Correlation between copy number variations of arm-level result and selected clinical features
Pan-kidney cohort (KICH+KIRC+KIRP) (Primary solid tumor)
02 April 2015  |  analyses__2015_04_02
Maintainer Information
Citation Information
doi:10.7908/C1639NR3
Maintained by TCGA GDAC Team (Broad Institute/MD Anderson Cancer Center/Harvard Medical School)
Cite as Broad Institute TCGA Genome Data Analysis Center (2015): Correlation between copy number variations of arm-level result and selected clinical features. Broad Institute of MIT and Harvard. doi:10.7908/C1639NR3
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 82 arm-level events and 13 clinical features across 859 patients, 425 significant findings detected with Q value < 0.25.

  • 1p gain cnv correlated to 'Time to Death',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE', and 'PATHOLOGY_N_STAGE'.

  • 1q gain cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE', and 'HISTOLOGICAL_TYPE'.

  • 2p gain cnv correlated to 'PATHOLOGY_N_STAGE' and 'HISTOLOGICAL_TYPE'.

  • 2q gain cnv correlated to 'PATHOLOGY_N_STAGE' and 'HISTOLOGICAL_TYPE'.

  • 3p gain cnv correlated to 'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.

  • 3q gain cnv correlated to 'PATHOLOGY_N_STAGE',  'GENDER',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RACE'.

  • 4p gain cnv correlated to 'YEARS_TO_BIRTH',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.

  • 4q gain cnv correlated to 'YEARS_TO_BIRTH',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE', and 'HISTOLOGICAL_TYPE'.

  • 5p gain cnv correlated to 'YEARS_TO_BIRTH',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'GENDER',  'HISTOLOGICAL_TYPE', and 'RACE'.

  • 5q gain cnv correlated to 'YEARS_TO_BIRTH',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'GENDER',  'HISTOLOGICAL_TYPE', and 'RACE'.

  • 6p gain cnv correlated to 'Time to Death',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE', and 'PATHOLOGY_M_STAGE'.

  • 6q gain cnv correlated to 'Time to Death',  'NEOPLASM_DISEASESTAGE', and 'PATHOLOGY_N_STAGE'.

  • 7p gain cnv correlated to 'PATHOLOGY_M_STAGE',  'GENDER',  'HISTOLOGICAL_TYPE', and 'YEAR_OF_TOBACCO_SMOKING_ONSET'.

  • 7q gain cnv correlated to 'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_M_STAGE',  'GENDER',  'HISTOLOGICAL_TYPE', and 'YEAR_OF_TOBACCO_SMOKING_ONSET'.

  • 8p gain cnv correlated to 'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'HISTOLOGICAL_TYPE', and 'RACE'.

  • 8q gain cnv correlated to 'Time to Death',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE',  'YEAR_OF_TOBACCO_SMOKING_ONSET', and 'RACE'.

  • 9p gain cnv correlated to 'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'GENDER', and 'HISTOLOGICAL_TYPE'.

  • 9q gain cnv correlated to 'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'GENDER', and 'HISTOLOGICAL_TYPE'.

  • 10p gain cnv correlated to 'PATHOLOGY_T_STAGE' and 'PATHOLOGY_N_STAGE'.

  • 10q gain cnv correlated to 'PATHOLOGY_T_STAGE'.

  • 11p gain cnv correlated to 'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE', and 'NUMBER_PACK_YEARS_SMOKED'.

  • 11q gain cnv correlated to 'YEARS_TO_BIRTH',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'HISTOLOGICAL_TYPE',  'NUMBER_PACK_YEARS_SMOKED', and 'YEAR_OF_TOBACCO_SMOKING_ONSET'.

  • 12p gain cnv correlated to 'Time to Death',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'GENDER',  'HISTOLOGICAL_TYPE', and 'ETHNICITY'.

  • 12q gain cnv correlated to 'Time to Death',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'GENDER',  'HISTOLOGICAL_TYPE', and 'ETHNICITY'.

  • 13q gain cnv correlated to 'HISTOLOGICAL_TYPE'.

  • 14q gain cnv correlated to 'YEARS_TO_BIRTH',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'HISTOLOGICAL_TYPE', and 'YEAR_OF_TOBACCO_SMOKING_ONSET'.

  • 15q gain cnv correlated to 'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'HISTOLOGICAL_TYPE', and 'YEAR_OF_TOBACCO_SMOKING_ONSET'.

  • 16p gain cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'GENDER',  'HISTOLOGICAL_TYPE', and 'RACE'.

  • 16q gain cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'GENDER',  'HISTOLOGICAL_TYPE', and 'RACE'.

  • 17p gain cnv correlated to 'Time to Death',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'GENDER',  'HISTOLOGICAL_TYPE',  'YEAR_OF_TOBACCO_SMOKING_ONSET',  'RACE', and 'ETHNICITY'.

  • 17q gain cnv correlated to 'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'GENDER',  'HISTOLOGICAL_TYPE',  'RACE', and 'ETHNICITY'.

  • 18p gain cnv correlated to 'Time to Death',  'HISTOLOGICAL_TYPE', and 'RACE'.

  • 18q gain cnv correlated to 'Time to Death' and 'HISTOLOGICAL_TYPE'.

  • 19p gain cnv correlated to 'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_M_STAGE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RACE'.

  • 19q gain cnv correlated to 'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_M_STAGE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RACE'.

  • 20p gain cnv correlated to 'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_M_STAGE',  'GENDER', and 'HISTOLOGICAL_TYPE'.

  • 20q gain cnv correlated to 'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_M_STAGE',  'GENDER', and 'HISTOLOGICAL_TYPE'.

  • 21q gain cnv correlated to 'RACE'.

  • 22q gain cnv correlated to 'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'HISTOLOGICAL_TYPE', and 'RACE'.

  • xp gain cnv correlated to 'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'GENDER',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE',  'YEAR_OF_TOBACCO_SMOKING_ONSET', and 'RACE'.

  • xq gain cnv correlated to 'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'GENDER',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RACE'.

  • 1p loss cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'HISTOLOGICAL_TYPE', and 'ETHNICITY'.

  • 1q loss cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE', and 'HISTOLOGICAL_TYPE'.

  • 2p loss cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE', and 'HISTOLOGICAL_TYPE'.

  • 2q loss cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE', and 'HISTOLOGICAL_TYPE'.

  • 3p loss cnv correlated to 'Time to Death',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'HISTOLOGICAL_TYPE',  'YEAR_OF_TOBACCO_SMOKING_ONSET', and 'RACE'.

  • 3q loss cnv correlated to 'YEARS_TO_BIRTH',  'GENDER',  'HISTOLOGICAL_TYPE', and 'RACE'.

  • 4p loss cnv correlated to 'Time to Death',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'GENDER', and 'HISTOLOGICAL_TYPE'.

  • 4q loss cnv correlated to 'Time to Death',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE', and 'HISTOLOGICAL_TYPE'.

  • 5p loss cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'GENDER',  'HISTOLOGICAL_TYPE',  'NUMBER_PACK_YEARS_SMOKED', and 'ETHNICITY'.

  • 5q loss cnv correlated to 'YEARS_TO_BIRTH',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'HISTOLOGICAL_TYPE',  'NUMBER_PACK_YEARS_SMOKED', and 'ETHNICITY'.

  • 6p loss cnv correlated to 'YEARS_TO_BIRTH',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RACE'.

  • 6q loss cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'HISTOLOGICAL_TYPE', and 'RACE'.

  • 7p loss cnv correlated to 'PATHOLOGY_N_STAGE'.

  • 7q loss cnv correlated to 'PATHOLOGY_N_STAGE'.

  • 8p loss cnv correlated to 'Time to Death',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_M_STAGE',  'HISTOLOGICAL_TYPE', and 'RACE'.

  • 8q loss cnv correlated to 'HISTOLOGICAL_TYPE'.

  • 9p loss cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RACE'.

  • 9q loss cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RACE'.

  • 10p loss cnv correlated to 'YEARS_TO_BIRTH',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE', and 'HISTOLOGICAL_TYPE'.

  • 10q loss cnv correlated to 'YEARS_TO_BIRTH',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE', and 'HISTOLOGICAL_TYPE'.

  • 11p loss cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE', and 'HISTOLOGICAL_TYPE'.

  • 11q loss cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.

  • 12p loss cnv correlated to 'Time to Death',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE', and 'HISTOLOGICAL_TYPE'.

  • 12q loss cnv correlated to 'PATHOLOGY_T_STAGE'.

  • 13q loss cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'GENDER', and 'HISTOLOGICAL_TYPE'.

  • 14q loss cnv correlated to 'Time to Death',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE',  'YEAR_OF_TOBACCO_SMOKING_ONSET', and 'RACE'.

  • 15q loss cnv correlated to 'Time to Death',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE', and 'HISTOLOGICAL_TYPE'.

  • 16p loss cnv correlated to 'Time to Death',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE', and 'HISTOLOGICAL_TYPE'.

  • 16q loss cnv correlated to 'Time to Death',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE', and 'PATHOLOGY_N_STAGE'.

  • 17p loss cnv correlated to 'YEARS_TO_BIRTH',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE', and 'HISTOLOGICAL_TYPE'.

  • 17q loss cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE', and 'HISTOLOGICAL_TYPE'.

  • 18p loss cnv correlated to 'Time to Death',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE', and 'YEAR_OF_TOBACCO_SMOKING_ONSET'.

  • 18q loss cnv correlated to 'Time to Death',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE', and 'RACE'.

  • 19p loss cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE', and 'HISTOLOGICAL_TYPE'.

  • 19q loss cnv correlated to 'Time to Death',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE', and 'HISTOLOGICAL_TYPE'.

  • 20p loss cnv correlated to 'PATHOLOGY_N_STAGE' and 'HISTOLOGICAL_TYPE'.

  • 20q loss cnv correlated to 'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_N_STAGE',  'HISTOLOGICAL_TYPE', and 'ETHNICITY'.

  • 21q loss cnv correlated to 'YEARS_TO_BIRTH',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'HISTOLOGICAL_TYPE',  'YEAR_OF_TOBACCO_SMOKING_ONSET', and 'RACE'.

  • 22q loss cnv correlated to 'Time to Death',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'PATHOLOGY_M_STAGE',  'GENDER',  'HISTOLOGICAL_TYPE', and 'ETHNICITY'.

  • xp loss cnv correlated to 'YEARS_TO_BIRTH',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE', and 'HISTOLOGICAL_TYPE'.

  • xq loss cnv correlated to 'YEARS_TO_BIRTH',  'NEOPLASM_DISEASESTAGE',  'PATHOLOGY_T_STAGE',  'PATHOLOGY_N_STAGE',  'HISTOLOGICAL_TYPE', and 'RACE'.

Results
Overview of the results

Table 1.  Get Full Table Overview of the association between significant copy number variation of 82 arm-level events and 13 clinical features. Shown in the table are P values (Q values). Thresholded by Q value < 0.25, 425 significant findings detected.

