-05

Table S349.  Gene #58: '10p loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
10P LOSS MUTATED 40 8.3 (1.0)
10P LOSS WILD-TYPE 442 7.5 (1.0)

Figure S349.  Get High-res Image Gene #58: '10p loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'10q loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.00019 (Fisher's exact test), Q value = 0.002

Table S350.  Gene #59: '10q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
10Q LOSS MUTATED 9 27 5
10Q LOSS WILD-TYPE 179 254 5

Figure S350.  Get High-res Image Gene #59: '10q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'10q loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.000631 (Fisher's exact test), Q value = 0.0049

Table S351.  Gene #59: '10q loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
10Q LOSS MUTATED 23 16
10Q LOSS WILD-TYPE 315 59

Figure S351.  Get High-res Image Gene #59: '10q loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'10q loss' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.00524 (Fisher's exact test), Q value = 0.025

Table S352.  Gene #59: '10q loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
10Q LOSS MUTATED 18 22 0 0
10Q LOSS WILD-TYPE 292 116 5 15

Figure S352.  Get High-res Image Gene #59: '10q loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'10q loss' versus 'NUMBER_OF_LYMPH_NODES'

P value = 5.91e-05 (Wilcoxon-test), Q value = 8e-04

Table S353.  Gene #59: '10q loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
10Q LOSS MUTATED 38 1.1 (2.0)
10Q LOSS WILD-TYPE 357 0.4 (1.3)

Figure S353.  Get High-res Image Gene #59: '10q loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'10q loss' versus 'GLEASON_SCORE_COMBINED'

P value = 8.32e-08 (Wilcoxon-test), Q value = 8.4e-06

Table S354.  Gene #59: '10q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
10Q LOSS MUTATED 41 8.4 (1.0)
10Q LOSS WILD-TYPE 441 7.5 (1.0)

Figure S354.  Get High-res Image Gene #59: '10q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'10q loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.000116 (Wilcoxon-test), Q value = 0.0014

Table S355.  Gene #59: '10q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
10Q LOSS MUTATED 41 4.1 (0.7)
10Q LOSS WILD-TYPE 441 3.7 (0.7)

Figure S355.  Get High-res Image Gene #59: '10q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'10q loss' versus 'GLEASON_SCORE_SECONDARY'

P value = 1.1e-05 (Wilcoxon-test), Q value = 0.00021

Table S356.  Gene #59: '10q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
10Q LOSS MUTATED 41 4.3 (0.6)
10Q LOSS WILD-TYPE 441 3.8 (0.7)

Figure S356.  Get High-res Image Gene #59: '10q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'10q loss' versus 'GLEASON_SCORE'

P value = 9.02e-08 (Wilcoxon-test), Q value = 8.4e-06

Table S357.  Gene #59: '10q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
10Q LOSS MUTATED 41 8.4 (0.9)
10Q LOSS WILD-TYPE 441 7.5 (1.0)

Figure S357.  Get High-res Image Gene #59: '10q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'10q loss' versus 'PSA_RESULT_PREOP'

P value = 0.0762 (Wilcoxon-test), Q value = 0.19

Table S358.  Gene #59: '10q loss' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

nPatients Mean (Std.Dev)
ALL 479 10.8 (11.7)
10Q LOSS MUTATED 41 12.4 (10.2)
10Q LOSS WILD-TYPE 438 10.6 (11.8)

Figure S358.  Get High-res Image Gene #59: '10q loss' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

'11p loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.1 (Fisher's exact test), Q value = 0.23

Table S359.  Gene #60: '11p loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
11P LOSS MUTATED 1 5 1
11P LOSS WILD-TYPE 187 276 9

Figure S359.  Get High-res Image Gene #60: '11p loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'11p loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.081 (Wilcoxon-test), Q value = 0.2

Table S360.  Gene #60: '11p loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
11P LOSS MUTATED 7 4.1 (0.7)
11P LOSS WILD-TYPE 475 3.7 (0.7)

Figure S360.  Get High-res Image Gene #60: '11p loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'11p loss' versus 'GLEASON_SCORE'

P value = 0.064 (Wilcoxon-test), Q value = 0.17

Table S361.  Gene #60: '11p loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
11P LOSS MUTATED 7 8.3 (1.0)
11P LOSS WILD-TYPE 475 7.6 (1.0)

Figure S361.  Get High-res Image Gene #60: '11p loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'11q loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.0281 (Fisher's exact test), Q value = 0.087

Table S362.  Gene #61: '11q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
11Q LOSS MUTATED 0 4 1
11Q LOSS WILD-TYPE 188 277 9

Figure S362.  Get High-res Image Gene #61: '11q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'11q loss' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.1 (Fisher's exact test), Q value = 0.23

Table S363.  Gene #61: '11q loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
11Q LOSS MUTATED 1 4 0 0
11Q LOSS WILD-TYPE 309 134 5 15

Figure S363.  Get High-res Image Gene #61: '11q loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'11q loss' versus 'GLEASON_SCORE_COMBINED'

P value = 0.0765 (Wilcoxon-test), Q value = 0.19

Table S364.  Gene #61: '11q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
11Q LOSS MUTATED 5 8.6 (1.5)
11Q LOSS WILD-TYPE 477 7.5 (1.0)

Figure S364.  Get High-res Image Gene #61: '11q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'11q loss' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.0995 (Wilcoxon-test), Q value = 0.23

Table S365.  Gene #61: '11q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
11Q LOSS MUTATED 5 4.4 (0.9)
11Q LOSS WILD-TYPE 477 3.9 (0.7)

Figure S365.  Get High-res Image Gene #61: '11q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'11q loss' versus 'GLEASON_SCORE'

P value = 0.0299 (Wilcoxon-test), Q value = 0.091

Table S366.  Gene #61: '11q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
11Q LOSS MUTATED 5 8.6 (0.9)
11Q LOSS WILD-TYPE 477 7.6 (1.0)

Figure S366.  Get High-res Image Gene #61: '11q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'11q loss' versus 'PSA_RESULT_PREOP'

P value = 0.101 (Wilcoxon-test), Q value = 0.23

Table S367.  Gene #61: '11q loss' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

nPatients Mean (Std.Dev)
ALL 479 10.8 (11.7)
11Q LOSS MUTATED 5 13.4 (8.4)
11Q LOSS WILD-TYPE 474 10.8 (11.7)

Figure S367.  Get High-res Image Gene #61: '11q loss' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

'12p loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.0046 (Fisher's exact test), Q value = 0.023