Clinical
Features 		Time
to
Death 		YEARS
TO
BIRTH 		NEOPLASM
DISEASESTAGE 		PATHOLOGY
T
STAGE 		PATHOLOGY
N
STAGE 		PATHOLOGY
M
STAGE 		GENDER KARNOFSKY
PERFORMANCE
SCORE 		HISTOLOGICAL
TYPE 		NUMBER
PACK
YEARS
SMOKED 		YEAR
OF
TOBACCO
SMOKING
ONSET 		RACE ETHNICITY
nCNV (%) nWild-Type logrank test Wilcoxon-test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test Wilcoxon-test Fisher's exact test Wilcoxon-test Wilcoxon-test Fisher's exact test Fisher's exact test
17p gain 187 (22%) 672 0.0259
(0.0933) 		0.774
(0.912) 		1e-05
(0.000108) 		1e-05
(0.000108) 		0.0158
(0.0627) 		0.00992
(0.0435) 		0.000608
(0.00418) 		0.65
(0.813) 		1e-05
(0.000108) 		0.971
(1.00) 		0.0501
(0.149) 		0.00596
(0.0289) 		0.0157
(0.0627)
5p loss 24 (3%) 835 0.048
(0.145) 		0.00268
(0.0152) 		2e-05
(0.000201) 		1e-05
(0.000108) 		0.0147
(0.0596) 		0.248
(0.47) 		0.0455
(0.14) 		0.777
(0.914) 		3e-05
(0.000286) 		0.0407
(0.132) 		0.122
(0.284) 		0.421
(0.644) 		0.0942
(0.242)
9p loss 191 (22%) 668 7.22e-11
(3.85e-08) 		0.0745
(0.203) 		1e-05
(0.000108) 		1e-05
(0.000108) 		0.0176
(0.0691) 		0.000376
(0.00271) 		0.192
(0.394) 		0.0204
(0.077) 		1e-05
(0.000108) 		0.932
(1.00) 		0.525
(0.72) 		0.0186
(0.0719) 		0.561
(0.751)
9q loss 193 (22%) 666 7.8e-09
(2.08e-06) 		0.0692
(0.191) 		1e-05
(0.000108) 		1e-05
(0.000108) 		0.0439
(0.138) 		0.00158
(0.0095) 		0.165
(0.353) 		0.0163
(0.0646) 		1e-05
(0.000108) 		0.888
(0.992) 		0.388
(0.614) 		0.0156
(0.0624) 		1
(1.00)
14q loss 260 (30%) 599 1.13e-08
(2.4e-06) 		0.192
(0.394) 		1e-05
(0.000108) 		1e-05
(0.000108) 		0.0106
(0.0461) 		6.55e-05
(0.000572) 		0.694
(0.847) 		0.0582
(0.166) 		1e-05
(0.000108) 		0.163
(0.349) 		0.00272
(0.0154) 		0.0113
(0.0488) 		1
(1.00)
8q gain 96 (11%) 763 0.0776
(0.208) 		0.192
(0.394) 		1e-05
(0.000108) 		1e-05
(0.000108) 		0.0137
(0.0566) 		0.0444
(0.139) 		0.909
(1.00) 		0.94
(1.00) 		0.00117
(0.00725) 		0.129
(0.294) 		0.0743
(0.203) 		0.0967
(0.245) 		1
(1.00)
17q gain 210 (24%) 649 0.11
(0.268) 		0.406
(0.63) 		1e-05
(0.000108) 		7e-05
(0.000597) 		0.00361
(0.0195) 		0.0623
(0.175) 		0.0115
(0.0491) 		0.778
(0.914) 		1e-05
(0.000108) 		0.861
(0.978) 		0.109
(0.268) 		0.00612
(0.0295) 		0.0492
(0.147)
22q loss 104 (12%) 755 0.00476
(0.0245) 		0.486
(0.694) 		2e-05
(0.000201) 		0.00037
(0.00268) 		2e-05
(0.000201) 		0.0257
(0.0929) 		0.0265
(0.0946) 		0.53
(0.723) 		1e-05
(0.000108) 		0.499
(0.7) 		0.184
(0.379) 		0.489
(0.696) 		0.0263
(0.0939)
12p gain 245 (29%) 614 0.0749
(0.204) 		0.113
(0.271) 		0.0861
(0.225) 		0.193
(0.396) 		0.0231
(0.0852) 		0.0123
(0.0524) 		0.00498
(0.0251) 		0.158
(0.344) 		1e-05
(0.000108) 		0.788
(0.92) 		0.106
(0.263) 		0.812
(0.941) 		0.0564
(0.163)
12q gain 249 (29%) 610 0.0512
(0.151) 		0.216
(0.429) 		0.0542
(0.159) 		0.105
(0.262) 		0.0155
(0.0622) 		0.0135
(0.0559) 		0.00406
(0.0214) 		0.158
(0.344) 		1e-05
(0.000108) 		1
(1.00) 		0.25
(0.473) 		0.652
(0.815) 		0.0553
(0.161)
xp gain 117 (14%) 742 0.118
(0.279) 		0.269
(0.503) 		0.00394
(0.0209) 		0.0167
(0.0659) 		1
(1.00) 		0.324
(0.562) 		0.0203
(0.0766) 		0.00762
(0.0347) 		1e-05
(0.000108) 		0.611
(0.789) 		0.0377
(0.125) 		0.0286
(0.1) 		0.821
(0.946)
2p loss 63 (7%) 796 0.00263
(0.0151) 		1.82e-05
(0.000192) 		1e-05
(0.000108) 		1e-05
(0.000108) 		0.0782
(0.209) 		0.0702
(0.193) 		0.126
(0.29) 		0.484
(0.692) 		1e-05
(0.000108) 		0.348
(0.578) 		0.921
(1.00) 		0.21
(0.422) 		0.483
(0.692)
2q loss 62 (7%) 797 0.00359
(0.0195) 		1.04e-05
(0.000111) 		1e-05
(0.000108) 		1e-05
(0.000108) 		0.0767
(0.207) 		0.0699
(0.192) 		0.162
(0.348) 		0.484
(0.692) 		1e-05
(0.000108) 		0.348
(0.578) 		0.921
(1.00) 		0.142
(0.319) 		0.495
(0.698)
3p loss 409 (48%) 450 0.00497
(0.0251) 		0.999
(1.00) 		0.00032
(0.00239) 		8e-05
(0.000671) 		0.0522
(0.154) 		0.908
(1.00) 		0.613
(0.791) 		0.182
(0.378) 		1e-05
(0.000108) 		0.311
(0.545) 		0.0273
(0.0968) 		0.0004
(0.00281) 		0.631
(0.8)
4p loss 96 (11%) 763 2.7e-10
(9.61e-08) 		0.402
(0.628) 		1e-05
(0.000108) 		1e-05
(0.000108) 		0.00654
(0.0307) 		0.0148
(0.0599) 		0.0845
(0.222) 		0.6
(0.785) 		0.00177
(0.0105) 		0.704
(0.853) 		0.203
(0.409) 		0.155
(0.341) 		0.45
(0.672)
5q loss 22 (3%) 837 0.343
(0.577) 		0.000196
(0.00153) 		3e-05
(0.000286) 		1e-05
(0.000108) 		0.0392
(0.129) 		0.704
(0.853) 		0.11
(0.268) 		0.411
(0.634) 		1e-05
(0.000108) 		0.0407
(0.132) 		0.122
(0.284) 		0.44
(0.664) 		0.0691
(0.191)
6p loss 170 (20%) 689 0.657
(0.82) 		0.0414
(0.134) 		1e-05
(0.000108) 		1e-05
(0.000108) 		0.0452
(0.14) 		0.783
(0.917) 		0.526
(0.72) 		0.0911
(0.235) 		1e-05
(0.000108) 		0.592
(0.779) 		0.472
(0.691) 		0.00029
(0.00219) 		0.677
(0.836)
6q loss 204 (24%) 655 0.0866
(0.225) 		0.0432
(0.137) 		5e-05
(0.000444) 		4e-05
(0.000364) 		0.044
(0.138) 		0.896
(0.995) 		0.552
(0.746) 		0.168
(0.356) 		1e-05
(0.000108) 		0.265
(0.499) 		0.423
(0.644) 		0.00039
(0.00277) 		0.432
(0.654)
11q loss 51 (6%) 808 0.00842
(0.0379) 		0.0128
(0.0538) 		0.00016
(0.00126) 		8e-05
(0.000671) 		0.00082
(0.0054) 		0.316
(0.551) 		0.444
(0.668) 		0.0624
(0.175) 		0.0353
(0.119) 		0.506
(0.707) 		0.39
(0.616) 		0.368
(0.595) 		0.502
(0.704)
13q loss 136 (16%) 723 0.067
(0.186) 		0.000163
(0.00128) 		2e-05
(0.000201) 		1e-05
(0.000108) 		0.0069
(0.032) 		0.117
(0.279) 		0.0289
(0.101) 		0.316
(0.551) 		1e-05
(0.000108) 		0.751
(0.892) 		0.278
(0.511) 		0.169
(0.356) 		0.494
(0.698)
21q loss 130 (15%) 729 0.512
(0.711) 		0.0429
(0.137) 		0.0018
(0.0107) 		9e-05
(0.000732) 		0.0133
(0.0553) 		1
(1.00) 		0.481
(0.692) 		0.231
(0.449) 		1e-05
(0.000108) 		0.332
(0.568) 		0.0905
(0.234) 		0.0803
(0.214) 		0.495
(0.698)
1q gain 68 (8%) 791 5.61e-05
(0.000494) 		0.043
(0.137) 		0.00011
(0.000888) 		0.00084
(0.00546) 		0.0446
(0.139) 		0.234
(0.451) 		0.592
(0.779) 		0.297
(0.533) 		0.00408
(0.0214) 		0.336
(0.572) 		0.101
(0.254) 		0.362
(0.591) 		1
(1.00)
5p gain 236 (27%) 623 0.402
(0.628) 		0.00038
(0.00272) 		0.00082
(0.0054) 		0.00184
(0.0108) 		0.75
(0.892) 		0.181
(0.377) 		0.0286
(0.1) 		0.33
(0.567) 		1e-05
(0.000108) 		0.877
(0.983) 		0.685
(0.84) 		0.00043
(0.003) 		1
(1.00)
5q gain 246 (29%) 613 0.472
(0.692) 		0.000736
(0.00496) 		0.0062
(0.0298) 		0.03
(0.104) 		0.633
(0.8) 		0.152
(0.335) 		0.0549
(0.16) 		0.33
(0.567) 		1e-05
(0.000108) 		0.877
(0.983) 		0.83
(0.954) 		0.00037
(0.00268) 		0.861
(0.978)
11q gain 55 (6%) 804 0.483
(0.692) 		0.0556
(0.161) 		0.0357
(0.12) 		0.0101
(0.0443) 		0.499
(0.7) 		0.16
(0.346) 		0.302
(0.54) 		0.934
(1.00) 		1e-05
(0.000108) 		0.058
(0.166) 		0.0432
(0.137) 		0.344
(0.577) 		0.324
(0.562)
19p gain 75 (9%) 784 0.496
(0.699) 		0.744
(0.89) 		3e-05
(0.000286) 		3e-05
(0.000286) 		0.115
(0.275) 		0.00386
(0.0207) 		0.522
(0.718) 		0.08
(0.213) 		1e-05
(0.000108) 		0.418
(0.642) 		0.118
(0.279) 		0.0012
(0.00735) 		1
(1.00)
19q gain 78 (9%) 781 0.36
(0.591) 		0.806
(0.937) 		1e-05
(0.000108) 		5e-05
(0.000444) 		0.599
(0.785) 		0.00121
(0.00736) 		0.529
(0.723) 		0.08
(0.213) 		1e-05
(0.000108) 		0.734
(0.878) 		0.203
(0.409) 		0.00089
(0.00575) 		1
(1.00)
xq gain 118 (14%) 741 0.148
(0.328) 		0.342
(0.577) 		0.00412
(0.0214) 		0.0386
(0.127) 		1
(1.00) 		0.163
(0.349) 		0.0352
(0.119) 		0.00762
(0.0347) 		1e-05
(0.000108) 		0.611
(0.789) 		0.105
(0.262) 		0.0373
(0.124) 		0.822
(0.946)
1p loss 139 (16%) 720 0.0958
(0.245) 		0.0149
(0.0602) 		4e-05
(0.000364) 		9e-05
(0.000732) 		0.693
(0.847) 		0.119
(0.28) 		0.769
(0.908) 		0.461
(0.682) 		1e-05
(0.000108) 		0.196
(0.4) 		0.358
(0.59) 		0.629
(0.8) 		0.0679
(0.188)
4q loss 90 (10%) 769 1.01e-11
(1.08e-08) 		0.503
(0.704) 		1e-05
(0.000108) 		1e-05
(0.000108) 		0.00625
(0.0299) 		0.000649
(0.00441) 		0.481
(0.692) 		0.564
(0.752) 		0.00804
(0.0365) 		0.846
(0.964) 		0.15
(0.331) 		0.103
(0.257) 		0.604
(0.787)
8p loss 161 (19%) 698 0.0234
(0.0858) 		0.978
(1.00) 		0.0253
(0.0919) 		0.021
(0.0787) 		0.488
(0.696) 		0.058
(0.166) 		0.517
(0.714) 		0.923
(1.00) 		1e-05
(0.000108) 		0.644
(0.81) 		0.633
(0.8) 		0.00839
(0.0379) 		0.147
(0.325)
11p loss 41 (5%) 818 0.019
(0.0726) 		0.0189
(0.0726) 		0.00276
(0.0156) 		0.00316
(0.0175) 		0.0124
(0.0526) 		0.395
(0.622) 		0.867
(0.981) 		0.146
(0.324) 		0.0213
(0.0795) 		0.691
(0.847) 		0.145
(0.324) 		0.836
(0.955) 		0.247
(0.469)
15q loss 67 (8%) 792 3.34e-05
(0.000315) 		0.282
(0.518) 		1e-05
(0.000108) 		1e-05
(0.000108) 		0.00986
(0.0434) 		0.0141
(0.0577) 		0.419
(0.642) 		0.12
(0.28) 		0.0545
(0.16) 		0.344
(0.577) 		0.317
(0.552) 		0.353
(0.585)
18p loss 139 (16%) 720 5.86e-06
(0.000108) 		0.674
(0.834) 		1e-05
(0.000108) 		1e-05
(0.000108) 		0.0314
(0.108) 		0.0261
(0.0938) 		0.769
(0.908) 		0.474
(0.692) 		0.304
(0.541) 		0.215
(0.429) 		0.0492
(0.147) 		0.111
(0.268) 		0.18
(0.375)
18q loss 146 (17%) 713 9.35e-06
(0.000108) 		0.597
(0.785) 		1e-05
(0.000108) 		1e-05
(0.000108) 		0.0088
(0.0391) 		0.0393
(0.129) 		1
(1.00) 		0.56
(0.751) 		0.557
(0.748) 		0.355
(0.585) 		0.117
(0.279) 		0.0552
(0.161) 		0.128
(0.293)
19p loss 26 (3%) 833 0.00113
(0.00706) 		0.0984
(0.247) 		0.00422
(0.0218) 		0.00104
(0.00664) 		0.0325
(0.111) 		0.409
(0.634) 		0.836
(0.955) 		0.484
(0.692) 		0.0176
(0.0691) 		0.701
(0.853) 		1
(1.00) 		1
(1.00)
xq loss 113 (13%) 746 0.696
(0.849) 		0.00108
(0.00684) 		0.0012
(0.00735) 		0.00064
(0.00437) 		0.0134
(0.0557) 		0.603
(0.787) 		0.392
(0.618) 		0.398
(0.624) 		1e-05
(0.000108) 		0.63
(0.8) 		0.523
(0.719) 		0.0981
(0.247) 		0.302
(0.54)
3p gain 98 (11%) 761 0.897
(0.995) 		0.239
(0.458) 		0.045
(0.14) 		0.0456
(0.14) 		0.0201
(0.0761) 		1
(1.00) 		0.212
(0.423) 		0.0475
(0.144) 		1e-05
(0.000108) 		0.717
(0.867) 		0.36
(0.591) 		0.308
(0.542) 		0.807
(0.937)
3q gain 151 (18%) 708 0.495
(0.698) 		0.146
(0.324) 		0.82
(0.946) 		0.413
(0.636) 		0.0419
(0.135) 		0.248
(0.47) 		0.0292
(0.102) 		0.0879
(0.228) 		1e-05
(0.000108) 		0.632
(0.8) 		0.366
(0.594) 		0.0736
(0.202) 		1
(1.00)
4p gain 46 (5%) 813 0.746
(0.89) 		0.0407
(0.132) 		0.00279
(0.0157) 		0.00688
(0.032) 		0.129
(0.294) 		0.586
(0.773) 		0.749
(0.892) 		0.0952
(0.244) 		1e-05
(0.000108) 		0.118
(0.279) 		0.417
(0.64) 		0.328
(0.566) 		0.46
(0.681)
4q gain 46 (5%) 813 0.351
(0.582) 		0.0446
(0.139) 		0.0113
(0.0486) 		0.0228
(0.0843) 		0.0984
(0.247) 		0.784
(0.917) 		0.873
(0.983) 		0.304
(0.542) 		1e-05
(0.000108) 		0.276
(0.51) 		0.292
(0.529) 		0.328
(0.566) 		0.449
(0.67)
6p gain 21 (2%) 838 0.0863
(0.225) 		0.554
(0.746) 		0.0051
(0.0255) 		0.0115
(0.0491) 		0.0146
(0.0596) 		0.0967
(0.245) 		0.483
(0.692) 		0.343
(0.577) 		0.161
(0.347) 		0.958
(1.00) 		0.822
(0.946) 		0.692
(0.847) 		0.616
(0.793)
7q gain 358 (42%) 501 0.892
(0.994) 		0.342
(0.577) 		0.052
(0.154) 		0.905
(1.00) 		0.622
(0.796) 		0.00301
(0.0168) 		1.73e-06
(0.000108) 		0.386
(0.613) 		1e-05
(0.000108) 		0.411
(0.634) 		0.00572
(0.0278) 		0.132
(0.298) 		0.422
(0.644)
9p gain 26 (3%) 833 0.226
(0.443) 		0.681
(0.838) 		0.00409
(0.0214) 		0.00534
(0.0265) 		0.0352
(0.119) 		0.344
(0.577) 		0.0107
(0.0463) 		0.547
(0.74) 		4e-05
(0.000364) 		0.306
(0.542) 		0.439
(0.664) 		0.642
(0.809)
9q gain 24 (3%) 835 0.648
(0.813) 		0.685
(0.84) 		0.00107
(0.00679) 		0.00016
(0.00126) 		0.0347
(0.118) 		1
(1.00) 		0.0455
(0.14) 		0.547
(0.74) 		1e-05
(0.000108) 		0.306
(0.542) 		0.223
(0.438) 		0.383
(0.61)
11p gain 57 (7%) 802 0.894
(0.995) 		0.129
(0.294) 		0.00541
(0.0267) 		0.00259
(0.015) 		0.226
(0.444) 		0.0379
(0.125) 		0.564
(0.752) 		0.542
(0.737) 		4e-05
(0.000364) 		0.0808
(0.214) 		0.133
(0.298) 		0.27
(0.505) 		0.347
(0.578)
14q gain 39 (5%) 820 0.721
(0.868) 		0.046
(0.14) 		0.00152
(0.00921) 		0.0004
(0.00281) 		0.367
(0.594) 		0.586
(0.773) 		0.491
(0.698) 		0.547
(0.74) 		1e-05
(0.000108) 		0.106
(0.263) 		0.0759
(0.206) 		0.294
(0.53) 		0.676
(0.836)
16p gain 270 (31%) 589 0.0239
(0.0873) 		0.0257
(0.0929) 		0.624
(0.796) 		0.885
(0.989) 		0.513
(0.712) 		0.896
(0.995) 		0.00499
(0.0251) 		0.695
(0.847) 		1e-05
(0.000108) 		0.507
(0.708) 		0.271
(0.505) 		0.036
(0.12) 		0.733
(0.878)
16q gain 258 (30%) 601 0.00346
(0.0189) 		0.0618
(0.175) 		0.212
(0.424) 		0.734
(0.878) 		0.77
(0.908) 		0.423
(0.644) 		0.0271
(0.0965) 		0.292
(0.53) 		1e-05
(0.000108) 		0.916
(1.00) 		0.271
(0.505) 		0.0819
(0.216) 		0.863
(0.978)
20p gain 224 (26%) 635 0.339
(0.576) 		0.617
(0.794) 		0.0217
(0.0808) 		0.00552
(0.0271) 		0.293
(0.53) 		0.0459
(0.14) 		0.00176
(0.0105) 		0.375
(0.602) 		0.00047
(0.00325) 		0.155
(0.341) 		0.484
(0.692) 		0.232
(0.45) 		0.364
(0.592)
20q gain 228 (27%) 631 0.219
(0.434) 		0.385
(0.612) 		0.0132
(0.0552) 		0.00928
(0.041) 		0.106
(0.262) 		0.0649
(0.182) 		0.00529
(0.0264) 		0.375
(0.602) 		0.00032
(0.00239) 		0.202
(0.409) 		0.573
(0.76) 		0.132
(0.298) 		0.364
(0.592)
1q loss 107 (12%) 752 0.0224
(0.0833) 		0.000214
(0.00165) 		3e-05
(0.000286) 		9e-05
(0.000732) 		0.484
(0.692) 		0.114
(0.274) 		0.381
(0.608) 		0.469
(0.69) 		1e-05
(0.000108) 		0.469
(0.69) 		0.921
(1.00) 		0.121
(0.284) 		0.307
(0.542)
12p loss 6 (1%) 853 0.0573
(0.165) 		0.398
(0.624) 		0.0461
(0.141) 		0.064
(0.18) 		0.048
(0.145) 		1
(1.00) 		0.67
(0.833) 		0.0979
(0.247) 		1
(1.00) 		1
(1.00)
16p loss 18 (2%) 841 1.41e-06
(0.000108) 		0.971
(1.00) 		0.00858
(0.0384) 		0.00033
(0.00244) 		0.00115
(0.00717) 		0.704
(0.853) 		0.62
(0.795) 		0.0774
(0.208) 		1
(1.00) 		1
(1.00)
17p loss 105 (12%) 754 0.244
(0.465) 		0.00206
(0.012) 		1e-05
(0.000108) 		1e-05
(0.000108) 		0.00636
(0.0303) 		0.166
(0.354) 		0.32
(0.557) 		0.94
(1.00) 		1e-05
(0.000108) 		0.44
(0.664) 		0.585
(0.773) 		0.447
(0.668) 		1
(1.00)
17q loss 80 (9%) 779 0.00648
(0.0305) 		0.000132
(0.00106) 		1e-05
(0.000108) 		1e-05
(0.000108) 		0.124
(0.288) 		0.554
(0.746) 		0.455
(0.676) 		0.783
(0.917) 		1e-05
(0.000108) 		0.348
(0.578) 		0.921
(1.00) 		0.167
(0.355) 		0.516
(0.714)
19q loss 22 (3%) 837 0.00198
(0.0116) 		0.333
(0.568) 		0.00076
(0.00506) 		3e-05
(0.000286) 		7e-05
(0.000597) 		0.258
(0.487) 		0.82
(0.946) 		0.484
(0.692) 		9e-05
(0.000732) 		0.471
(0.691) 		0.16
(0.346) 		0.311
(0.545) 		1
(1.00)
xp loss 115 (13%) 744 0.682
(0.838) 		0.000742
(0.00498) 		0.00084
(0.00546) 		0.00022
(0.00169) 		0.0127
(0.0533) 		1
(1.00) 		0.244
(0.465) 		0.398
(0.624) 		1e-05
(0.000108) 		0.63
(0.8) 		0.302
(0.54) 		0.202
(0.409) 		0.211
(0.423)
1p gain 30 (3%) 829 5.12e-07
(7.43e-05) 		0.219
(0.434) 		0.00261
(0.015) 		0.00367
(0.0198) 		0.0196
(0.0745) 		0.119
(0.28) 		0.243
(0.465) 		0.311
(0.545) 		0.475
(0.692) 		0.371
(0.598) 		0.388
(0.614)
7p gain 356 (41%) 503 0.499
(0.7) 		0.288
(0.527) 		0.178
(0.372) 		0.863
(0.978) 		0.707
(0.856) 		0.018
(0.0701) 		5.58e-07
(7.43e-05) 		0.239
(0.459) 		1e-05
(0.000108) 		0.411
(0.634) 		0.00572
(0.0278) 		0.136
(0.305) 		0.518
(0.714)
8p gain 64 (7%) 795 0.68
(0.838) 		0.565
(0.752) 		5e-05
(0.000444) 		7e-05
(0.000597) 		0.276
(0.51) 		0.177
(0.372) 		0.784
(0.917) 		0.934
(1.00) 		2e-05
(0.000201) 		0.556
(0.747) 		0.164
(0.351) 		0.0817
(0.216) 		1
(1.00)
15q gain 52 (6%) 807 0.156
(0.341) 		0.35
(0.582) 		0.00102
(0.00655) 		0.00306
(0.017) 		0.465
(0.686) 		0.476
(0.692) 		0.65
(0.813) 		0.128
(0.293) 		1e-05
(0.000108) 		0.469
(0.69) 		0.0601
(0.171) 		0.379
(0.605) 		0.278
(0.511)
22q gain 62 (7%) 797 0.564
(0.752) 		0.333
(0.568) 		0.0333
(0.113) 		0.00345
(0.0189) 		0.52
(0.717) 		0.835
(0.955) 		0.33
(0.567) 		0.837
(0.955) 		1e-05
(0.000108) 		0.72
(0.868) 		0.384
(0.61) 		0.0375
(0.125) 		0.294
(0.53)
3q loss 122 (14%) 737 0.211
(0.423) 		0.0298
(0.103) 		0.16
(0.346) 		0.198
(0.403) 		0.729
(0.875) 		0.453
(0.673) 		0.0293
(0.102) 		0.66
(0.822) 		1e-05
(0.000108) 		0.0236
(0.0866) 		0.635
(0.802)
10p loss 129 (15%) 730 0.624
(0.796) 		0.0317
(0.109) 		1e-05
(0.000108) 		1e-05
(0.000108) 		0.109
(0.267) 		0.875
(0.983) 		0.546
(0.74) 		0.863
(0.978) 		1e-05
(0.000108) 		0.446
(0.668) 		0.377
(0.604) 		0.492
(0.698) 		0.223
(0.438)
10q loss 154 (18%) 705 0.835
(0.955) 		0.0177
(0.0692) 		1e-05
(0.000108) 		1e-05
(0.000108) 		0.286
(0.524) 		1
(1.00) 		0.925
(1.00) 		0.51
(0.71) 		1e-05
(0.000108) 		0.446
(0.668) 		0.377
(0.604) 		0.183
(0.379) 		0.267
(0.502)
16q loss 28 (3%) 831 5.41e-07
(7.43e-05) 		0.402
(0.628) 		0.00492
(0.0251) 		0.00028
(0.00213) 		0.00037
(0.00268) 		0.72
(0.868) 		1
(1.00) 		0.875
(0.983) 		0.133
(0.298) 		0.168
(0.356) 		0.82
(0.946) 		0.872
(0.983) 		0.623
(0.796)
20q loss 6 (1%) 853 0.753
(0.893) 		0.125
(0.289) 		0.0989
(0.248) 		0.17
(0.358) 		0.0855
(0.224) 		0.6
(0.785) 		1
(1.00) 		0.00761
(0.0347) 		1
(1.00) 		0.0657
(0.183)
6q gain 16 (2%) 843 0.00872
(0.0389) 		0.678
(0.837) 		0.0424
(0.136) 		0.109
(0.267) 		0.0279
(0.0984) 		0.156
(0.341) 		0.598
(0.785) 		0.343
(0.577) 		0.288
(0.527) 		0.426
(0.648) 		0.606
(0.787) 		0.476
(0.692) 		1
(1.00)
18p gain 54 (6%) 805 0.0189
(0.0726) 		0.79
(0.921) 		0.517
(0.714) 		0.542
(0.737) 		1
(1.00) 		0.636
(0.803) 		0.554
(0.746) 		0.51
(0.71) 		1e-05
(0.000108) 		0.273
(0.508) 		0.483
(0.692) 		0.0765
(0.207) 		0.314
(0.549)
2p gain 116 (14%) 743 0.61
(0.789) 		0.275
(0.51) 		0.447
(0.668) 		0.22
(0.435) 		0.0818
(0.216) 		0.869
(0.982) 		0.916
(1.00) 		0.515
(0.713) 		0.0184
(0.0712) 		0.199
(0.405) 		0.72
(0.868) 		0.559
(0.749) 		0.813
(0.942)
2q gain 124 (14%) 735 0.673
(0.834) 		0.236
(0.454) 		0.539
(0.735) 		0.368
(0.595) 		0.0431
(0.137) 		0.748
(0.892) 		0.608
(0.788) 		0.708
(0.856) 		0.00712
(0.0329) 		0.375
(0.602) 		0.938
(1.00) 		0.572
(0.759) 		0.65
(0.813)
10p gain 29 (3%) 830 0.942
(1.00) 		0.606
(0.787) 		0.173
(0.364) 		0.0048
(0.0246) 		0.0897
(0.232) 		1
(1.00) 		1
(1.00) 		0.837
(0.955) 		0.426
(0.648) 		0.764
(0.905) 		0.158
(0.344) 		0.623
(0.796)
18q gain 50 (6%) 809 0.00639
(0.0303) 		0.806
(0.937) 		0.363
(0.592) 		0.441
(0.664) 		0.579
(0.767) 		0.462
(0.683) 		0.354
(0.585) 		0.955
(1.00) 		1e-05
(0.000108) 		0.892
(0.994) 		0.483
(0.692) 		0.113
(0.271) 		0.286
(0.524)
20p loss 12 (1%) 847 0.567
(0.754) 		0.231
(0.449) 		0.116
(0.277) 		0.13
(0.295) 		0.0963
(0.245) 		0.659
(0.822) 		0.23
(0.449) 		0.0067
(0.0313) 		0.125
(0.289) 		0.289
(0.527)
10q gain 22 (3%) 837 0.648
(0.813) 		0.236
(0.455) 		0.428
(0.648) 		0.0493
(0.147) 		0.244
(0.465) 		0.753
(0.893) 		0.494
(0.698) 		0.67
(0.833) 		0.837
(0.955) 		0.125
(0.289) 		0.615
(0.792)
13q gain 51 (6%) 808 0.293
(0.53) 		0.271
(0.505) 		0.767
(0.907) 		0.833
(0.955) 		0.726
(0.872) 		0.799
(0.931) 		0.129
(0.294) 		0.527
(0.721) 		0.0039
(0.0208) 		0.882
(0.988) 		0.905
(1.00) 		0.672
(0.833) 		0.179
(0.373)
21q gain 73 (8%) 786 0.325
(0.562) 		0.482
(0.692) 		0.346
(0.578) 		0.192
(0.394) 		1
(1.00) 		0.296
(0.532) 		0.605
(0.787) 		0.29
(0.528) 		0.413
(0.636) 		0.336
(0.572) 		0.403
(0.629) 		0.0618
(0.175) 		0.779
(0.914)
7p loss 4 (0%) 855 0.11
(0.268) 		0.405
(0.63) 		0.232
(0.45) 		0.113
(0.271) 		0.0487
(0.147) 		1
(1.00) 		0.307
(0.542) 		0.361
(0.591) 		1
(1.00) 		1
(1.00)
7q loss 4 (0%) 855 0.11
(0.268) 		0.405
(0.63) 		0.231
(0.449) 		0.111
(0.268) 		0.0498
(0.148) 		1
(1.00) 		0.307
(0.542) 		0.359
(0.591) 		1
(1.00) 		1
(1.00)
8q loss 85 (10%) 774 0.877
(0.983) 		0.453
(0.673) 		0.361
(0.591) 		0.205
(0.413) 		0.896
(0.995) 		0.602
(0.787) 		0.146
(0.324) 		0.619
(0.795) 		1e-05
(0.000108) 		1
(1.00) 		0.221
(0.436) 		0.259
(0.488)
12q loss 4 (0%) 855 0.875
(0.983) 		0.333
(0.568) 		0.229
(0.447) 		0.0567
(0.163) 		1
(1.00) 		1
(1.00) 		0.176
(0.369) 		1
(1.00) 		1
(1.00)
'1p gain' versus 'Time to Death'