Table S368.  Gene #62: '12p loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
12P LOSS MUTATED 10 34 3
12P LOSS WILD-TYPE 178 247 7

Figure S368.  Get High-res Image Gene #62: '12p loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'12p loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.00194 (Fisher's exact test), Q value = 0.012

Table S369.  Gene #62: '12p loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
12P LOSS MUTATED 30 17
12P LOSS WILD-TYPE 308 58

Figure S369.  Get High-res Image Gene #62: '12p loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'12p loss' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00111 (Wilcoxon-test), Q value = 0.0074

Table S370.  Gene #62: '12p loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
12P LOSS MUTATED 45 0.6 (1.1)
12P LOSS WILD-TYPE 350 0.4 (1.4)

Figure S370.  Get High-res Image Gene #62: '12p loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'12p loss' versus 'GLEASON_SCORE_COMBINED'

P value = 2.91e-05 (Wilcoxon-test), Q value = 0.00044

Table S371.  Gene #62: '12p loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
12P LOSS MUTATED 47 8.2 (1.0)
12P LOSS WILD-TYPE 435 7.5 (1.0)

Figure S371.  Get High-res Image Gene #62: '12p loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'12p loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.000129 (Wilcoxon-test), Q value = 0.0015

Table S372.  Gene #62: '12p loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
12P LOSS MUTATED 47 4.0 (0.6)
12P LOSS WILD-TYPE 435 3.7 (0.7)

Figure S372.  Get High-res Image Gene #62: '12p loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'12p loss' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.00747 (Wilcoxon-test), Q value = 0.031

Table S373.  Gene #62: '12p loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
12P LOSS MUTATED 47 4.1 (0.7)
12P LOSS WILD-TYPE 435 3.8 (0.7)

Figure S373.  Get High-res Image Gene #62: '12p loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'12p loss' versus 'GLEASON_SCORE'

P value = 0.000261 (Wilcoxon-test), Q value = 0.0025

Table S374.  Gene #62: '12p loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
12P LOSS MUTATED 47 8.1 (1.0)
12P LOSS WILD-TYPE 435 7.5 (1.0)

Figure S374.  Get High-res Image Gene #62: '12p loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'12p loss' versus 'PSA_VALUE'

P value = 0.077 (Wilcoxon-test), Q value = 0.19

Table S375.  Gene #62: '12p loss' versus Clinical Feature #13: 'PSA_VALUE'

nPatients Mean (Std.Dev)
ALL 426 1.1 (4.1)
12P LOSS MUTATED 42 1.1 (3.4)
12P LOSS WILD-TYPE 384 1.1 (4.2)

Figure S375.  Get High-res Image Gene #62: '12p loss' versus Clinical Feature #13: 'PSA_VALUE'

'12q loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0593 (Fisher's exact test), Q value = 0.16

Table S376.  Gene #63: '12q loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
12Q LOSS MUTATED 12 7
12Q LOSS WILD-TYPE 326 68

Figure S376.  Get High-res Image Gene #63: '12q loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'12q loss' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0365 (Wilcoxon-test), Q value = 0.11

Table S377.  Gene #63: '12q loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
12Q LOSS MUTATED 18 0.7 (1.3)
12Q LOSS WILD-TYPE 377 0.4 (1.4)

Figure S377.  Get High-res Image Gene #63: '12q loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'12q loss' versus 'GLEASON_SCORE_COMBINED'

P value = 0.00258 (Wilcoxon-test), Q value = 0.015

Table S378.  Gene #63: '12q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
12Q LOSS MUTATED 19 8.3 (1.1)
12Q LOSS WILD-TYPE 463 7.5 (1.0)

Figure S378.  Get High-res Image Gene #63: '12q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'12q loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.0147 (Wilcoxon-test), Q value = 0.055

Table S379.  Gene #63: '12q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
12Q LOSS MUTATED 19 4.1 (0.6)
12Q LOSS WILD-TYPE 463 3.7 (0.7)

Figure S379.  Get High-res Image Gene #63: '12q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'12q loss' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.0144 (Wilcoxon-test), Q value = 0.054

Table S380.  Gene #63: '12q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
12Q LOSS MUTATED 19 4.3 (0.8)
12Q LOSS WILD-TYPE 463 3.8 (0.7)

Figure S380.  Get High-res Image Gene #63: '12q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'12q loss' versus 'GLEASON_SCORE'

P value = 0.00208 (Wilcoxon-test), Q value = 0.013

Table S381.  Gene #63: '12q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
12Q LOSS MUTATED 19 8.3 (1.0)
12Q LOSS WILD-TYPE 463 7.6 (1.0)

Figure S381.  Get High-res Image Gene #63: '12q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'13q loss' versus 'YEARS_TO_BIRTH'

P value = 0.049 (Wilcoxon-test), Q value = 0.13

Table S382.  Gene #64: '13q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
13Q LOSS MUTATED 73 62.2 (6.8)
13Q LOSS WILD-TYPE 398 60.6 (6.8)

Figure S382.  Get High-res Image Gene #64: '13q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'13q loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.00081 (Fisher's exact test), Q value = 0.0061

Table S383.  Gene #64: '13q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
13Q LOSS MUTATED 16 56 3
13Q LOSS WILD-TYPE 172 225 7

Figure S383.  Get High-res Image Gene #64: '13q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'13q loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0172 (Fisher's exact test), Q value = 0.06

Table S384.  Gene #64: '13q loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
13Q LOSS MUTATED 50 20
13Q LOSS WILD-TYPE 288 55

Figure S384.  Get High-res Image Gene #64: '13q loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'13q loss' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.0213 (Fisher's exact test), Q value = 0.071

Table S385.  Gene #64: '13q loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
13Q LOSS MUTATED 38 32 0 3
13Q LOSS WILD-TYPE 272 106 5 12

Figure S385.  Get High-res Image Gene #64: '13q loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'13q loss' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00561 (Wilcoxon-test), Q value = 0.026

Table S386.  Gene #64: '13q loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
13Q LOSS MUTATED 67 0.8 (1.7)
13Q LOSS WILD-TYPE 328 0.4 (1.3)

Figure S386.  Get High-res Image Gene #64: '13q loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'13q loss' versus 'GLEASON_SCORE_COMBINED'

P value = 2.34e-09 (Wilcoxon-test), Q value = 8.7e-07

Table S387.  Gene #64: '13q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
13Q LOSS MUTATED 75 8.2 (1.0)
13Q LOSS WILD-TYPE 407 7.4 (1.0)

Figure S387.  Get High-res Image Gene #64: '13q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'13q loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 3.88e-07 (Wilcoxon-test), Q value = 2.2e-05

Table S388.  Gene #64: '13q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
13Q LOSS MUTATED 75 4.1 (0.7)
13Q LOSS WILD-TYPE 407 3.6 (0.6)

Figure S388.  Get High-res Image Gene #64: '13q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'13q loss' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.000148 (Wilcoxon-test), Q value = 0.0017

Table S389.  Gene #64: '13q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
13Q LOSS MUTATED 75 4.1 (0.7)
13Q LOSS WILD-TYPE 407 3.8 (0.7)

Figure S389.  Get High-res Image Gene #64: '13q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'13q loss' versus 'GLEASON_SCORE'

P value = 7.13e-11 (Wilcoxon-test), Q value = 8e-08

Table S390.  Gene #64: '13q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
13Q LOSS MUTATED 75 8.3 (0.9)
13Q LOSS WILD-TYPE 407 7.5 (1.0)

Figure S390.  Get High-res Image Gene #64: '13q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'13q loss' versus 'PSA_RESULT_PREOP'

P value = 0.0151 (Wilcoxon-test), Q value = 0.055

Table S391.  Gene #64: '13q loss' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

nPatients Mean (Std.Dev)
ALL 479 10.8 (11.7)
13Q LOSS MUTATED 75 12.2 (11.6)
13Q LOSS WILD-TYPE 404 10.5 (11.7)

Figure S391.  Get High-res Image Gene #64: '13q loss' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

'14q loss' versus 'YEARS_TO_BIRTH'

P value = 0.089 (Wilcoxon-test), Q value = 0.21

Table S392.  Gene #65: '14q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
14Q LOSS MUTATED 25 63.1 (7.5)
14Q LOSS WILD-TYPE 446 60.8 (6.8)

Figure S392.  Get High-res Image Gene #65: '14q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'14q loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.00053 (Fisher's exact test), Q value = 0.0045

Table S393.  Gene #65: '14q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
14Q LOSS MUTATED 2 21 2
14Q LOSS WILD-TYPE 186 260 8

Figure S393.  Get High-res Image Gene #65: '14q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'14q loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0284 (Fisher's exact test), Q value = 0.087

Table S394.  Gene #65: '14q loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
14Q LOSS MUTATED 16 9
14Q LOSS WILD-TYPE 322 66

Figure S394.  Get High-res Image Gene #65: '14q loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'14q loss' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.015 (Fisher's exact test), Q value = 0.055

Table S395.  Gene #65: '14q loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
14Q LOSS MUTATED 9 14 0 1
14Q LOSS WILD-TYPE 301 124 5 14

Figure S395.  Get High-res Image Gene #65: '14q loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'14q loss' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0291 (Wilcoxon-test), Q value = 0.089

Table S396.  Gene #65: '14q loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
14Q LOSS MUTATED 25 0.6 (1.0)
14Q LOSS WILD-TYPE 370 0.4 (1.4)

Figure S396.  Get High-res Image Gene #65: '14q loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'14q loss' versus 'GLEASON_SCORE_COMBINED'

P value = 6.31e-05 (Wilcoxon-test), Q value = 0.00083

Table S397.  Gene #65: '14q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
14Q LOSS MUTATED 25 8.4 (1.0)
14Q LOSS WILD-TYPE 457 7.5 (1.0)

Figure S397.  Get High-res Image Gene #65: '14q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'14q loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.00101 (Wilcoxon-test), Q value = 0.0071

Table S398.  Gene #65: '14q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
14Q LOSS MUTATED 25 4.2 (0.7)
14Q LOSS WILD-TYPE 457 3.7 (0.7)

Figure S398.  Get High-res Image Gene #65: '14q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'14q loss' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.00532 (Wilcoxon-test), Q value = 0.026

Table S399.  Gene #65: '14q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
14Q LOSS MUTATED 25 4.2 (0.7)
14Q LOSS WILD-TYPE 457 3.8 (0.7)

Figure S399.  Get High-res Image Gene #65: '14q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'14q loss' versus 'GLEASON_SCORE'

P value = 0.000245 (Wilcoxon-test), Q value = 0.0025

Table S400.  Gene #65: '14q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
14Q LOSS MUTATED 25 8.3 (0.9)
14Q LOSS WILD-TYPE 457 7.5 (1.0)

Figure S400.  Get High-res Image Gene #65: '14q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'15q loss' versus 'YEARS_TO_BIRTH'

P value = 0.0156 (Wilcoxon-test), Q value = 0.056

Table S401.  Gene #66: '15q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
15Q LOSS MUTATED 36 63.7 (6.3)
15Q LOSS WILD-TYPE 435 60.7 (6.8)

Figure S401.  Get High-res Image Gene #66: '15q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'15q loss' versus 'PATHOLOGY_T_STAGE'

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

Table S402.  Gene #66: '15q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
15Q LOSS MUTATED 2 31 3
15Q LOSS WILD-TYPE 186 250 7

Figure S402.  Get High-res Image Gene #66: '15q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'15q loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0033 (Fisher's exact test), Q value = 0.018

Table S403.  Gene #66: '15q loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
15Q LOSS MUTATED 20 13
15Q LOSS WILD-TYPE 318 62

Figure S403.  Get High-res Image Gene #66: '15q loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'15q loss' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00117 (Wilcoxon-test), Q value = 0.0078

Table S404.  Gene #66: '15q loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
15Q LOSS MUTATED 33 0.9 (1.5)
15Q LOSS WILD-TYPE 362 0.4 (1.4)

Figure S404.  Get High-res Image Gene #66: '15q loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'15q loss' versus 'GLEASON_SCORE_COMBINED'

P value = 1.57e-05 (Wilcoxon-test), Q value = 0.00027

Table S405.  Gene #66: '15q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
15Q LOSS MUTATED 36 8.3 (1.1)
15Q LOSS WILD-TYPE 446 7.5 (1.0)

Figure S405.  Get High-res Image Gene #66: '15q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'15q loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 1.4e-06 (Wilcoxon-test), Q value = 5.6e-05

Table S406.  Gene #66: '15q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
15Q LOSS MUTATED 36 4.2 (0.7)
15Q LOSS WILD-TYPE 446 3.6 (0.7)

Figure S406.  Get High-res Image Gene #66: '15q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'15q loss' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.0972 (Wilcoxon-test), Q value = 0.23

Table S407.  Gene #66: '15q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
15Q LOSS MUTATED 36 4.1 (0.8)
15Q LOSS WILD-TYPE 446 3.8 (0.7)