P value = 5.12e-07 (logrank test), Q value = 7.4e-05

Table S1.  Gene #1: '1p gain' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
1P GAIN MUTATED 29 17 0.5 - 83.9 (22.3)
1P GAIN WILD-TYPE 814 194 0.1 - 194.8 (30.9)

Figure S1.  Get High-res Image Gene #1: '1p gain' versus Clinical Feature #1: 'Time to Death'

'1p gain' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00261 (Fisher's exact test), Q value = 0.015

Table S2.  Gene #1: '1p gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
1P GAIN MUTATED 7 4 12 7
1P GAIN WILD-TYPE 441 99 178 93

Figure S2.  Get High-res Image Gene #1: '1p gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'1p gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.00367 (Fisher's exact test), Q value = 0.02

Table S3.  Gene #1: '1p gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
1P GAIN MUTATED 8 4 18 0
1P GAIN WILD-TYPE 454 119 233 15

Figure S3.  Get High-res Image Gene #1: '1p gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'1p gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0196 (Fisher's exact test), Q value = 0.074

Table S4.  Gene #1: '1p gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
1P GAIN MUTATED 11 5 1
1P GAIN WILD-TYPE 306 38 5

Figure S4.  Get High-res Image Gene #1: '1p gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'1q gain' versus 'Time to Death'

P value = 5.61e-05 (logrank test), Q value = 0.00049

Table S5.  Gene #2: '1q gain' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
1Q GAIN MUTATED 67 30 0.4 - 90.3 (25.4)
1Q GAIN WILD-TYPE 776 181 0.1 - 194.8 (30.9)

Figure S5.  Get High-res Image Gene #2: '1q gain' versus Clinical Feature #1: 'Time to Death'

'1q gain' versus 'YEARS_TO_BIRTH'

P value = 0.043 (Wilcoxon-test), Q value = 0.14

Table S6.  Gene #2: '1q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
1Q GAIN MUTATED 66 62.7 (12.1)
1Q GAIN WILD-TYPE 787 59.9 (12.6)

Figure S6.  Get High-res Image Gene #2: '1q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'1q gain' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00011 (Fisher's exact test), Q value = 0.00089

Table S7.  Gene #2: '1q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
1Q GAIN MUTATED 20 9 28 11
1Q GAIN WILD-TYPE 428 94 162 89

Figure S7.  Get High-res Image Gene #2: '1q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'1q gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.00084 (Fisher's exact test), Q value = 0.0055

Table S8.  Gene #2: '1q gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
1Q GAIN MUTATED 23 11 34 0
1Q GAIN WILD-TYPE 439 112 217 15

Figure S8.  Get High-res Image Gene #2: '1q gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'1q gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0446 (Fisher's exact test), Q value = 0.14

Table S9.  Gene #2: '1q gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
1Q GAIN MUTATED 28 9 1
1Q GAIN WILD-TYPE 289 34 5

Figure S9.  Get High-res Image Gene #2: '1q gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'1q gain' versus 'HISTOLOGICAL_TYPE'

P value = 0.00408 (Fisher's exact test), Q value = 0.021

Table S10.  Gene #2: '1q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
1Q GAIN MUTATED 0 51 17
1Q GAIN WILD-TYPE 66 473 252

Figure S10.  Get High-res Image Gene #2: '1q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'2p gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0818 (Fisher's exact test), Q value = 0.22

Table S11.  Gene #3: '2p gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
2P GAIN MUTATED 41 11 1
2P GAIN WILD-TYPE 276 32 5

Figure S11.  Get High-res Image Gene #3: '2p gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'2p gain' versus 'HISTOLOGICAL_TYPE'

P value = 0.0184 (Fisher's exact test), Q value = 0.071

Table S12.  Gene #3: '2p gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
2P GAIN MUTATED 2 74 40
2P GAIN WILD-TYPE 64 450 229

Figure S12.  Get High-res Image Gene #3: '2p gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'2q gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0431 (Fisher's exact test), Q value = 0.14

Table S13.  Gene #4: '2q gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
2Q GAIN MUTATED 44 11 2
2Q GAIN WILD-TYPE 273 32 4

Figure S13.  Get High-res Image Gene #4: '2q gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'2q gain' versus 'HISTOLOGICAL_TYPE'

P value = 0.00712 (Fisher's exact test), Q value = 0.033

Table S14.  Gene #4: '2q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
2Q GAIN MUTATED 2 77 45
2Q GAIN WILD-TYPE 64 447 224

Figure S14.  Get High-res Image Gene #4: '2q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'3p gain' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.045 (Fisher's exact test), Q value = 0.14

Table S15.  Gene #5: '3p gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
3P GAIN MUTATED 57 14 11 11
3P GAIN WILD-TYPE 391 89 179 89

Figure S15.  Get High-res Image Gene #5: '3p gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'3p gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.0456 (Fisher's exact test), Q value = 0.14

Table S16.  Gene #5: '3p gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
3P GAIN MUTATED 58 17 18 3
3P GAIN WILD-TYPE 404 106 233 12

Figure S16.  Get High-res Image Gene #5: '3p gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'3p gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0201 (Fisher's exact test), Q value = 0.076