Figure S407.  Get High-res Image Gene #66: '15q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'15q loss' versus 'GLEASON_SCORE'

P value = 7.7e-06 (Wilcoxon-test), Q value = 0.00018

Table S408.  Gene #66: '15q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
15Q LOSS MUTATED 36 8.3 (1.0)
15Q LOSS WILD-TYPE 446 7.5 (1.0)

Figure S408.  Get High-res Image Gene #66: '15q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'16q loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.0035 (Fisher's exact test), Q value = 0.019

Table S409.  Gene #68: '16q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
16Q LOSS MUTATED 26 73 3
16Q LOSS WILD-TYPE 162 208 7

Figure S409.  Get High-res Image Gene #68: '16q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'16q loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.093 (Fisher's exact test), Q value = 0.22

Table S410.  Gene #68: '16q loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
16Q LOSS MUTATED 71 23
16Q LOSS WILD-TYPE 267 52

Figure S410.  Get High-res Image Gene #68: '16q loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'16q loss' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.0404 (Fisher's exact test), Q value = 0.12

Table S411.  Gene #68: '16q loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
16Q LOSS MUTATED 56 40 0 2
16Q LOSS WILD-TYPE 254 98 5 13

Figure S411.  Get High-res Image Gene #68: '16q loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'16q loss' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0505 (Wilcoxon-test), Q value = 0.14

Table S412.  Gene #68: '16q loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
16Q LOSS MUTATED 89 0.6 (1.4)
16Q LOSS WILD-TYPE 306 0.4 (1.4)

Figure S412.  Get High-res Image Gene #68: '16q loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'16q loss' versus 'GLEASON_SCORE_COMBINED'

P value = 4.86e-06 (Wilcoxon-test), Q value = 0.00013

Table S413.  Gene #68: '16q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
16Q LOSS MUTATED 102 8.0 (1.0)
16Q LOSS WILD-TYPE 380 7.4 (1.0)

Figure S413.  Get High-res Image Gene #68: '16q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'16q loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 5.78e-06 (Wilcoxon-test), Q value = 0.00014

Table S414.  Gene #68: '16q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
16Q LOSS MUTATED 102 4.0 (0.7)
16Q LOSS WILD-TYPE 380 3.6 (0.7)

Figure S414.  Get High-res Image Gene #68: '16q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'16q loss' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.0201 (Wilcoxon-test), Q value = 0.067

Table S415.  Gene #68: '16q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
16Q LOSS MUTATED 102 4.0 (0.7)
16Q LOSS WILD-TYPE 380 3.8 (0.7)

Figure S415.  Get High-res Image Gene #68: '16q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'16q loss' versus 'GLEASON_SCORE'

P value = 6.27e-06 (Wilcoxon-test), Q value = 0.00015

Table S416.  Gene #68: '16q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
16Q LOSS MUTATED 102 8.0 (1.0)
16Q LOSS WILD-TYPE 380 7.5 (1.0)

Figure S416.  Get High-res Image Gene #68: '16q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'16q loss' versus 'PSA_RESULT_PREOP'

P value = 0.0253 (Wilcoxon-test), Q value = 0.08

Table S417.  Gene #68: '16q loss' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

nPatients Mean (Std.Dev)
ALL 479 10.8 (11.7)
16Q LOSS MUTATED 102 12.1 (11.4)
16Q LOSS WILD-TYPE 377 10.4 (11.7)

Figure S417.  Get High-res Image Gene #68: '16q loss' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

'17p loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.00057 (Fisher's exact test), Q value = 0.0047

Table S418.  Gene #69: '17p loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
17P LOSS MUTATED 15 57 1
17P LOSS WILD-TYPE 173 224 9

Figure S418.  Get High-res Image Gene #69: '17p loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'17p loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0059 (Fisher's exact test), Q value = 0.027

Table S419.  Gene #69: '17p loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
17P LOSS MUTATED 48 21
17P LOSS WILD-TYPE 290 54

Figure S419.  Get High-res Image Gene #69: '17p loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'17p loss' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.0624 (Fisher's exact test), Q value = 0.16

Table S420.  Gene #69: '17p loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
17P LOSS MUTATED 40 31 0 2
17P LOSS WILD-TYPE 270 107 5 13

Figure S420.  Get High-res Image Gene #69: '17p loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'17p loss' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000955 (Wilcoxon-test), Q value = 0.0068

Table S421.  Gene #69: '17p loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
17P LOSS MUTATED 65 0.9 (1.7)
17P LOSS WILD-TYPE 330 0.3 (1.3)

Figure S421.  Get High-res Image Gene #69: '17p loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'17p loss' versus 'GLEASON_SCORE_COMBINED'

P value = 1.98e-05 (Wilcoxon-test), Q value = 0.00032

Table S422.  Gene #69: '17p loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
17P LOSS MUTATED 73 8.0 (1.0)
17P LOSS WILD-TYPE 409 7.5 (1.0)

Figure S422.  Get High-res Image Gene #69: '17p loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'17p loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 1.25e-05 (Wilcoxon-test), Q value = 0.00023

Table S423.  Gene #69: '17p loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
17P LOSS MUTATED 73 4.0 (0.7)
17P LOSS WILD-TYPE 409 3.6 (0.7)

Figure S423.  Get High-res Image Gene #69: '17p loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'17p loss' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.0676 (Wilcoxon-test), Q value = 0.17

Table S424.  Gene #69: '17p loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
17P LOSS MUTATED 73 4.0 (0.7)
17P LOSS WILD-TYPE 409 3.8 (0.7)

Figure S424.  Get High-res Image Gene #69: '17p loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'17p loss' versus 'GLEASON_SCORE'

P value = 6.48e-06 (Wilcoxon-test), Q value = 0.00015

Table S425.  Gene #69: '17p loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
17P LOSS MUTATED 73 8.1 (1.0)
17P LOSS WILD-TYPE 409 7.5 (1.0)

Figure S425.  Get High-res Image Gene #69: '17p loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'17p loss' versus 'PSA_VALUE'

P value = 0.0659 (Wilcoxon-test), Q value = 0.17

Table S426.  Gene #69: '17p loss' versus Clinical Feature #13: 'PSA_VALUE'

nPatients Mean (Std.Dev)
ALL 426 1.1 (4.1)
17P LOSS MUTATED 63 2.0 (6.5)
17P LOSS WILD-TYPE 363 0.9 (3.6)

Figure S426.  Get High-res Image Gene #69: '17p loss' versus Clinical Feature #13: 'PSA_VALUE'

'17q loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.0171 (Fisher's exact test), Q value = 0.06

Table S427.  Gene #70: '17q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
17Q LOSS MUTATED 2 17 0
17Q LOSS WILD-TYPE 186 264 10

Figure S427.  Get High-res Image Gene #70: '17q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'17q loss' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.0307 (Fisher's exact test), Q value = 0.092

Table S428.  Gene #70: '17q loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
17Q LOSS MUTATED 7 11 0 1
17Q LOSS WILD-TYPE 303 127 5 14

Figure S428.  Get High-res Image Gene #70: '17q loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'17q loss' versus 'GLEASON_SCORE_COMBINED'

P value = 0.00244 (Wilcoxon-test), Q value = 0.014

Table S429.  Gene #70: '17q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
17Q LOSS MUTATED 19 8.3 (1.0)
17Q LOSS WILD-TYPE 463 7.5 (1.0)

Figure S429.  Get High-res Image Gene #70: '17q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'17q loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.000851 (Wilcoxon-test), Q value = 0.0063

Table S430.  Gene #70: '17q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
17Q LOSS MUTATED 19 4.2 (0.6)
17Q LOSS WILD-TYPE 463 3.7 (0.7)

Figure S430.  Get High-res Image Gene #70: '17q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'17q loss' versus 'GLEASON_SCORE'

P value = 0.00737 (Wilcoxon-test), Q value = 0.031

Table S431.  Gene #70: '17q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
17Q LOSS MUTATED 19 8.2 (1.0)
17Q LOSS WILD-TYPE 463 7.6 (1.0)

Figure S431.  Get High-res Image Gene #70: '17q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'18p loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.00466 (Fisher's exact test), Q value = 0.023

Table S432.  Gene #71: '18p loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
18P LOSS MUTATED 17 46 4
18P LOSS WILD-TYPE 171 235 6

Figure S432.  Get High-res Image Gene #71: '18p loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'18p loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.107 (Fisher's exact test), Q value = 0.24

Table S433.  Gene #71: '18p loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
18P LOSS MUTATED 46 16
18P LOSS WILD-TYPE 292 59

Figure S433.  Get High-res Image Gene #71: '18p loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'18p loss' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.00373 (Fisher's exact test), Q value = 0.019

Table S434.  Gene #71: '18p loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
18P LOSS MUTATED 33 31 0 0
18P LOSS WILD-TYPE 277 107 5 15

Figure S434.  Get High-res Image Gene #71: '18p loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'18p loss' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0784 (Wilcoxon-test), Q value = 0.19

Table S435.  Gene #71: '18p loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
18P LOSS MUTATED 60 0.7 (1.5)
18P LOSS WILD-TYPE 335 0.4 (1.3)

Figure S435.  Get High-res Image Gene #71: '18p loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'18p loss' versus 'GLEASON_SCORE_COMBINED'

P value = 1.1e-05 (Wilcoxon-test), Q value = 0.00021

Table S436.  Gene #71: '18p loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
18P LOSS MUTATED 67 8.1 (1.0)
18P LOSS WILD-TYPE 415 7.5 (1.0)

Figure S436.  Get High-res Image Gene #71: '18p loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'18p loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.00105 (Wilcoxon-test), Q value = 0.0073

Table S437.  Gene #71: '18p loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
18P LOSS MUTATED 67 3.9 (0.7)
18P LOSS WILD-TYPE 415 3.7 (0.7)

Figure S437.  Get High-res Image Gene #71: '18p loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'18p loss' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.000616 (Wilcoxon-test), Q value = 0.0049

Table S438.  Gene #71: '18p loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
18P LOSS MUTATED 67 4.1 (0.7)
18P LOSS WILD-TYPE 415 3.8 (0.7)

Figure S438.  Get High-res Image Gene #71: '18p loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'18p loss' versus 'GLEASON_SCORE'

P value = 2.37e-07 (Wilcoxon-test), Q value = 1.5e-05

Table S439.  Gene #71: '18p loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
18P LOSS MUTATED 67 8.2 (1.0)
18P LOSS WILD-TYPE 415 7.5 (1.0)

Figure S439.  Get High-res Image Gene #71: '18p loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'18p loss' versus 'PSA_RESULT_PREOP'

P value = 0.107 (Wilcoxon-test), Q value = 0.24

Table S440.  Gene #71: '18p loss' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

nPatients Mean (Std.Dev)
ALL 479 10.8 (11.7)
18P LOSS MUTATED 67 11.7 (9.2)
18P LOSS WILD-TYPE 412 10.6 (12.0)

Figure S440.  Get High-res Image Gene #71: '18p loss' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

'18q loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.00108 (Fisher's exact test), Q value = 0.0074

Table S441.  Gene #72: '18q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
18Q LOSS MUTATED 24 70 4
18Q LOSS WILD-TYPE 164 211 6

Figure S441.  Get High-res Image Gene #72: '18q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'18q loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.000534 (Fisher's exact test), Q value = 0.0045

Table S442.  Gene #72: '18q loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
18Q LOSS MUTATED 61 28
18Q LOSS WILD-TYPE 277 47

Figure S442.  Get High-res Image Gene #72: '18q loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'18q loss' versus 'COMPLETENESS_OF_RESECTION'

P value = 3e-05 (Fisher's exact test), Q value = 0.00044

Table S443.  Gene #72: '18q loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
18Q LOSS MUTATED 46 48 0 2
18Q LOSS WILD-TYPE 264 90 5 13

Figure S443.  Get High-res Image Gene #72: '18q loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'18q loss' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.000154 (Wilcoxon-test), Q value = 0.0017

Table S444.  Gene #72: '18q loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
18Q LOSS MUTATED 85 0.9 (2.3)
18Q LOSS WILD-TYPE 310 0.3 (0.9)

Figure S444.  Get High-res Image Gene #72: '18q loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'18q loss' versus 'GLEASON_SCORE_COMBINED'

P value = 6.96e-07 (Wilcoxon-test), Q value = 3.2e-05

Table S445.  Gene #72: '18q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
18Q LOSS MUTATED 98 8.0 (1.1)
18Q LOSS WILD-TYPE 384 7.4 (1.0)

Figure S445.  Get High-res Image Gene #72: '18q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'18q loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.000838 (Wilcoxon-test), Q value = 0.0063

Table S446.  Gene #72: '18q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
18Q LOSS MUTATED 98 3.9 (0.7)
18Q LOSS WILD-TYPE 384 3.6 (0.7)

Figure S446.  Get High-res Image Gene #72: '18q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'18q loss' versus 'GLEASON_SCORE_SECONDARY'