Table S17.  Gene #5: '3p gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
3P GAIN MUTATED 21 8 1
3P GAIN WILD-TYPE 296 35 5

Figure S17.  Get High-res Image Gene #5: '3p gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'3p gain' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0475 (Wilcoxon-test), Q value = 0.14

Table S18.  Gene #5: '3p gain' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 115 90.3 (17.6)
3P GAIN MUTATED 22 95.9 (5.9)
3P GAIN WILD-TYPE 93 88.9 (19.1)

Figure S18.  Get High-res Image Gene #5: '3p gain' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'

'3p gain' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S19.  Gene #5: '3p gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
3P GAIN MUTATED 8 19 71
3P GAIN WILD-TYPE 58 505 198

Figure S19.  Get High-res Image Gene #5: '3p gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'3q gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0419 (Fisher's exact test), Q value = 0.13

Table S20.  Gene #6: '3q gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
3Q GAIN MUTATED 43 12 1
3Q GAIN WILD-TYPE 274 31 5

Figure S20.  Get High-res Image Gene #6: '3q gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'3q gain' versus 'GENDER'

P value = 0.0292 (Fisher's exact test), Q value = 0.1

Table S21.  Gene #6: '3q gain' versus Clinical Feature #7: 'GENDER'

nPatients FEMALE MALE
ALL 287 572
3Q GAIN MUTATED 39 112
3Q GAIN WILD-TYPE 248 460

Figure S21.  Get High-res Image Gene #6: '3q gain' versus Clinical Feature #7: 'GENDER'

'3q gain' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0879 (Wilcoxon-test), Q value = 0.23

Table S22.  Gene #6: '3q gain' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 115 90.3 (17.6)
3Q GAIN MUTATED 28 95.0 (6.9)
3Q GAIN WILD-TYPE 87 88.7 (19.6)

Figure S22.  Get High-res Image Gene #6: '3q gain' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'

'3q gain' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S23.  Gene #6: '3q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
3Q GAIN MUTATED 8 55 88
3Q GAIN WILD-TYPE 58 469 181

Figure S23.  Get High-res Image Gene #6: '3q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'3q gain' versus 'RACE'

P value = 0.0736 (Fisher's exact test), Q value = 0.2

Table S24.  Gene #6: '3q gain' versus Clinical Feature #12: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 2 15 116 702
3Q GAIN MUTATED 2 2 18 120
3Q GAIN WILD-TYPE 0 13 98 582

Figure S24.  Get High-res Image Gene #6: '3q gain' versus Clinical Feature #12: 'RACE'

'4p gain' versus 'YEARS_TO_BIRTH'

P value = 0.0407 (Wilcoxon-test), Q value = 0.13

Table S25.  Gene #7: '4p gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
4P GAIN MUTATED 45 56.5 (13.4)
4P GAIN WILD-TYPE 808 60.3 (12.5)

Figure S25.  Get High-res Image Gene #7: '4p gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'4p gain' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00279 (Fisher's exact test), Q value = 0.016

Table S26.  Gene #7: '4p gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
4P GAIN MUTATED 18 13 6 8
4P GAIN WILD-TYPE 430 90 184 92

Figure S26.  Get High-res Image Gene #7: '4p gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'4p gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.00688 (Fisher's exact test), Q value = 0.032

Table S27.  Gene #7: '4p gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
4P GAIN MUTATED 18 14 12 2
4P GAIN WILD-TYPE 444 109 239 13

Figure S27.  Get High-res Image Gene #7: '4p gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'4p gain' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0952 (Wilcoxon-test), Q value = 0.24

Table S28.  Gene #7: '4p gain' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 115 90.3 (17.6)
4P GAIN MUTATED 7 65.7 (45.4)
4P GAIN WILD-TYPE 108 91.9 (13.1)

Figure S28.  Get High-res Image Gene #7: '4p gain' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'

'4p gain' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S29.  Gene #7: '4p gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
4P GAIN MUTATED 23 13 10
4P GAIN WILD-TYPE 43 511 259

Figure S29.  Get High-res Image Gene #7: '4p gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'4q gain' versus 'YEARS_TO_BIRTH'

P value = 0.0446 (Wilcoxon-test), Q value = 0.14

Table S30.  Gene #8: '4q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
4Q GAIN MUTATED 45 56.6 (13.3)
4Q GAIN WILD-TYPE 808 60.3 (12.5)

Figure S30.  Get High-res Image Gene #8: '4q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'4q gain' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.0113 (Fisher's exact test), Q value = 0.049

Table S31.  Gene #8: '4q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
4Q GAIN MUTATED 19 13 7 6
4Q GAIN WILD-TYPE 429 90 183 94

Figure S31.  Get High-res Image Gene #8: '4q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'4q gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.0228 (Fisher's exact test), Q value = 0.084

Table S32.  Gene #8: '4q gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
4Q GAIN MUTATED 19 14 12 1
4Q GAIN WILD-TYPE 443 109 239 14

Figure S32.  Get High-res Image Gene #8: '4q gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'4q gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0984 (Fisher's exact test), Q value = 0.25

Table S33.  Gene #8: '4q gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
4Q GAIN MUTATED 25 2 2
4Q GAIN WILD-TYPE 292 41 4

Figure S33.  Get High-res Image Gene #8: '4q gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'4q gain' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S34.  Gene #8: '4q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
4Q GAIN MUTATED 24 13 9
4Q GAIN WILD-TYPE 42 511 260

Figure S34.  Get High-res Image Gene #8: '4q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'5p gain' versus 'YEARS_TO_BIRTH'

P value = 0.00038 (Wilcoxon-test), Q value = 0.0027

Table S35.  Gene #9: '5p gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
5P GAIN MUTATED 234 62.7 (12.3)
5P GAIN WILD-TYPE 619 59.1 (12.5)

Figure S35.  Get High-res Image Gene #9: '5p gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'5p gain' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00082 (Fisher's exact test), Q value = 0.0054

Table S36.  Gene #9: '5p gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
5P GAIN MUTATED 101 27 65 39
5P GAIN WILD-TYPE 347 76 125 61

Figure S36.  Get High-res Image Gene #9: '5p gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'5p gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.00184 (Fisher's exact test), Q value = 0.011

Table S37.  Gene #9: '5p gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
5P GAIN MUTATED 105 35 87 7
5P GAIN WILD-TYPE 357 88 164 8

Figure S37.  Get High-res Image Gene #9: '5p gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'5p gain' versus 'GENDER'

P value = 0.0286 (Fisher's exact test), Q value = 0.1

Table S38.  Gene #9: '5p gain' versus Clinical Feature #7: 'GENDER'

nPatients FEMALE MALE
ALL 287 572
5P GAIN MUTATED 65 171
5P GAIN WILD-TYPE 222 401

Figure S38.  Get High-res Image Gene #9: '5p gain' versus Clinical Feature #7: 'GENDER'

'5p gain' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S39.  Gene #9: '5p gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
5P GAIN MUTATED 8 195 33
5P GAIN WILD-TYPE 58 329 236

Figure S39.  Get High-res Image Gene #9: '5p gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'5p gain' versus 'RACE'

P value = 0.00043 (Fisher's exact test), Q value = 0.003

Table S40.  Gene #9: '5p gain' versus Clinical Feature #12: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 2 15 116 702
5P GAIN MUTATED 0 4 15 212
5P GAIN WILD-TYPE 2 11 101 490

Figure S40.  Get High-res Image Gene #9: '5p gain' versus Clinical Feature #12: 'RACE'

'5q gain' versus 'YEARS_TO_BIRTH'

P value = 0.000736 (Wilcoxon-test), Q value = 0.005

Table S41.  Gene #10: '5q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
5Q GAIN MUTATED 243 62.6 (12.5)
5Q GAIN WILD-TYPE 610 59.1 (12.5)

Figure S41.  Get High-res Image Gene #10: '5q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'5q gain' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.0062 (Fisher's exact test), Q value = 0.03

Table S42.  Gene #10: '5q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
5Q GAIN MUTATED 111 27 65 40
5Q GAIN WILD-TYPE 337 76 125 60

Figure S42.  Get High-res Image Gene #10: '5q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'5q gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.03 (Fisher's exact test), Q value = 0.1

Table S43.  Gene #10: '5q gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
5Q GAIN MUTATED 116 35 88 6
5Q GAIN WILD-TYPE 346 88 163 9

Figure S43.  Get High-res Image Gene #10: '5q gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'5q gain' versus 'GENDER'

P value = 0.0549 (Fisher's exact test), Q value = 0.16

Table S44.  Gene #10: '5q gain' versus Clinical Feature #7: 'GENDER'

nPatients FEMALE MALE
ALL 287 572
5Q GAIN MUTATED 70 176
5Q GAIN WILD-TYPE 217 396

Figure S44.  Get High-res Image Gene #10: '5q gain' versus Clinical Feature #7: 'GENDER'

'5q gain' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S45.  Gene #10: '5q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
5Q GAIN MUTATED 8 207 31
5Q GAIN WILD-TYPE 58 317 238

Figure S45.  Get High-res Image Gene #10: '5q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'5q gain' versus 'RACE'

P value = 0.00037 (Fisher's exact test), Q value = 0.0027

Table S46.  Gene #10: '5q gain' versus Clinical Feature #12: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 2 15 116 702
5Q GAIN MUTATED 0 4 16 221
5Q GAIN WILD-TYPE 2 11 100 481

Figure S46.  Get High-res Image Gene #10: '5q gain' versus Clinical Feature #12: 'RACE'

'6p gain' versus 'Time to Death'

P value = 0.0863 (logrank test), Q value = 0.22

Table S47.  Gene #11: '6p gain' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
6P GAIN MUTATED 21 8 1.0 - 93.3 (14.9)
6P GAIN WILD-TYPE 822 203 0.1 - 194.8 (30.6)

Figure S47.  Get High-res Image Gene #11: '6p gain' versus Clinical Feature #1: 'Time to Death'

'6p gain' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.0051 (Fisher's exact test), Q value = 0.026

Table S48.  Gene #11: '6p gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
6P GAIN MUTATED 6 0 9 5
6P GAIN WILD-TYPE 442 103 181 95

Figure S48.  Get High-res Image Gene #11: '6p gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'6p gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.0115 (Fisher's exact test), Q value = 0.049

Table S49.  Gene #11: '6p gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
6P GAIN MUTATED 6 1 12 1
6P GAIN WILD-TYPE 456 122 239 14

Figure S49.  Get High-res Image Gene #11: '6p gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'6p gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0146 (Fisher's exact test), Q value = 0.06

Table S50.  Gene #11: '6p gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
6P GAIN MUTATED 6 5 0
6P GAIN WILD-TYPE 311 38 6

Figure S50.  Get High-res Image Gene #11: '6p gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'6p gain' versus 'PATHOLOGY_M_STAGE'

P value = 0.0967 (Fisher's exact test), Q value = 0.25

Table S51.  Gene #11: '6p gain' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 542 89
6P GAIN MUTATED 9 4
6P GAIN WILD-TYPE 533 85

Figure S51.  Get High-res Image Gene #11: '6p gain' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'6q gain' versus 'Time to Death'

P value = 0.00872 (logrank test), Q value = 0.039

Table S52.  Gene #12: '6q gain' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
6Q GAIN MUTATED 16 8 6.4 - 86.3 (19.1)
6Q GAIN WILD-TYPE 827 203 0.1 - 194.8 (30.6)

Figure S52.  Get High-res Image Gene #12: '6q gain' versus Clinical Feature #1: 'Time to Death'

'6q gain' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.0424 (Fisher's exact test), Q value = 0.14

Table S53.  Gene #12: '6q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
6Q GAIN MUTATED 5 0 7 3
6Q GAIN WILD-TYPE 443 103 183 97

Figure S53.  Get High-res Image Gene #12: '6q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'6q gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0279 (Fisher's exact test), Q value = 0.098

Table S54.  Gene #12: '6q gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
6Q GAIN MUTATED 5 4 0
6Q GAIN WILD-TYPE 312 39 6

Figure S54.  Get High-res Image Gene #12: '6q gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'7p gain' versus 'PATHOLOGY_M_STAGE'

P value = 0.018 (Fisher's exact test), Q value = 0.07

Table S55.  Gene #13: '7p gain' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 542 89
7P GAIN MUTATED 190 43
7P GAIN WILD-TYPE 352 46

Figure S55.  Get High-res Image Gene #13: '7p gain' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'7p gain' versus 'GENDER'

P value = 5.58e-07 (Fisher's exact test), Q value = 7.4e-05

Table S56.  Gene #13: '7p gain' versus Clinical Feature #7: 'GENDER'

nPatients FEMALE MALE
ALL 287 572
7P GAIN MUTATED 85 271
7P GAIN WILD-TYPE 202 301

Figure S56.  Get High-res Image Gene #13: '7p gain' versus Clinical Feature #7: 'GENDER'

'7p gain' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S57.  Gene #13: '7p gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
7P GAIN MUTATED 24 171 161
7P GAIN WILD-TYPE 42 353 108

Figure S57.  Get High-res Image Gene #13: '7p gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'7p gain' versus 'YEAR_OF_TOBACCO_SMOKING_ONSET'

P value = 0.00572 (Wilcoxon-test), Q value = 0.028

Table S58.  Gene #13: '7p gain' versus Clinical Feature #11: 'YEAR_OF_TOBACCO_SMOKING_ONSET'

nPatients Mean (Std.Dev)
ALL 67 1973.4 (16.4)
7P GAIN MUTATED 35 1968.2 (15.3)
7P GAIN WILD-TYPE 32 1979.1 (15.9)

Figure S58.  Get High-res Image Gene #13: '7p gain' versus Clinical Feature #11: 'YEAR_OF_TOBACCO_SMOKING_ONSET'

'7q gain' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.052 (Fisher's exact test), Q value = 0.15

Table S59.  Gene #14: '7q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
7Q GAIN MUTATED 191 37 68 51
7Q GAIN WILD-TYPE 257 66 122 49

Figure S59.  Get High-res Image Gene #14: '7q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'7q gain' versus 'PATHOLOGY_M_STAGE'

P value = 0.00301 (Fisher's exact test), Q value = 0.017

Table S60.  Gene #14: '7q gain' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 542 89
7Q GAIN MUTATED 189 46
7Q GAIN WILD-TYPE 353 43

Figure S60.  Get High-res Image Gene #14: '7q gain' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'7q gain' versus 'GENDER'

P value = 1.73e-06 (Fisher's exact test), Q value = 0.00011

Table S61.  Gene #14: '7q gain' versus Clinical Feature #7: 'GENDER'

nPatients FEMALE MALE
ALL 287 572
7Q GAIN MUTATED 87 271
7Q GAIN WILD-TYPE 200 301

Figure S61.  Get High-res Image Gene #14: '7q gain' versus Clinical Feature #7: 'GENDER'

'7q gain' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S62.  Gene #14: '7q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
7Q GAIN MUTATED 24 172 162
7Q GAIN WILD-TYPE 42 352 107

Figure S62.  Get High-res Image Gene #14: '7q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'7q gain' versus 'YEAR_OF_TOBACCO_SMOKING_ONSET'

P value = 0.00572 (Wilcoxon-test), Q value = 0.028

Table S63.  Gene #14: '7q gain' versus Clinical Feature #11: 'YEAR_OF_TOBACCO_SMOKING_ONSET'

nPatients Mean (Std.Dev)
ALL 67 1973.4 (16.4)
7Q GAIN MUTATED 35 1968.2 (15.3)
7Q GAIN WILD-TYPE 32 1979.1 (15.9)

Figure S63.  Get High-res Image Gene #14: '7q gain' versus Clinical Feature #11: 'YEAR_OF_TOBACCO_SMOKING_ONSET'

'8p gain' versus 'NEOPLASM_DISEASESTAGE'

P value = 5e-05 (Fisher's exact test), Q value = 0.00044

Table S64.  Gene #15: '8p gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
8P GAIN MUTATED 18 18 15 11
8P GAIN WILD-TYPE 430 85 175 89

Figure S64.  Get High-res Image Gene #15: '8p gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'8p gain' versus 'PATHOLOGY_T_STAGE'