P value = 2.95e-05 (Wilcoxon-test), Q value = 0.00044

Table S447.  Gene #72: '18q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
18Q LOSS MUTATED 98 4.1 (0.7)
18Q LOSS WILD-TYPE 384 3.8 (0.7)

Figure S447.  Get High-res Image Gene #72: '18q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'18q loss' versus 'GLEASON_SCORE'

P value = 1.2e-08 (Wilcoxon-test), Q value = 2.7e-06

Table S448.  Gene #72: '18q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
18Q LOSS MUTATED 98 8.1 (1.0)
18Q LOSS WILD-TYPE 384 7.5 (1.0)

Figure S448.  Get High-res Image Gene #72: '18q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'19p loss' versus 'YEARS_TO_BIRTH'

P value = 0.0103 (Wilcoxon-test), Q value = 0.041

Table S449.  Gene #73: '19p loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
19P LOSS MUTATED 17 64.7 (6.1)
19P LOSS WILD-TYPE 454 60.7 (6.8)

Figure S449.  Get High-res Image Gene #73: '19p loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'19p loss' versus 'GLEASON_SCORE_COMBINED'

P value = 0.0306 (Wilcoxon-test), Q value = 0.092

Table S450.  Gene #73: '19p loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
19P LOSS MUTATED 17 8.1 (1.1)
19P LOSS WILD-TYPE 465 7.5 (1.0)

Figure S450.  Get High-res Image Gene #73: '19p loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'19p loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.0223 (Wilcoxon-test), Q value = 0.072

Table S451.  Gene #73: '19p loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
19P LOSS MUTATED 17 4.1 (0.7)
19P LOSS WILD-TYPE 465 3.7 (0.7)

Figure S451.  Get High-res Image Gene #73: '19p loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'19p loss' versus 'GLEASON_SCORE'

P value = 0.0309 (Wilcoxon-test), Q value = 0.092

Table S452.  Gene #73: '19p loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
19P LOSS MUTATED 17 8.1 (1.0)
19P LOSS WILD-TYPE 465 7.6 (1.0)

Figure S452.  Get High-res Image Gene #73: '19p loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'19q loss' versus 'YEARS_TO_BIRTH'

P value = 0.0103 (Wilcoxon-test), Q value = 0.041

Table S453.  Gene #74: '19q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
19Q LOSS MUTATED 17 64.7 (6.1)
19Q LOSS WILD-TYPE 454 60.7 (6.8)

Figure S453.  Get High-res Image Gene #74: '19q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'19q loss' versus 'GLEASON_SCORE_COMBINED'

P value = 0.0306 (Wilcoxon-test), Q value = 0.092

Table S454.  Gene #74: '19q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
19Q LOSS MUTATED 17 8.1 (1.1)
19Q LOSS WILD-TYPE 465 7.5 (1.0)

Figure S454.  Get High-res Image Gene #74: '19q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'19q loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.0223 (Wilcoxon-test), Q value = 0.072

Table S455.  Gene #74: '19q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
19Q LOSS MUTATED 17 4.1 (0.7)
19Q LOSS WILD-TYPE 465 3.7 (0.7)

Figure S455.  Get High-res Image Gene #74: '19q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'19q loss' versus 'GLEASON_SCORE'

P value = 0.0309 (Wilcoxon-test), Q value = 0.092

Table S456.  Gene #74: '19q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
19Q LOSS MUTATED 17 8.1 (1.0)
19Q LOSS WILD-TYPE 465 7.6 (1.0)

Figure S456.  Get High-res Image Gene #74: '19q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'20p loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.0616 (Fisher's exact test), Q value = 0.16

Table S457.  Gene #75: '20p loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
20P LOSS MUTATED 3 14 1
20P LOSS WILD-TYPE 185 267 9

Figure S457.  Get High-res Image Gene #75: '20p loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'20p loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0512 (Fisher's exact test), Q value = 0.14

Table S458.  Gene #75: '20p loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
20P LOSS MUTATED 10 6
20P LOSS WILD-TYPE 328 69

Figure S458.  Get High-res Image Gene #75: '20p loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'20p loss' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.0144 (Wilcoxon-test), Q value = 0.054

Table S459.  Gene #75: '20p loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
20P LOSS MUTATED 15 1.4 (2.2)
20P LOSS WILD-TYPE 380 0.4 (1.3)

Figure S459.  Get High-res Image Gene #75: '20p loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'20p loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.0181 (Wilcoxon-test), Q value = 0.063

Table S460.  Gene #75: '20p loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
20P LOSS MUTATED 18 4.1 (0.6)
20P LOSS WILD-TYPE 464 3.7 (0.7)

Figure S460.  Get High-res Image Gene #75: '20p loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'20q loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.0689 (Fisher's exact test), Q value = 0.17

Table S461.  Gene #76: '20q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
20Q LOSS MUTATED 1 6 1
20Q LOSS WILD-TYPE 187 275 9

Figure S461.  Get High-res Image Gene #76: '20q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'20q loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.0149 (Wilcoxon-test), Q value = 0.055

Table S462.  Gene #76: '20q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
20Q LOSS MUTATED 8 4.2 (0.5)
20Q LOSS WILD-TYPE 474 3.7 (0.7)

Figure S462.  Get High-res Image Gene #76: '20q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'20q loss' versus 'PSA_RESULT_PREOP'

P value = 0.0604 (Wilcoxon-test), Q value = 0.16

Table S463.  Gene #76: '20q loss' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

nPatients Mean (Std.Dev)
ALL 479 10.8 (11.7)
20Q LOSS MUTATED 8 27.6 (28.8)
20Q LOSS WILD-TYPE 471 10.5 (11.0)

Figure S463.  Get High-res Image Gene #76: '20q loss' versus Clinical Feature #12: 'PSA_RESULT_PREOP'

'21q loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.00211 (Fisher's exact test), Q value = 0.013

Table S464.  Gene #77: '21q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
21Q LOSS MUTATED 4 16 3
21Q LOSS WILD-TYPE 184 265 7

Figure S464.  Get High-res Image Gene #77: '21q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'21q loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.00893 (Fisher's exact test), Q value = 0.037

Table S465.  Gene #77: '21q loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
21Q LOSS MUTATED 13 9
21Q LOSS WILD-TYPE 325 66

Figure S465.  Get High-res Image Gene #77: '21q loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'21q loss' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00353 (Wilcoxon-test), Q value = 0.019