P value = 7e-05 (Fisher's exact test), Q value = 6e-04

Table S65.  Gene #15: '8p gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
8P GAIN MUTATED 18 19 24 1
8P GAIN WILD-TYPE 444 104 227 14

Figure S65.  Get High-res Image Gene #15: '8p gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'8p gain' versus 'HISTOLOGICAL_TYPE'

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

Table S66.  Gene #15: '8p gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
8P GAIN MUTATED 17 29 18
8P GAIN WILD-TYPE 49 495 251

Figure S66.  Get High-res Image Gene #15: '8p gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'8p gain' versus 'RACE'

P value = 0.0817 (Fisher's exact test), Q value = 0.22

Table S67.  Gene #15: '8p gain' versus Clinical Feature #12: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 2 15 116 702
8P GAIN MUTATED 0 0 3 60
8P GAIN WILD-TYPE 2 15 113 642

Figure S67.  Get High-res Image Gene #15: '8p gain' versus Clinical Feature #12: 'RACE'

'8q gain' versus 'Time to Death'

P value = 0.0776 (logrank test), Q value = 0.21

Table S68.  Gene #16: '8q gain' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
8Q GAIN MUTATED 95 29 0.2 - 152.0 (25.9)
8Q GAIN WILD-TYPE 748 182 0.1 - 194.8 (30.9)

Figure S68.  Get High-res Image Gene #16: '8q gain' versus Clinical Feature #1: 'Time to Death'

'8q gain' versus 'NEOPLASM_DISEASESTAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S69.  Gene #16: '8q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
8Q GAIN MUTATED 27 21 28 18
8Q GAIN WILD-TYPE 421 82 162 82

Figure S69.  Get High-res Image Gene #16: '8q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'8q gain' versus 'PATHOLOGY_T_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S70.  Gene #16: '8q gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
8Q GAIN MUTATED 27 22 43 2
8Q GAIN WILD-TYPE 435 101 208 13

Figure S70.  Get High-res Image Gene #16: '8q gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'8q gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0137 (Fisher's exact test), Q value = 0.057

Table S71.  Gene #16: '8q gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
8Q GAIN MUTATED 37 11 2
8Q GAIN WILD-TYPE 280 32 4

Figure S71.  Get High-res Image Gene #16: '8q gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'8q gain' versus 'PATHOLOGY_M_STAGE'

P value = 0.0444 (Fisher's exact test), Q value = 0.14

Table S72.  Gene #16: '8q gain' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 542 89
8Q GAIN MUTATED 55 16
8Q GAIN WILD-TYPE 487 73

Figure S72.  Get High-res Image Gene #16: '8q gain' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'8q gain' versus 'HISTOLOGICAL_TYPE'

P value = 0.00117 (Fisher's exact test), Q value = 0.0073

Table S73.  Gene #16: '8q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
8Q GAIN MUTATED 17 56 23
8Q GAIN WILD-TYPE 49 468 246

Figure S73.  Get High-res Image Gene #16: '8q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'8q gain' versus 'YEAR_OF_TOBACCO_SMOKING_ONSET'

P value = 0.0743 (Wilcoxon-test), Q value = 0.2

Table S74.  Gene #16: '8q gain' versus Clinical Feature #11: 'YEAR_OF_TOBACCO_SMOKING_ONSET'

nPatients Mean (Std.Dev)
ALL 67 1973.4 (16.4)
8Q GAIN MUTATED 7 1984.6 (17.1)
8Q GAIN WILD-TYPE 60 1972.1 (16.0)

Figure S74.  Get High-res Image Gene #16: '8q gain' versus Clinical Feature #11: 'YEAR_OF_TOBACCO_SMOKING_ONSET'

'8q gain' versus 'RACE'

P value = 0.0967 (Fisher's exact test), Q value = 0.25

Table S75.  Gene #16: '8q gain' versus Clinical Feature #12: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 2 15 116 702
8Q GAIN MUTATED 0 2 6 86
8Q GAIN WILD-TYPE 2 13 110 616

Figure S75.  Get High-res Image Gene #16: '8q gain' versus Clinical Feature #12: 'RACE'

'9p gain' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00409 (Fisher's exact test), Q value = 0.021

Table S76.  Gene #17: '9p gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
9P GAIN MUTATED 7 9 7 3
9P GAIN WILD-TYPE 441 94 183 97

Figure S76.  Get High-res Image Gene #17: '9p gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'9p gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.00534 (Fisher's exact test), Q value = 0.026

Table S77.  Gene #17: '9p gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
9P GAIN MUTATED 7 9 9 1
9P GAIN WILD-TYPE 455 114 242 14

Figure S77.  Get High-res Image Gene #17: '9p gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'9p gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0352 (Fisher's exact test), Q value = 0.12

Table S78.  Gene #17: '9p gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
9P GAIN MUTATED 13 1 2
9P GAIN WILD-TYPE 304 42 4

Figure S78.  Get High-res Image Gene #17: '9p gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'9p gain' versus 'GENDER'

P value = 0.0107 (Fisher's exact test), Q value = 0.046

Table S79.  Gene #17: '9p gain' versus Clinical Feature #7: 'GENDER'

nPatients FEMALE MALE
ALL 287 572
9P GAIN MUTATED 15 11
9P GAIN WILD-TYPE 272 561

Figure S79.  Get High-res Image Gene #17: '9p gain' versus Clinical Feature #7: 'GENDER'

'9p gain' versus 'HISTOLOGICAL_TYPE'

P value = 4e-05 (Fisher's exact test), Q value = 0.00036

Table S80.  Gene #17: '9p gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
9P GAIN MUTATED 9 14 3
9P GAIN WILD-TYPE 57 510 266

Figure S80.  Get High-res Image Gene #17: '9p gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'9q gain' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00107 (Fisher's exact test), Q value = 0.0068

Table S81.  Gene #18: '9q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
9Q GAIN MUTATED 5 8 6 5
9Q GAIN WILD-TYPE 443 95 184 95

Figure S81.  Get High-res Image Gene #18: '9q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'9q gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.00016 (Fisher's exact test), Q value = 0.0013

Table S82.  Gene #18: '9q gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
9Q GAIN MUTATED 5 8 8 3
9Q GAIN WILD-TYPE 457 115 243 12

Figure S82.  Get High-res Image Gene #18: '9q gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'9q gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0347 (Fisher's exact test), Q value = 0.12

Table S83.  Gene #18: '9q gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
9Q GAIN MUTATED 13 1 2
9Q GAIN WILD-TYPE 304 42 4

Figure S83.  Get High-res Image Gene #18: '9q gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'9q gain' versus 'GENDER'

P value = 0.0455 (Fisher's exact test), Q value = 0.14

Table S84.  Gene #18: '9q gain' versus Clinical Feature #7: 'GENDER'

nPatients FEMALE MALE
ALL 287 572
9Q GAIN MUTATED 13 11
9Q GAIN WILD-TYPE 274 561

Figure S84.  Get High-res Image Gene #18: '9q gain' versus Clinical Feature #7: 'GENDER'

'9q gain' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S85.  Gene #18: '9q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
9Q GAIN MUTATED 9 13 2
9Q GAIN WILD-TYPE 57 511 267

Figure S85.  Get High-res Image Gene #18: '9q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'10p gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.0048 (Fisher's exact test), Q value = 0.025

Table S86.  Gene #19: '10p gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
10P GAIN MUTATED 12 8 6 3
10P GAIN WILD-TYPE 450 115 245 12

Figure S86.  Get High-res Image Gene #19: '10p gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'10p gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0897 (Fisher's exact test), Q value = 0.23

Table S87.  Gene #19: '10p gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
10P GAIN MUTATED 9 4 0
10P GAIN WILD-TYPE 308 39 6

Figure S87.  Get High-res Image Gene #19: '10p gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'10q gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.0493 (Fisher's exact test), Q value = 0.15

Table S88.  Gene #20: '10q gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
10Q GAIN MUTATED 11 5 4 2
10Q GAIN WILD-TYPE 451 118 247 13

Figure S88.  Get High-res Image Gene #20: '10q gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'11p gain' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00541 (Fisher's exact test), Q value = 0.027

Table S89.  Gene #21: '11p gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
11P GAIN MUTATED 18 9 17 12
11P GAIN WILD-TYPE 430 94 173 88

Figure S89.  Get High-res Image Gene #21: '11p gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'11p gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.00259 (Fisher's exact test), Q value = 0.015

Table S90.  Gene #21: '11p gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
11P GAIN MUTATED 18 11 27 1
11P GAIN WILD-TYPE 444 112 224 14

Figure S90.  Get High-res Image Gene #21: '11p gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'11p gain' versus 'PATHOLOGY_M_STAGE'

P value = 0.0379 (Fisher's exact test), Q value = 0.13

Table S91.  Gene #21: '11p gain' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 542 89
11P GAIN MUTATED 32 11
11P GAIN WILD-TYPE 510 78

Figure S91.  Get High-res Image Gene #21: '11p gain' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'11p gain' versus 'HISTOLOGICAL_TYPE'

P value = 4e-05 (Fisher's exact test), Q value = 0.00036

Table S92.  Gene #21: '11p gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
11P GAIN MUTATED 15 31 11
11P GAIN WILD-TYPE 51 493 258

Figure S92.  Get High-res Image Gene #21: '11p gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'11p gain' versus 'NUMBER_PACK_YEARS_SMOKED'

P value = 0.0808 (Wilcoxon-test), Q value = 0.21

Table S93.  Gene #21: '11p gain' versus Clinical Feature #10: 'NUMBER_PACK_YEARS_SMOKED'

nPatients Mean (Std.Dev)
ALL 91 30.8 (26.2)
11P GAIN MUTATED 7 17.3 (16.6)
11P GAIN WILD-TYPE 84 31.9 (26.6)

Figure S93.  Get High-res Image Gene #21: '11p gain' versus Clinical Feature #10: 'NUMBER_PACK_YEARS_SMOKED'

'11q gain' versus 'YEARS_TO_BIRTH'

P value = 0.0556 (Wilcoxon-test), Q value = 0.16

Table S94.  Gene #22: '11q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
11Q GAIN MUTATED 55 57.0 (12.8)
11Q GAIN WILD-TYPE 798 60.3 (12.5)

Figure S94.  Get High-res Image Gene #22: '11q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'11q gain' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.0357 (Fisher's exact test), Q value = 0.12

Table S95.  Gene #22: '11q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
11Q GAIN MUTATED 19 9 16 10
11Q GAIN WILD-TYPE 429 94 174 90

Figure S95.  Get High-res Image Gene #22: '11q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'11q gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.0101 (Fisher's exact test), Q value = 0.044

Table S96.  Gene #22: '11q gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
11Q GAIN MUTATED 19 11 25 0
11Q GAIN WILD-TYPE 443 112 226 15

Figure S96.  Get High-res Image Gene #22: '11q gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'11q gain' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S97.  Gene #22: '11q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
11Q GAIN MUTATED 16 29 10
11Q GAIN WILD-TYPE 50 495 259

Figure S97.  Get High-res Image Gene #22: '11q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'11q gain' versus 'NUMBER_PACK_YEARS_SMOKED'

P value = 0.058 (Wilcoxon-test), Q value = 0.17

Table S98.  Gene #22: '11q gain' versus Clinical Feature #10: 'NUMBER_PACK_YEARS_SMOKED'

nPatients Mean (Std.Dev)
ALL 91 30.8 (26.2)
11Q GAIN MUTATED 8 17.0 (15.3)
11Q GAIN WILD-TYPE 83 32.1 (26.7)

Figure S98.  Get High-res Image Gene #22: '11q gain' versus Clinical Feature #10: 'NUMBER_PACK_YEARS_SMOKED'

'11q gain' versus 'YEAR_OF_TOBACCO_SMOKING_ONSET'

P value = 0.0432 (Wilcoxon-test), Q value = 0.14

Table S99.  Gene #22: '11q gain' versus Clinical Feature #11: 'YEAR_OF_TOBACCO_SMOKING_ONSET'

nPatients Mean (Std.Dev)
ALL 67 1973.4 (16.4)
11Q GAIN MUTATED 6 1985.3 (11.3)
11Q GAIN WILD-TYPE 61 1972.2 (16.4)

Figure S99.  Get High-res Image Gene #22: '11q gain' versus Clinical Feature #11: 'YEAR_OF_TOBACCO_SMOKING_ONSET'

'12p gain' versus 'Time to Death'

P value = 0.0749 (logrank test), Q value = 0.2

Table S100.  Gene #23: '12p gain' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
12P GAIN MUTATED 236 64 0.1 - 194.8 (26.2)
12P GAIN WILD-TYPE 607 147 0.1 - 129.9 (33.3)

Figure S100.  Get High-res Image Gene #23: '12p gain' versus Clinical Feature #1: 'Time to Death'

'12p gain' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.0861 (Fisher's exact test), Q value = 0.22

Table S101.  Gene #23: '12p gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
12P GAIN MUTATED 117 28 53 39
12P GAIN WILD-TYPE 331 75 137 61

Figure S101.  Get High-res Image Gene #23: '12p gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'12p gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0231 (Fisher's exact test), Q value = 0.085

Table S102.  Gene #23: '12p gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
12P GAIN MUTATED 85 20 2
12P GAIN WILD-TYPE 232 23 4

Figure S102.  Get High-res Image Gene #23: '12p gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'12p gain' versus 'PATHOLOGY_M_STAGE'

P value = 0.0123 (Fisher's exact test), Q value = 0.052

Table S103.  Gene #23: '12p gain' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 542 89
12P GAIN MUTATED 129 33
12P GAIN WILD-TYPE 413 56

Figure S103.  Get High-res Image Gene #23: '12p gain' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'12p gain' versus 'GENDER'

P value = 0.00498 (Fisher's exact test), Q value = 0.025

Table S104.  Gene #23: '12p gain' versus Clinical Feature #7: 'GENDER'

nPatients FEMALE MALE
ALL 287 572
12P GAIN MUTATED 64 181
12P GAIN WILD-TYPE 223 391

Figure S104.  Get High-res Image Gene #23: '12p gain' versus Clinical Feature #7: 'GENDER'

'12p gain' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S105.  Gene #23: '12p gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
12P GAIN MUTATED 19 119 107
12P GAIN WILD-TYPE 47 405 162

Figure S105.  Get High-res Image Gene #23: '12p gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'12p gain' versus 'ETHNICITY'

P value = 0.0564 (Fisher's exact test), Q value = 0.16

Table S106.  Gene #23: '12p gain' versus Clinical Feature #13: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 42 597
12P GAIN MUTATED 7 183
12P GAIN WILD-TYPE 35 414

Figure S106.  Get High-res Image Gene #23: '12p gain' versus Clinical Feature #13: 'ETHNICITY'

'12q gain' versus 'Time to Death'

P value = 0.0512 (logrank test), Q value = 0.15

Table S107.  Gene #24: '12q gain' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
12Q GAIN MUTATED 240 66 0.1 - 194.8 (26.2)
12Q GAIN WILD-TYPE 603 145 0.1 - 129.9 (33.5)

Figure S107.  Get High-res Image Gene #24: '12q gain' versus Clinical Feature #1: 'Time to Death'

'12q gain' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.0542 (Fisher's exact test), Q value = 0.16

Table S108.  Gene #24: '12q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
12Q GAIN MUTATED 117 28 56 40
12Q GAIN WILD-TYPE 331 75 134 60

Figure S108.  Get High-res Image Gene #24: '12q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'12q gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0155 (Fisher's exact test), Q value = 0.062

Table S109.  Gene #24: '12q gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
12Q GAIN MUTATED 86 20 3
12Q GAIN WILD-TYPE 231 23 3

Figure S109.  Get High-res Image Gene #24: '12q gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'12q gain' versus 'PATHOLOGY_M_STAGE'

P value = 0.0135 (Fisher's exact test), Q value = 0.056

Table S110.  Gene #24: '12q gain' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 542 89
12Q GAIN MUTATED 132 33
12Q GAIN WILD-TYPE 410 56

Figure S110.  Get High-res Image Gene #24: '12q gain' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'12q gain' versus 'GENDER'

P value = 0.00406 (Fisher's exact test), Q value = 0.021

Table S111.  Gene #24: '12q gain' versus Clinical Feature #7: 'GENDER'

nPatients FEMALE MALE
ALL 287 572
12Q GAIN MUTATED 65 184
12Q GAIN WILD-TYPE 222 388

Figure S111.  Get High-res Image Gene #24: '12q gain' versus Clinical Feature #7: 'GENDER'

'12q gain' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S112.  Gene #24: '12q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
12Q GAIN MUTATED 21 121 107
12Q GAIN WILD-TYPE 45 403 162

Figure S112.  Get High-res Image Gene #24: '12q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'12q gain' versus 'ETHNICITY'

P value = 0.0553 (Fisher's exact test), Q value = 0.16

Table S113.  Gene #24: '12q gain' versus Clinical Feature #13: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 42 597
12Q GAIN MUTATED 7 186
12Q GAIN WILD-TYPE 35 411

Figure S113.  Get High-res Image Gene #24: '12q gain' versus Clinical Feature #13: 'ETHNICITY'

'13q gain' versus 'HISTOLOGICAL_TYPE'

P value = 0.0039 (Fisher's exact test), Q value = 0.021

Table S114.  Gene #25: '13q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
13Q GAIN MUTATED 2 22 27
13Q GAIN WILD-TYPE 64 502 242

Figure S114.  Get High-res Image Gene #25: '13q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'14q gain' versus 'YEARS_TO_BIRTH'

P value = 0.046 (Wilcoxon-test), Q value = 0.14

Table S115.  Gene #26: '14q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
14Q GAIN MUTATED 38 56.4 (12.4)
14Q GAIN WILD-TYPE 815 60.3 (12.6)

Figure S115.  Get High-res Image Gene #26: '14q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'14q gain' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00152 (Fisher's exact test), Q value = 0.0092

Table S116.  Gene #26: '14q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
14Q GAIN MUTATED 12 12 8 7
14Q GAIN WILD-TYPE 436 91 182 93

Figure S116.  Get High-res Image Gene #26: '14q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'14q gain' versus 'PATHOLOGY_T_STAGE'

P value = 4e-04 (Fisher's exact test), Q value = 0.0028

Table S117.  Gene #26: '14q gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
14Q GAIN MUTATED 12 12 12 3
14Q GAIN WILD-TYPE 450 111 239 12

Figure S117.  Get High-res Image Gene #26: '14q gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'14q gain' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S118.  Gene #26: '14q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
14Q GAIN MUTATED 20 16 3
14Q GAIN WILD-TYPE 46 508 266

Figure S118.  Get High-res Image Gene #26: '14q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'14q gain' versus 'YEAR_OF_TOBACCO_SMOKING_ONSET'

P value = 0.0759 (Wilcoxon-test), Q value = 0.21

Table S119.  Gene #26: '14q gain' versus Clinical Feature #11: 'YEAR_OF_TOBACCO_SMOKING_ONSET'

nPatients Mean (Std.Dev)
ALL 67 1973.4 (16.4)
14Q GAIN MUTATED 3 1989.0 (7.0)
14Q GAIN WILD-TYPE 64 1972.7 (16.4)

Figure S119.  Get High-res Image Gene #26: '14q gain' versus Clinical Feature #11: 'YEAR_OF_TOBACCO_SMOKING_ONSET'

'15q gain' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00102 (Fisher's exact test), Q value = 0.0066

Table S120.  Gene #27: '15q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
15Q GAIN MUTATED 17 15 12 8
15Q GAIN WILD-TYPE 431 88 178 92

Figure S120.  Get High-res Image Gene #27: '15q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'15q gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.00306 (Fisher's exact test), Q value = 0.017

Table S121.  Gene #27: '15q gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
15Q GAIN MUTATED 17 15 19 1
15Q GAIN WILD-TYPE 445 108 232 14

Figure S121.  Get High-res Image Gene #27: '15q gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'15q gain' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S122.  Gene #27: '15q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
15Q GAIN MUTATED 21 26 5
15Q GAIN WILD-TYPE 45 498 264

Figure S122.  Get High-res Image Gene #27: '15q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'15q gain' versus 'YEAR_OF_TOBACCO_SMOKING_ONSET'

P value = 0.0601 (Wilcoxon-test), Q value = 0.17

Table S123.  Gene #27: '15q gain' versus Clinical Feature #11: 'YEAR_OF_TOBACCO_SMOKING_ONSET'

nPatients Mean (Std.Dev)
ALL 67 1973.4 (16.4)
15Q GAIN MUTATED 4 1987.5 (12.7)
15Q GAIN WILD-TYPE 63 1972.5 (16.3)

Figure S123.  Get High-res Image Gene #27: '15q gain' versus Clinical Feature #11: 'YEAR_OF_TOBACCO_SMOKING_ONSET'

'16p gain' versus 'Time to Death'

P value = 0.0239 (logrank test), Q value = 0.087

Table S124.  Gene #28: '16p gain' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
16P GAIN MUTATED 261 48 0.1 - 194.8 (27.1)
16P GAIN WILD-TYPE 582 163 0.1 - 129.4 (31.3)

Figure S124.  Get High-res Image Gene #28: '16p gain' versus Clinical Feature #1: 'Time to Death'

'16p gain' versus 'YEARS_TO_BIRTH'

P value = 0.0257 (Wilcoxon-test), Q value = 0.093

Table S125.  Gene #28: '16p gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
16P GAIN MUTATED 268 61.5 (12.3)
16P GAIN WILD-TYPE 585 59.5 (12.6)

Figure S125.  Get High-res Image Gene #28: '16p gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'16p gain' versus 'GENDER'

P value = 0.00499 (Fisher's exact test), Q value = 0.025

Table S126.  Gene #28: '16p gain' versus Clinical Feature #7: 'GENDER'

nPatients FEMALE MALE
ALL 287 572
16P GAIN MUTATED 72 198
16P GAIN WILD-TYPE 215 374

Figure S126.  Get High-res Image Gene #28: '16p gain' versus Clinical Feature #7: 'GENDER'

'16p gain' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S127.  Gene #28: '16p gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
16P GAIN MUTATED 21 106 143
16P GAIN WILD-TYPE 45 418 126

Figure S127.  Get High-res Image Gene #28: '16p gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'16p gain' versus 'RACE'

P value = 0.036 (Fisher's exact test), Q value = 0.12

Table S128.  Gene #28: '16p gain' versus Clinical Feature #12: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 2 15 116 702
16P GAIN MUTATED 2 5 27 229
16P GAIN WILD-TYPE 0 10 89 473

Figure S128.  Get High-res Image Gene #28: '16p gain' versus Clinical Feature #12: 'RACE'

'16q gain' versus 'Time to Death'

P value = 0.00346 (logrank test), Q value = 0.019

Table S129.  Gene #29: '16q gain' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
16Q GAIN MUTATED 249 42 0.1 - 194.8 (27.4)
16Q GAIN WILD-TYPE 594 169 0.1 - 129.4 (31.3)

Figure S129.  Get High-res Image Gene #29: '16q gain' versus Clinical Feature #1: 'Time to Death'

'16q gain' versus 'YEARS_TO_BIRTH'

P value = 0.0618 (Wilcoxon-test), Q value = 0.17

Table S130.  Gene #29: '16q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
16Q GAIN MUTATED 256 61.3 (12.4)
16Q GAIN WILD-TYPE 597 59.6 (12.6)

Figure S130.  Get High-res Image Gene #29: '16q gain' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'16q gain' versus 'GENDER'

P value = 0.0271 (Fisher's exact test), Q value = 0.096

Table S131.  Gene #29: '16q gain' versus Clinical Feature #7: 'GENDER'

nPatients FEMALE MALE
ALL 287 572
16Q GAIN MUTATED 72 186
16Q GAIN WILD-TYPE 215 386

Figure S131.  Get High-res Image Gene #29: '16q gain' versus Clinical Feature #7: 'GENDER'

'16q gain' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S132.  Gene #29: '16q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
16Q GAIN MUTATED 21 98 139
16Q GAIN WILD-TYPE 45 426 130

Figure S132.  Get High-res Image Gene #29: '16q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'16q gain' versus 'RACE'

P value = 0.0819 (Fisher's exact test), Q value = 0.22

Table S133.  Gene #29: '16q gain' versus Clinical Feature #12: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 2 15 116 702
16Q GAIN MUTATED 2 5 28 217
16Q GAIN WILD-TYPE 0 10 88 485

Figure S133.  Get High-res Image Gene #29: '16q gain' versus Clinical Feature #12: 'RACE'

'17p gain' versus 'Time to Death'

P value = 0.0259 (logrank test), Q value = 0.093

Table S134.  Gene #30: '17p gain' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
17P GAIN MUTATED 177 21 0.1 - 194.8 (22.1)
17P GAIN WILD-TYPE 666 190 0.1 - 152.0 (36.0)

Figure S134.  Get High-res Image Gene #30: '17p gain' versus Clinical Feature #1: 'Time to Death'

'17p gain' versus 'NEOPLASM_DISEASESTAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S135.  Gene #30: '17p gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
17P GAIN MUTATED 130 18 24 6
17P GAIN WILD-TYPE 318 85 166 94

Figure S135.  Get High-res Image Gene #30: '17p gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'17p gain' versus 'PATHOLOGY_T_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S136.  Gene #30: '17p gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
17P GAIN MUTATED 133 24 27 2
17P GAIN WILD-TYPE 329 99 224 13

Figure S136.  Get High-res Image Gene #30: '17p gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'17p gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.0158 (Fisher's exact test), Q value = 0.063

Table S137.  Gene #30: '17p gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
17P GAIN MUTATED 32 11 1
17P GAIN WILD-TYPE 285 32 5

Figure S137.  Get High-res Image Gene #30: '17p gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'17p gain' versus 'PATHOLOGY_M_STAGE'

P value = 0.00992 (Fisher's exact test), Q value = 0.044

Table S138.  Gene #30: '17p gain' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 542 89
17P GAIN MUTATED 67 3
17P GAIN WILD-TYPE 475 86

Figure S138.  Get High-res Image Gene #30: '17p gain' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'17p gain' versus 'GENDER'

P value = 0.000608 (Fisher's exact test), Q value = 0.0042

Table S139.  Gene #30: '17p gain' versus Clinical Feature #7: 'GENDER'

nPatients FEMALE MALE
ALL 287 572
17P GAIN MUTATED 43 144
17P GAIN WILD-TYPE 244 428

Figure S139.  Get High-res Image Gene #30: '17p gain' versus Clinical Feature #7: 'GENDER'

'17p gain' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S140.  Gene #30: '17p gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
17P GAIN MUTATED 0 24 163
17P GAIN WILD-TYPE 66 500 106

Figure S140.  Get High-res Image Gene #30: '17p gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'17p gain' versus 'YEAR_OF_TOBACCO_SMOKING_ONSET'

P value = 0.0501 (Wilcoxon-test), Q value = 0.15

Table S141.  Gene #30: '17p gain' versus Clinical Feature #11: 'YEAR_OF_TOBACCO_SMOKING_ONSET'

nPatients Mean (Std.Dev)
ALL 67 1973.4 (16.4)
17P GAIN MUTATED 28 1969.3 (16.3)
17P GAIN WILD-TYPE 39 1976.3 (16.0)

Figure S141.  Get High-res Image Gene #30: '17p gain' versus Clinical Feature #11: 'YEAR_OF_TOBACCO_SMOKING_ONSET'

'17p gain' versus 'RACE'

P value = 0.00596 (Fisher's exact test), Q value = 0.029

Table S142.  Gene #30: '17p gain' versus Clinical Feature #12: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 2 15 116 702
17P GAIN MUTATED 2 6 31 140
17P GAIN WILD-TYPE 0 9 85 562

Figure S142.  Get High-res Image Gene #30: '17p gain' versus Clinical Feature #12: 'RACE'

'17p gain' versus 'ETHNICITY'

P value = 0.0157 (Fisher's exact test), Q value = 0.063

Table S143.  Gene #30: '17p gain' versus Clinical Feature #13: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 42 597
17P GAIN MUTATED 4 158
17P GAIN WILD-TYPE 38 439

Figure S143.  Get High-res Image Gene #30: '17p gain' versus Clinical Feature #13: 'ETHNICITY'

'17q gain' versus 'NEOPLASM_DISEASESTAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S144.  Gene #31: '17q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
17Q GAIN MUTATED 138 19 33 10
17Q GAIN WILD-TYPE 310 84 157 90

Figure S144.  Get High-res Image Gene #31: '17q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'17q gain' versus 'PATHOLOGY_T_STAGE'

P value = 7e-05 (Fisher's exact test), Q value = 6e-04

Table S145.  Gene #31: '17q gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
17Q GAIN MUTATED 141 26 39 2
17Q GAIN WILD-TYPE 321 97 212 13

Figure S145.  Get High-res Image Gene #31: '17q gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'17q gain' versus 'PATHOLOGY_N_STAGE'

P value = 0.00361 (Fisher's exact test), Q value = 0.02

Table S146.  Gene #31: '17q gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
17Q GAIN MUTATED 42 12 3
17Q GAIN WILD-TYPE 275 31 3

Figure S146.  Get High-res Image Gene #31: '17q gain' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'17q gain' versus 'PATHOLOGY_M_STAGE'

P value = 0.0623 (Fisher's exact test), Q value = 0.18

Table S147.  Gene #31: '17q gain' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 542 89
17Q GAIN MUTATED 78 6
17Q GAIN WILD-TYPE 464 83

Figure S147.  Get High-res Image Gene #31: '17q gain' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'17q gain' versus 'GENDER'

P value = 0.0115 (Fisher's exact test), Q value = 0.049

Table S148.  Gene #31: '17q gain' versus Clinical Feature #7: 'GENDER'

nPatients FEMALE MALE
ALL 287 572
17Q GAIN MUTATED 55 155
17Q GAIN WILD-TYPE 232 417

Figure S148.  Get High-res Image Gene #31: '17q gain' versus Clinical Feature #7: 'GENDER'

'17q gain' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S149.  Gene #31: '17q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
17Q GAIN MUTATED 0 30 180
17Q GAIN WILD-TYPE 66 494 89

Figure S149.  Get High-res Image Gene #31: '17q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'17q gain' versus 'RACE'

P value = 0.00612 (Fisher's exact test), Q value = 0.03

Table S150.  Gene #31: '17q gain' versus Clinical Feature #12: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 2 15 116 702
17Q GAIN MUTATED 2 6 36 157
17Q GAIN WILD-TYPE 0 9 80 545

Figure S150.  Get High-res Image Gene #31: '17q gain' versus Clinical Feature #12: 'RACE'

'17q gain' versus 'ETHNICITY'

P value = 0.0492 (Fisher's exact test), Q value = 0.15

Table S151.  Gene #31: '17q gain' versus Clinical Feature #13: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 42 597
17Q GAIN MUTATED 6 173
17Q GAIN WILD-TYPE 36 424

Figure S151.  Get High-res Image Gene #31: '17q gain' versus Clinical Feature #13: 'ETHNICITY'

'18p gain' versus 'Time to Death'

P value = 0.0189 (logrank test), Q value = 0.073

Table S152.  Gene #32: '18p gain' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
18P GAIN MUTATED 54 7 0.5 - 152.0 (44.9)
18P GAIN WILD-TYPE 789 204 0.1 - 194.8 (29.9)

Figure S152.  Get High-res Image Gene #32: '18p gain' versus Clinical Feature #1: 'Time to Death'

'18p gain' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S153.  Gene #32: '18p gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
18P GAIN MUTATED 17 25 12
18P GAIN WILD-TYPE 49 499 257

Figure S153.  Get High-res Image Gene #32: '18p gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'18p gain' versus 'RACE'

P value = 0.0765 (Fisher's exact test), Q value = 0.21

Table S154.  Gene #32: '18p gain' versus Clinical Feature #12: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 2 15 116 702
18P GAIN MUTATED 0 0 2 51
18P GAIN WILD-TYPE 2 15 114 651

Figure S154.  Get High-res Image Gene #32: '18p gain' versus Clinical Feature #12: 'RACE'

'18q gain' versus 'Time to Death'

P value = 0.00639 (logrank test), Q value = 0.03

Table S155.  Gene #33: '18q gain' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
18Q GAIN MUTATED 50 5 0.5 - 152.0 (44.9)
18Q GAIN WILD-TYPE 793 206 0.1 - 194.8 (29.9)