Table S466.  Gene #77: '21q loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
21Q LOSS MUTATED 21 1.1 (2.4)
21Q LOSS WILD-TYPE 374 0.4 (1.3)

Figure S466.  Get High-res Image Gene #77: '21q loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'21q loss' versus 'GLEASON_SCORE_COMBINED'

P value = 0.000151 (Wilcoxon-test), Q value = 0.0017

Table S467.  Gene #77: '21q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
21Q LOSS MUTATED 23 8.4 (1.2)
21Q LOSS WILD-TYPE 459 7.5 (1.0)

Figure S467.  Get High-res Image Gene #77: '21q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'21q loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 0.000665 (Wilcoxon-test), Q value = 0.0051

Table S468.  Gene #77: '21q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
21Q LOSS MUTATED 23 4.2 (0.8)
21Q LOSS WILD-TYPE 459 3.7 (0.7)

Figure S468.  Get High-res Image Gene #77: '21q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'21q loss' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.0104 (Wilcoxon-test), Q value = 0.041

Table S469.  Gene #77: '21q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
21Q LOSS MUTATED 23 4.2 (0.6)
21Q LOSS WILD-TYPE 459 3.8 (0.7)

Figure S469.  Get High-res Image Gene #77: '21q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'21q loss' versus 'GLEASON_SCORE'

P value = 0.000457 (Wilcoxon-test), Q value = 0.0039

Table S470.  Gene #77: '21q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
21Q LOSS MUTATED 23 8.3 (1.0)
21Q LOSS WILD-TYPE 459 7.6 (1.0)

Figure S470.  Get High-res Image Gene #77: '21q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'22q loss' versus 'PATHOLOGY_T_STAGE'

P value = 3e-05 (Fisher's exact test), Q value = 0.00044

Table S471.  Gene #78: '22q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
22Q LOSS MUTATED 5 38 2
22Q LOSS WILD-TYPE 183 243 8

Figure S471.  Get High-res Image Gene #78: '22q loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'22q loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.00149 (Fisher's exact test), Q value = 0.0095

Table S472.  Gene #78: '22q loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
22Q LOSS MUTATED 27 16
22Q LOSS WILD-TYPE 311 59

Figure S472.  Get High-res Image Gene #78: '22q loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'22q loss' versus 'COMPLETENESS_OF_RESECTION'

P value = 0.00466 (Fisher's exact test), Q value = 0.023

Table S473.  Gene #78: '22q loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

nPatients R0 R1 R2 RX
ALL 310 138 5 15
22Q LOSS MUTATED 21 24 0 0
22Q LOSS WILD-TYPE 289 114 5 15

Figure S473.  Get High-res Image Gene #78: '22q loss' versus Clinical Feature #6: 'COMPLETENESS_OF_RESECTION'

'22q loss' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00108 (Wilcoxon-test), Q value = 0.0074

Table S474.  Gene #78: '22q loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
22Q LOSS MUTATED 42 0.9 (2.4)
22Q LOSS WILD-TYPE 353 0.4 (1.2)

Figure S474.  Get High-res Image Gene #78: '22q loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'22q loss' versus 'GLEASON_SCORE_COMBINED'

P value = 5.58e-07 (Wilcoxon-test), Q value = 2.7e-05

Table S475.  Gene #78: '22q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
22Q LOSS MUTATED 45 8.3 (1.0)
22Q LOSS WILD-TYPE 437 7.5 (1.0)

Figure S475.  Get High-res Image Gene #78: '22q loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'22q loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 1.37e-06 (Wilcoxon-test), Q value = 5.6e-05

Table S476.  Gene #78: '22q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
22Q LOSS MUTATED 45 4.2 (0.7)
22Q LOSS WILD-TYPE 437 3.6 (0.7)

Figure S476.  Get High-res Image Gene #78: '22q loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'22q loss' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.00637 (Wilcoxon-test), Q value = 0.028

Table S477.  Gene #78: '22q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
22Q LOSS MUTATED 45 4.1 (0.7)
22Q LOSS WILD-TYPE 437 3.8 (0.7)

Figure S477.  Get High-res Image Gene #78: '22q loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'22q loss' versus 'GLEASON_SCORE'

P value = 1.24e-07 (Wilcoxon-test), Q value = 1.1e-05

Table S478.  Gene #78: '22q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
22Q LOSS MUTATED 45 8.4 (0.9)
22Q LOSS WILD-TYPE 437 7.5 (1.0)

Figure S478.  Get High-res Image Gene #78: '22q loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'22q loss' versus 'PSA_VALUE'

P value = 0.0923 (Wilcoxon-test), Q value = 0.22

Table S479.  Gene #78: '22q loss' versus Clinical Feature #13: 'PSA_VALUE'

nPatients Mean (Std.Dev)
ALL 426 1.1 (4.1)
22Q LOSS MUTATED 39 2.8 (6.3)
22Q LOSS WILD-TYPE 387 0.9 (3.8)

Figure S479.  Get High-res Image Gene #78: '22q loss' versus Clinical Feature #13: 'PSA_VALUE'

'xp loss' versus 'YEARS_TO_BIRTH'

P value = 0.0498 (Wilcoxon-test), Q value = 0.14

Table S480.  Gene #79: 'xp loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
XP LOSS MUTATED 37 62.9 (6.9)
XP LOSS WILD-TYPE 434 60.7 (6.8)

Figure S480.  Get High-res Image Gene #79: 'xp loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'xp loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.0105 (Fisher's exact test), Q value = 0.041

Table S481.  Gene #79: 'xp loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
XP LOSS MUTATED 7 28 2
XP LOSS WILD-TYPE 181 253 8

Figure S481.  Get High-res Image Gene #79: 'xp loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'xp loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0216 (Fisher's exact test), Q value = 0.071

Table S482.  Gene #79: 'xp loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
XP LOSS MUTATED 24 12
XP LOSS WILD-TYPE 314 63

Figure S482.  Get High-res Image Gene #79: 'xp loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'xp loss' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00712 (Wilcoxon-test), Q value = 0.031

Table S483.  Gene #79: 'xp loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
XP LOSS MUTATED 35 0.9 (1.6)
XP LOSS WILD-TYPE 360 0.4 (1.3)

Figure S483.  Get High-res Image Gene #79: 'xp loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'xp loss' versus 'GLEASON_SCORE_COMBINED'

P value = 3.96e-06 (Wilcoxon-test), Q value = 0.00011

Table S484.  Gene #79: 'xp loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
XP LOSS MUTATED 37 8.3 (0.9)
XP LOSS WILD-TYPE 445 7.5 (1.0)