Figure S155.  Get High-res Image Gene #33: '18q gain' versus Clinical Feature #1: 'Time to Death'

'18q gain' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S156.  Gene #33: '18q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
18Q GAIN MUTATED 16 25 9
18Q GAIN WILD-TYPE 50 499 260

Figure S156.  Get High-res Image Gene #33: '18q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'19p gain' versus 'NEOPLASM_DISEASESTAGE'

P value = 3e-05 (Fisher's exact test), Q value = 0.00029

Table S157.  Gene #34: '19p gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
19P GAIN MUTATED 21 15 19 20
19P GAIN WILD-TYPE 427 88 171 80

Figure S157.  Get High-res Image Gene #34: '19p gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'19p gain' versus 'PATHOLOGY_T_STAGE'

P value = 3e-05 (Fisher's exact test), Q value = 0.00029

Table S158.  Gene #34: '19p gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
19P GAIN MUTATED 22 15 35 3
19P GAIN WILD-TYPE 440 108 216 12

Figure S158.  Get High-res Image Gene #34: '19p gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'19p gain' versus 'PATHOLOGY_M_STAGE'

P value = 0.00386 (Fisher's exact test), Q value = 0.021

Table S159.  Gene #34: '19p gain' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 542 89
19P GAIN MUTATED 46 17
19P GAIN WILD-TYPE 496 72

Figure S159.  Get High-res Image Gene #34: '19p gain' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'19p gain' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.08 (Wilcoxon-test), Q value = 0.21

Table S160.  Gene #34: '19p gain' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 115 90.3 (17.6)
19P GAIN MUTATED 10 89.0 (7.4)
19P GAIN WILD-TYPE 105 90.4 (18.3)

Figure S160.  Get High-res Image Gene #34: '19p gain' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'

'19p gain' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S161.  Gene #34: '19p gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
19P GAIN MUTATED 19 52 4
19P GAIN WILD-TYPE 47 472 265

Figure S161.  Get High-res Image Gene #34: '19p gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'19p gain' versus 'RACE'

P value = 0.0012 (Fisher's exact test), Q value = 0.0074

Table S162.  Gene #34: '19p gain' versus Clinical Feature #12: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 2 15 116 702
19P GAIN MUTATED 0 2 1 72
19P GAIN WILD-TYPE 2 13 115 630

Figure S162.  Get High-res Image Gene #34: '19p gain' versus Clinical Feature #12: 'RACE'

'19q gain' versus 'NEOPLASM_DISEASESTAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S163.  Gene #35: '19q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
19Q GAIN MUTATED 22 15 21 20
19Q GAIN WILD-TYPE 426 88 169 80

Figure S163.  Get High-res Image Gene #35: '19q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'19q gain' versus 'PATHOLOGY_T_STAGE'

P value = 5e-05 (Fisher's exact test), Q value = 0.00044

Table S164.  Gene #35: '19q gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
19Q GAIN MUTATED 23 17 36 2
19Q GAIN WILD-TYPE 439 106 215 13

Figure S164.  Get High-res Image Gene #35: '19q gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'19q gain' versus 'PATHOLOGY_M_STAGE'

P value = 0.00121 (Fisher's exact test), Q value = 0.0074

Table S165.  Gene #35: '19q gain' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 542 89
19Q GAIN MUTATED 48 19
19Q GAIN WILD-TYPE 494 70

Figure S165.  Get High-res Image Gene #35: '19q gain' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'19q gain' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.08 (Wilcoxon-test), Q value = 0.21

Table S166.  Gene #35: '19q gain' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 115 90.3 (17.6)
19Q GAIN MUTATED 10 89.0 (7.4)
19Q GAIN WILD-TYPE 105 90.4 (18.3)

Figure S166.  Get High-res Image Gene #35: '19q gain' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'

'19q gain' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S167.  Gene #35: '19q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
19Q GAIN MUTATED 17 57 4
19Q GAIN WILD-TYPE 49 467 265

Figure S167.  Get High-res Image Gene #35: '19q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'19q gain' versus 'RACE'

P value = 0.00089 (Fisher's exact test), Q value = 0.0057

Table S168.  Gene #35: '19q gain' versus Clinical Feature #12: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 2 15 116 702
19Q GAIN MUTATED 0 1 1 76
19Q GAIN WILD-TYPE 2 14 115 626

Figure S168.  Get High-res Image Gene #35: '19q gain' versus Clinical Feature #12: 'RACE'

'20p gain' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.0217 (Fisher's exact test), Q value = 0.081

Table S169.  Gene #36: '20p gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
20P GAIN MUTATED 98 30 55 35
20P GAIN WILD-TYPE 350 73 135 65

Figure S169.  Get High-res Image Gene #36: '20p gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'20p gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.00552 (Fisher's exact test), Q value = 0.027

Table S170.  Gene #36: '20p gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
20P GAIN MUTATED 102 35 77 8
20P GAIN WILD-TYPE 360 88 174 7

Figure S170.  Get High-res Image Gene #36: '20p gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'20p gain' versus 'PATHOLOGY_M_STAGE'

P value = 0.0459 (Fisher's exact test), Q value = 0.14

Table S171.  Gene #36: '20p gain' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 542 89
20P GAIN MUTATED 126 30
20P GAIN WILD-TYPE 416 59

Figure S171.  Get High-res Image Gene #36: '20p gain' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'20p gain' versus 'GENDER'

P value = 0.00176 (Fisher's exact test), Q value = 0.011

Table S172.  Gene #36: '20p gain' versus Clinical Feature #7: 'GENDER'

nPatients FEMALE MALE
ALL 287 572
20P GAIN MUTATED 56 168
20P GAIN WILD-TYPE 231 404

Figure S172.  Get High-res Image Gene #36: '20p gain' versus Clinical Feature #7: 'GENDER'

'20p gain' versus 'HISTOLOGICAL_TYPE'

P value = 0.00047 (Fisher's exact test), Q value = 0.0033

Table S173.  Gene #36: '20p gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
20P GAIN MUTATED 21 112 91
20P GAIN WILD-TYPE 45 412 178

Figure S173.  Get High-res Image Gene #36: '20p gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'20q gain' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.0132 (Fisher's exact test), Q value = 0.055

Table S174.  Gene #37: '20q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
20Q GAIN MUTATED 98 30 58 35
20Q GAIN WILD-TYPE 350 73 132 65

Figure S174.  Get High-res Image Gene #37: '20q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'20q gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.00928 (Fisher's exact test), Q value = 0.041

Table S175.  Gene #37: '20q gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
20Q GAIN MUTATED 103 35 80 7
20Q GAIN WILD-TYPE 359 88 171 8

Figure S175.  Get High-res Image Gene #37: '20q gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'20q gain' versus 'PATHOLOGY_M_STAGE'

P value = 0.0649 (Fisher's exact test), Q value = 0.18

Table S176.  Gene #37: '20q gain' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 542 89
20Q GAIN MUTATED 130 30
20Q GAIN WILD-TYPE 412 59

Figure S176.  Get High-res Image Gene #37: '20q gain' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'20q gain' versus 'GENDER'

P value = 0.00529 (Fisher's exact test), Q value = 0.026

Table S177.  Gene #37: '20q gain' versus Clinical Feature #7: 'GENDER'

nPatients FEMALE MALE
ALL 287 572
20Q GAIN MUTATED 59 169
20Q GAIN WILD-TYPE 228 403

Figure S177.  Get High-res Image Gene #37: '20q gain' versus Clinical Feature #7: 'GENDER'

'20q gain' versus 'HISTOLOGICAL_TYPE'

P value = 0.00032 (Fisher's exact test), Q value = 0.0024

Table S178.  Gene #37: '20q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
20Q GAIN MUTATED 21 114 93
20Q GAIN WILD-TYPE 45 410 176

Figure S178.  Get High-res Image Gene #37: '20q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'21q gain' versus 'RACE'

P value = 0.0618 (Fisher's exact test), Q value = 0.17

Table S179.  Gene #38: '21q gain' versus Clinical Feature #12: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 2 15 116 702
21Q GAIN MUTATED 1 1 5 65
21Q GAIN WILD-TYPE 1 14 111 637

Figure S179.  Get High-res Image Gene #38: '21q gain' versus Clinical Feature #12: 'RACE'

'22q gain' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.0333 (Fisher's exact test), Q value = 0.11

Table S180.  Gene #39: '22q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
22Q GAIN MUTATED 23 12 16 11
22Q GAIN WILD-TYPE 425 91 174 89

Figure S180.  Get High-res Image Gene #39: '22q gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'22q gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.00345 (Fisher's exact test), Q value = 0.019

Table S181.  Gene #39: '22q gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
22Q GAIN MUTATED 23 13 22 4
22Q GAIN WILD-TYPE 439 110 229 11

Figure S181.  Get High-res Image Gene #39: '22q gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'22q gain' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S182.  Gene #39: '22q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
22Q GAIN MUTATED 19 40 3
22Q GAIN WILD-TYPE 47 484 266

Figure S182.  Get High-res Image Gene #39: '22q gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'22q gain' versus 'RACE'

P value = 0.0375 (Fisher's exact test), Q value = 0.12

Table S183.  Gene #39: '22q gain' versus Clinical Feature #12: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 2 15 116 702
22Q GAIN MUTATED 0 1 2 59
22Q GAIN WILD-TYPE 2 14 114 643

Figure S183.  Get High-res Image Gene #39: '22q gain' versus Clinical Feature #12: 'RACE'

'xp gain' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00394 (Fisher's exact test), Q value = 0.021

Table S184.  Gene #40: 'xp gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
XP GAIN MUTATED 73 11 12 14
XP GAIN WILD-TYPE 375 92 178 86

Figure S184.  Get High-res Image Gene #40: 'xp gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'xp gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.0167 (Fisher's exact test), Q value = 0.066

Table S185.  Gene #40: 'xp gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
XP GAIN MUTATED 75 16 21 3
XP GAIN WILD-TYPE 387 107 230 12

Figure S185.  Get High-res Image Gene #40: 'xp gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'xp gain' versus 'GENDER'

P value = 0.0203 (Fisher's exact test), Q value = 0.077

Table S186.  Gene #40: 'xp gain' versus Clinical Feature #7: 'GENDER'

nPatients FEMALE MALE
ALL 287 572
XP GAIN MUTATED 28 89
XP GAIN WILD-TYPE 259 483

Figure S186.  Get High-res Image Gene #40: 'xp gain' versus Clinical Feature #7: 'GENDER'

'xp gain' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00762 (Wilcoxon-test), Q value = 0.035

Table S187.  Gene #40: 'xp gain' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 115 90.3 (17.6)
XP GAIN MUTATED 23 96.1 (7.8)
XP GAIN WILD-TYPE 92 88.8 (19.0)

Figure S187.  Get High-res Image Gene #40: 'xp gain' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'

'xp gain' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S188.  Gene #40: 'xp gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
XP GAIN MUTATED 7 29 81
XP GAIN WILD-TYPE 59 495 188

Figure S188.  Get High-res Image Gene #40: 'xp gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'xp gain' versus 'YEAR_OF_TOBACCO_SMOKING_ONSET'

P value = 0.0377 (Wilcoxon-test), Q value = 0.12

Table S189.  Gene #40: 'xp gain' versus Clinical Feature #11: 'YEAR_OF_TOBACCO_SMOKING_ONSET'

nPatients Mean (Std.Dev)
ALL 67 1973.4 (16.4)
XP GAIN MUTATED 13 1966.0 (14.6)
XP GAIN WILD-TYPE 54 1975.2 (16.4)

Figure S189.  Get High-res Image Gene #40: 'xp gain' versus Clinical Feature #11: 'YEAR_OF_TOBACCO_SMOKING_ONSET'

'xp gain' versus 'RACE'

P value = 0.0286 (Fisher's exact test), Q value = 0.1

Table S190.  Gene #40: 'xp gain' versus Clinical Feature #12: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 2 15 116 702
XP GAIN MUTATED 2 3 15 91
XP GAIN WILD-TYPE 0 12 101 611

Figure S190.  Get High-res Image Gene #40: 'xp gain' versus Clinical Feature #12: 'RACE'

'xq gain' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00412 (Fisher's exact test), Q value = 0.021

Table S191.  Gene #41: 'xq gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
XQ GAIN MUTATED 73 11 12 14
XQ GAIN WILD-TYPE 375 92 178 86

Figure S191.  Get High-res Image Gene #41: 'xq gain' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'xq gain' versus 'PATHOLOGY_T_STAGE'

P value = 0.0386 (Fisher's exact test), Q value = 0.13

Table S192.  Gene #41: 'xq gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
XQ GAIN MUTATED 75 17 22 2
XQ GAIN WILD-TYPE 387 106 229 13

Figure S192.  Get High-res Image Gene #41: 'xq gain' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'xq gain' versus 'GENDER'

P value = 0.0352 (Fisher's exact test), Q value = 0.12

Table S193.  Gene #41: 'xq gain' versus Clinical Feature #7: 'GENDER'

nPatients FEMALE MALE
ALL 287 572
XQ GAIN MUTATED 29 89
XQ GAIN WILD-TYPE 258 483

Figure S193.  Get High-res Image Gene #41: 'xq gain' versus Clinical Feature #7: 'GENDER'

'xq gain' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00762 (Wilcoxon-test), Q value = 0.035

Table S194.  Gene #41: 'xq gain' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 115 90.3 (17.6)
XQ GAIN MUTATED 23 96.1 (7.8)
XQ GAIN WILD-TYPE 92 88.8 (19.0)

Figure S194.  Get High-res Image Gene #41: 'xq gain' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'

'xq gain' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S195.  Gene #41: 'xq gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
XQ GAIN MUTATED 7 29 82
XQ GAIN WILD-TYPE 59 495 187

Figure S195.  Get High-res Image Gene #41: 'xq gain' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'xq gain' versus 'RACE'

P value = 0.0373 (Fisher's exact test), Q value = 0.12

Table S196.  Gene #41: 'xq gain' versus Clinical Feature #12: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 2 15 116 702
XQ GAIN MUTATED 2 2 17 91
XQ GAIN WILD-TYPE 0 13 99 611

Figure S196.  Get High-res Image Gene #41: 'xq gain' versus Clinical Feature #12: 'RACE'

'1p loss' versus 'Time to Death'

P value = 0.0958 (logrank test), Q value = 0.24

Table S197.  Gene #42: '1p loss' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
1P LOSS MUTATED 138 34 0.1 - 152.0 (44.0)
1P LOSS WILD-TYPE 705 177 0.1 - 194.8 (28.8)

Figure S197.  Get High-res Image Gene #42: '1p loss' versus Clinical Feature #1: 'Time to Death'

'1p loss' versus 'YEARS_TO_BIRTH'

P value = 0.0149 (Wilcoxon-test), Q value = 0.06

Table S198.  Gene #42: '1p loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
1P LOSS MUTATED 139 57.4 (14.2)
1P LOSS WILD-TYPE 714 60.6 (12.2)

Figure S198.  Get High-res Image Gene #42: '1p loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'1p loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 4e-05 (Fisher's exact test), Q value = 0.00036

Table S199.  Gene #42: '1p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
1P LOSS MUTATED 55 34 33 14
1P LOSS WILD-TYPE 393 69 157 86

Figure S199.  Get High-res Image Gene #42: '1p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'1p loss' versus 'PATHOLOGY_T_STAGE'

P value = 9e-05 (Fisher's exact test), Q value = 0.00073

Table S200.  Gene #42: '1p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
1P LOSS MUTATED 59 36 38 5
1P LOSS WILD-TYPE 403 87 213 10

Figure S200.  Get High-res Image Gene #42: '1p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'1p loss' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S201.  Gene #42: '1p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
1P LOSS MUTATED 53 59 27
1P LOSS WILD-TYPE 13 465 242

Figure S201.  Get High-res Image Gene #42: '1p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'1p loss' versus 'ETHNICITY'

P value = 0.0679 (Fisher's exact test), Q value = 0.19

Table S202.  Gene #42: '1p loss' versus Clinical Feature #13: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 42 597
1P LOSS MUTATED 10 80
1P LOSS WILD-TYPE 32 517