Figure S484.  Get High-res Image Gene #79: 'xp loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'xp loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 2.72e-06 (Wilcoxon-test), Q value = 8.7e-05

Table S485.  Gene #79: 'xp loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
XP LOSS MUTATED 37 4.2 (0.6)
XP LOSS WILD-TYPE 445 3.6 (0.7)

Figure S485.  Get High-res Image Gene #79: 'xp loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'xp loss' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.0294 (Wilcoxon-test), Q value = 0.09

Table S486.  Gene #79: 'xp loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
XP LOSS MUTATED 37 4.1 (0.7)
XP LOSS WILD-TYPE 445 3.8 (0.7)

Figure S486.  Get High-res Image Gene #79: 'xp loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'xp loss' versus 'GLEASON_SCORE'

P value = 2.56e-06 (Wilcoxon-test), Q value = 8.7e-05

Table S487.  Gene #79: 'xp loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
XP LOSS MUTATED 37 8.3 (0.9)
XP LOSS WILD-TYPE 445 7.5 (1.0)

Figure S487.  Get High-res Image Gene #79: 'xp loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'xp loss' versus 'PSA_VALUE'

P value = 0.0386 (Wilcoxon-test), Q value = 0.11

Table S488.  Gene #79: 'xp loss' versus Clinical Feature #13: 'PSA_VALUE'

nPatients Mean (Std.Dev)
ALL 426 1.1 (4.1)
XP LOSS MUTATED 33 1.3 (2.6)
XP LOSS WILD-TYPE 393 1.1 (4.2)

Figure S488.  Get High-res Image Gene #79: 'xp loss' versus Clinical Feature #13: 'PSA_VALUE'

'xq loss' versus 'YEARS_TO_BIRTH'

P value = 0.0498 (Wilcoxon-test), Q value = 0.14

Table S489.  Gene #80: 'xq loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 471 60.9 (6.8)
XQ LOSS MUTATED 37 62.9 (6.9)
XQ LOSS WILD-TYPE 434 60.7 (6.8)

Figure S489.  Get High-res Image Gene #80: 'xq loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'xq loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.0111 (Fisher's exact test), Q value = 0.043

Table S490.  Gene #80: 'xq loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

nPatients T2 T3 T4
ALL 188 281 10
XQ LOSS MUTATED 7 28 2
XQ LOSS WILD-TYPE 181 253 8

Figure S490.  Get High-res Image Gene #80: 'xq loss' versus Clinical Feature #3: 'PATHOLOGY_T_STAGE'

'xq loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0216 (Fisher's exact test), Q value = 0.071

Table S491.  Gene #80: 'xq loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

nPatients 0 1
ALL 338 75
XQ LOSS MUTATED 24 12
XQ LOSS WILD-TYPE 314 63

Figure S491.  Get High-res Image Gene #80: 'xq loss' versus Clinical Feature #4: 'PATHOLOGY_N_STAGE'

'xq loss' versus 'NUMBER_OF_LYMPH_NODES'

P value = 0.00712 (Wilcoxon-test), Q value = 0.031

Table S492.  Gene #80: 'xq loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

nPatients Mean (Std.Dev)
ALL 395 0.4 (1.4)
XQ LOSS MUTATED 35 0.9 (1.6)
XQ LOSS WILD-TYPE 360 0.4 (1.3)

Figure S492.  Get High-res Image Gene #80: 'xq loss' versus Clinical Feature #7: 'NUMBER_OF_LYMPH_NODES'

'xq loss' versus 'GLEASON_SCORE_COMBINED'

P value = 3.96e-06 (Wilcoxon-test), Q value = 0.00011

Table S493.  Gene #80: 'xq loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
XQ LOSS MUTATED 37 8.3 (0.9)
XQ LOSS WILD-TYPE 445 7.5 (1.0)

Figure S493.  Get High-res Image Gene #80: 'xq loss' versus Clinical Feature #8: 'GLEASON_SCORE_COMBINED'

'xq loss' versus 'GLEASON_SCORE_PRIMARY'

P value = 2.72e-06 (Wilcoxon-test), Q value = 8.7e-05

Table S494.  Gene #80: 'xq loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

nPatients Mean (Std.Dev)
ALL 482 3.7 (0.7)
XQ LOSS MUTATED 37 4.2 (0.6)
XQ LOSS WILD-TYPE 445 3.6 (0.7)

Figure S494.  Get High-res Image Gene #80: 'xq loss' versus Clinical Feature #9: 'GLEASON_SCORE_PRIMARY'

'xq loss' versus 'GLEASON_SCORE_SECONDARY'

P value = 0.0294 (Wilcoxon-test), Q value = 0.09

Table S495.  Gene #80: 'xq loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

nPatients Mean (Std.Dev)
ALL 482 3.9 (0.7)
XQ LOSS MUTATED 37 4.1 (0.7)
XQ LOSS WILD-TYPE 445 3.8 (0.7)

Figure S495.  Get High-res Image Gene #80: 'xq loss' versus Clinical Feature #10: 'GLEASON_SCORE_SECONDARY'

'xq loss' versus 'GLEASON_SCORE'

P value = 2.56e-06 (Wilcoxon-test), Q value = 8.7e-05

Table S496.  Gene #80: 'xq loss' versus Clinical Feature #11: 'GLEASON_SCORE'

nPatients Mean (Std.Dev)
ALL 482 7.6 (1.0)
XQ LOSS MUTATED 37 8.3 (0.9)
XQ LOSS WILD-TYPE 445 7.5 (1.0)

Figure S496.  Get High-res Image Gene #80: 'xq loss' versus Clinical Feature #11: 'GLEASON_SCORE'

'xq loss' versus 'PSA_VALUE'

P value = 0.0386 (Wilcoxon-test), Q value = 0.11

Table S497.  Gene #80: 'xq loss' versus Clinical Feature #13: 'PSA_VALUE'

nPatients Mean (Std.Dev)
ALL 426 1.1 (4.1)
XQ LOSS MUTATED 33 1.3 (2.6)
XQ LOSS WILD-TYPE 393 1.1 (4.2)

Figure S497.  Get High-res Image Gene #80: 'xq loss' versus Clinical Feature #13: 'PSA_VALUE'

Methods & Data
Input

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

  • Processed Copy number data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/PRAD-TP/15098599/transformed.cor.cli.txt

  • Clinical data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/PRAD-TP/15087329/PRAD-TP.merged_data.txt

  • Number of patients = 482

  • Number of significantly arm-level cnvs = 80

  • Number of selected clinical features = 14

  • 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.

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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