Figure S202.  Get High-res Image Gene #42: '1p loss' versus Clinical Feature #13: 'ETHNICITY'

'1q loss' versus 'Time to Death'

P value = 0.0224 (logrank test), Q value = 0.083

Table S203.  Gene #43: '1q loss' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
1Q LOSS MUTATED 106 23 0.1 - 152.0 (47.5)
1Q LOSS WILD-TYPE 737 188 0.1 - 194.8 (29.0)

Figure S203.  Get High-res Image Gene #43: '1q loss' versus Clinical Feature #1: 'Time to Death'

'1q loss' versus 'YEARS_TO_BIRTH'

P value = 0.000214 (Wilcoxon-test), Q value = 0.0016

Table S204.  Gene #43: '1q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
1Q LOSS MUTATED 107 55.4 (14.0)
1Q LOSS WILD-TYPE 746 60.8 (12.2)

Figure S204.  Get High-res Image Gene #43: '1q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'1q loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 3e-05 (Fisher's exact test), Q value = 0.00029

Table S205.  Gene #43: '1q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
1Q LOSS MUTATED 42 30 22 10
1Q LOSS WILD-TYPE 406 73 168 90

Figure S205.  Get High-res Image Gene #43: '1q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'1q loss' versus 'PATHOLOGY_T_STAGE'

P value = 9e-05 (Fisher's exact test), Q value = 0.00073

Table S206.  Gene #43: '1q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
1Q LOSS MUTATED 44 30 28 4
1Q LOSS WILD-TYPE 418 93 223 11

Figure S206.  Get High-res Image Gene #43: '1q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'1q loss' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S207.  Gene #43: '1q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
1Q LOSS MUTATED 52 37 18
1Q LOSS WILD-TYPE 14 487 251

Figure S207.  Get High-res Image Gene #43: '1q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'2p loss' versus 'Time to Death'

P value = 0.00263 (logrank test), Q value = 0.015

Table S208.  Gene #44: '2p loss' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
2P LOSS MUTATED 61 11 2.5 - 152.0 (59.1)
2P LOSS WILD-TYPE 782 200 0.1 - 194.8 (28.8)

Figure S208.  Get High-res Image Gene #44: '2p loss' versus Clinical Feature #1: 'Time to Death'

'2p loss' versus 'YEARS_TO_BIRTH'

P value = 1.82e-05 (Wilcoxon-test), Q value = 0.00019

Table S209.  Gene #44: '2p loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
2P LOSS MUTATED 62 52.9 (14.1)
2P LOSS WILD-TYPE 791 60.7 (12.3)

Figure S209.  Get High-res Image Gene #44: '2p loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'2p loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S210.  Gene #44: '2p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
2P LOSS MUTATED 20 24 14 4
2P LOSS WILD-TYPE 428 79 176 96

Figure S210.  Get High-res Image Gene #44: '2p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'2p loss' versus 'PATHOLOGY_T_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S211.  Gene #44: '2p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
2P LOSS MUTATED 20 24 17 1
2P LOSS WILD-TYPE 442 99 234 14

Figure S211.  Get High-res Image Gene #44: '2p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'2p loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0782 (Fisher's exact test), Q value = 0.21

Table S212.  Gene #44: '2p loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
2P LOSS MUTATED 35 2 2
2P LOSS WILD-TYPE 282 41 4

Figure S212.  Get High-res Image Gene #44: '2p loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'2p loss' versus 'PATHOLOGY_M_STAGE'

P value = 0.0702 (Fisher's exact test), Q value = 0.19

Table S213.  Gene #44: '2p loss' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 542 89
2P LOSS MUTATED 42 2
2P LOSS WILD-TYPE 500 87

Figure S213.  Get High-res Image Gene #44: '2p loss' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'2p loss' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S214.  Gene #44: '2p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
2P LOSS MUTATED 46 14 3
2P LOSS WILD-TYPE 20 510 266

Figure S214.  Get High-res Image Gene #44: '2p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'2q loss' versus 'Time to Death'

P value = 0.00359 (logrank test), Q value = 0.02

Table S215.  Gene #45: '2q loss' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
2Q LOSS MUTATED 60 11 2.5 - 152.0 (58.2)
2Q LOSS WILD-TYPE 783 200 0.1 - 194.8 (28.8)

Figure S215.  Get High-res Image Gene #45: '2q loss' versus Clinical Feature #1: 'Time to Death'

'2q loss' versus 'YEARS_TO_BIRTH'

P value = 1.04e-05 (Wilcoxon-test), Q value = 0.00011

Table S216.  Gene #45: '2q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
2Q LOSS MUTATED 61 52.7 (14.1)
2Q LOSS WILD-TYPE 792 60.7 (12.3)

Figure S216.  Get High-res Image Gene #45: '2q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'2q loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S217.  Gene #45: '2q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
2Q LOSS MUTATED 19 24 14 4
2Q LOSS WILD-TYPE 429 79 176 96

Figure S217.  Get High-res Image Gene #45: '2q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'2q loss' versus 'PATHOLOGY_T_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S218.  Gene #45: '2q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
2Q LOSS MUTATED 19 24 17 1
2Q LOSS WILD-TYPE 443 99 234 14

Figure S218.  Get High-res Image Gene #45: '2q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'2q loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0767 (Fisher's exact test), Q value = 0.21

Table S219.  Gene #45: '2q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
2Q LOSS MUTATED 35 2 2
2Q LOSS WILD-TYPE 282 41 4

Figure S219.  Get High-res Image Gene #45: '2q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'2q loss' versus 'PATHOLOGY_M_STAGE'

P value = 0.0699 (Fisher's exact test), Q value = 0.19

Table S220.  Gene #45: '2q loss' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 542 89
2Q LOSS MUTATED 41 2
2Q LOSS WILD-TYPE 501 87

Figure S220.  Get High-res Image Gene #45: '2q loss' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'2q loss' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S221.  Gene #45: '2q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
2Q LOSS MUTATED 46 14 2
2Q LOSS WILD-TYPE 20 510 267

Figure S221.  Get High-res Image Gene #45: '2q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'3p loss' versus 'Time to Death'

P value = 0.00497 (logrank test), Q value = 0.025

Table S222.  Gene #46: '3p loss' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
3P LOSS MUTATED 408 127 0.1 - 141.7 (36.8)
3P LOSS WILD-TYPE 435 84 0.1 - 194.8 (26.4)

Figure S222.  Get High-res Image Gene #46: '3p loss' versus Clinical Feature #1: 'Time to Death'

'3p loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00032 (Fisher's exact test), Q value = 0.0024

Table S223.  Gene #46: '3p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
3P LOSS MUTATED 190 50 115 54
3P LOSS WILD-TYPE 258 53 75 46

Figure S223.  Get High-res Image Gene #46: '3p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'3p loss' versus 'PATHOLOGY_T_STAGE'

P value = 8e-05 (Fisher's exact test), Q value = 0.00067

Table S224.  Gene #46: '3p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
3P LOSS MUTATED 194 62 149 4
3P LOSS WILD-TYPE 268 61 102 11

Figure S224.  Get High-res Image Gene #46: '3p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'3p loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0522 (Fisher's exact test), Q value = 0.15

Table S225.  Gene #46: '3p loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
3P LOSS MUTATED 176 18 1
3P LOSS WILD-TYPE 141 25 5

Figure S225.  Get High-res Image Gene #46: '3p loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'3p loss' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S226.  Gene #46: '3p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
3P LOSS MUTATED 9 379 21
3P LOSS WILD-TYPE 57 145 248

Figure S226.  Get High-res Image Gene #46: '3p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'3p loss' versus 'YEAR_OF_TOBACCO_SMOKING_ONSET'

P value = 0.0273 (Wilcoxon-test), Q value = 0.097

Table S227.  Gene #46: '3p loss' versus Clinical Feature #11: 'YEAR_OF_TOBACCO_SMOKING_ONSET'

nPatients Mean (Std.Dev)
ALL 67 1973.4 (16.4)
3P LOSS MUTATED 14 1981.8 (19.4)
3P LOSS WILD-TYPE 53 1971.2 (14.9)

Figure S227.  Get High-res Image Gene #46: '3p loss' versus Clinical Feature #11: 'YEAR_OF_TOBACCO_SMOKING_ONSET'

'3p loss' versus 'RACE'

P value = 4e-04 (Fisher's exact test), Q value = 0.0028

Table S228.  Gene #46: '3p loss' versus Clinical Feature #12: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 2 15 116 702
3P LOSS MUTATED 0 6 37 359
3P LOSS WILD-TYPE 2 9 79 343

Figure S228.  Get High-res Image Gene #46: '3p loss' versus Clinical Feature #12: 'RACE'

'3q loss' versus 'YEARS_TO_BIRTH'

P value = 0.0298 (Wilcoxon-test), Q value = 0.1

Table S229.  Gene #47: '3q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
3Q LOSS MUTATED 122 62.6 (13.2)
3Q LOSS WILD-TYPE 731 59.7 (12.4)

Figure S229.  Get High-res Image Gene #47: '3q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'3q loss' versus 'GENDER'

P value = 0.0293 (Fisher's exact test), Q value = 0.1

Table S230.  Gene #47: '3q loss' versus Clinical Feature #7: 'GENDER'

nPatients FEMALE MALE
ALL 287 572
3Q LOSS MUTATED 30 92
3Q LOSS WILD-TYPE 257 480

Figure S230.  Get High-res Image Gene #47: '3q loss' versus Clinical Feature #7: 'GENDER'

'3q loss' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S231.  Gene #47: '3q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
3Q LOSS MUTATED 8 108 6
3Q LOSS WILD-TYPE 58 416 263

Figure S231.  Get High-res Image Gene #47: '3q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'3q loss' versus 'RACE'

P value = 0.0236 (Fisher's exact test), Q value = 0.087

Table S232.  Gene #47: '3q loss' versus Clinical Feature #12: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 2 15 116 702
3Q LOSS MUTATED 0 1 7 111
3Q LOSS WILD-TYPE 2 14 109 591

Figure S232.  Get High-res Image Gene #47: '3q loss' versus Clinical Feature #12: 'RACE'

'4p loss' versus 'Time to Death'

P value = 2.7e-10 (logrank test), Q value = 9.6e-08

Table S233.  Gene #48: '4p loss' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
4P LOSS MUTATED 95 46 0.1 - 90.3 (22.3)
4P LOSS WILD-TYPE 748 165 0.1 - 194.8 (30.7)

Figure S233.  Get High-res Image Gene #48: '4p loss' versus Clinical Feature #1: 'Time to Death'

'4p loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S234.  Gene #48: '4p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
4P LOSS MUTATED 25 7 41 21
4P LOSS WILD-TYPE 423 96 149 79

Figure S234.  Get High-res Image Gene #48: '4p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'4p loss' versus 'PATHOLOGY_T_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S235.  Gene #48: '4p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
4P LOSS MUTATED 27 10 53 5
4P LOSS WILD-TYPE 435 113 198 10

Figure S235.  Get High-res Image Gene #48: '4p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'4p loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.00654 (Fisher's exact test), Q value = 0.031

Table S236.  Gene #48: '4p loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
4P LOSS MUTATED 36 13 0
4P LOSS WILD-TYPE 281 30 6

Figure S236.  Get High-res Image Gene #48: '4p loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'4p loss' versus 'PATHOLOGY_M_STAGE'

P value = 0.0148 (Fisher's exact test), Q value = 0.06

Table S237.  Gene #48: '4p loss' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 542 89
4P LOSS MUTATED 61 19
4P LOSS WILD-TYPE 481 70

Figure S237.  Get High-res Image Gene #48: '4p loss' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'4p loss' versus 'GENDER'

P value = 0.0845 (Fisher's exact test), Q value = 0.22

Table S238.  Gene #48: '4p loss' versus Clinical Feature #7: 'GENDER'

nPatients FEMALE MALE
ALL 287 572
4P LOSS MUTATED 40 56
4P LOSS WILD-TYPE 247 516

Figure S238.  Get High-res Image Gene #48: '4p loss' versus Clinical Feature #7: 'GENDER'

'4p loss' versus 'HISTOLOGICAL_TYPE'

P value = 0.00177 (Fisher's exact test), Q value = 0.011

Table S239.  Gene #48: '4p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
4P LOSS MUTATED 1 72 23
4P LOSS WILD-TYPE 65 452 246

Figure S239.  Get High-res Image Gene #48: '4p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'4q loss' versus 'Time to Death'

P value = 1.01e-11 (logrank test), Q value = 1.1e-08

Table S240.  Gene #49: '4q loss' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
4Q LOSS MUTATED 89 44 0.1 - 90.3 (19.7)
4Q LOSS WILD-TYPE 754 167 0.1 - 194.8 (31.1)

Figure S240.  Get High-res Image Gene #49: '4q loss' versus Clinical Feature #1: 'Time to Death'

'4q loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S241.  Gene #49: '4q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
4Q LOSS MUTATED 20 7 38 23
4Q LOSS WILD-TYPE 428 96 152 77

Figure S241.  Get High-res Image Gene #49: '4q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'4q loss' versus 'PATHOLOGY_T_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S242.  Gene #49: '4q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
4Q LOSS MUTATED 22 11 50 6
4Q LOSS WILD-TYPE 440 112 201 9

Figure S242.  Get High-res Image Gene #49: '4q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'4q loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.00625 (Fisher's exact test), Q value = 0.03

Table S243.  Gene #49: '4q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
4Q LOSS MUTATED 31 12 0
4Q LOSS WILD-TYPE 286 31 6

Figure S243.  Get High-res Image Gene #49: '4q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'4q loss' versus 'PATHOLOGY_M_STAGE'

P value = 0.000649 (Fisher's exact test), Q value = 0.0044

Table S244.  Gene #49: '4q loss' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 542 89
4Q LOSS MUTATED 54 21
4Q LOSS WILD-TYPE 488 68

Figure S244.  Get High-res Image Gene #49: '4q loss' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'4q loss' versus 'HISTOLOGICAL_TYPE'

P value = 0.00804 (Fisher's exact test), Q value = 0.036

Table S245.  Gene #49: '4q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
4Q LOSS MUTATED 1 65 24
4Q LOSS WILD-TYPE 65 459 245

Figure S245.  Get High-res Image Gene #49: '4q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'5p loss' versus 'Time to Death'

P value = 0.048 (logrank test), Q value = 0.15

Table S246.  Gene #50: '5p loss' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
5P LOSS MUTATED 23 11 2.8 - 152.0 (24.8)
5P LOSS WILD-TYPE 820 200 0.1 - 194.8 (30.6)

Figure S246.  Get High-res Image Gene #50: '5p loss' versus Clinical Feature #1: 'Time to Death'

'5p loss' versus 'YEARS_TO_BIRTH'

P value = 0.00268 (Wilcoxon-test), Q value = 0.015

Table S247.  Gene #50: '5p loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
5P LOSS MUTATED 24 51.3 (14.5)
5P LOSS WILD-TYPE 829 60.4 (12.4)

Figure S247.  Get High-res Image Gene #50: '5p loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'5p loss' versus 'NEOPLASM_DISEASESTAGE'

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

Table S248.  Gene #50: '5p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
5P LOSS MUTATED 2 9 5 7
5P LOSS WILD-TYPE 446 94 185 93

Figure S248.  Get High-res Image Gene #50: '5p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'5p loss' versus 'PATHOLOGY_T_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S249.  Gene #50: '5p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
5P LOSS MUTATED 2 10 10 2
5P LOSS WILD-TYPE 460 113 241 13

Figure S249.  Get High-res Image Gene #50: '5p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'5p loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0147 (Fisher's exact test), Q value = 0.06

Table S250.  Gene #50: '5p loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
5P LOSS MUTATED 12 3 2
5P LOSS WILD-TYPE 305 40 4

Figure S250.  Get High-res Image Gene #50: '5p loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'5p loss' versus 'GENDER'

P value = 0.0455 (Fisher's exact test), Q value = 0.14

Table S251.  Gene #50: '5p loss' versus Clinical Feature #7: 'GENDER'

nPatients FEMALE MALE
ALL 287 572
5P LOSS MUTATED 13 11
5P LOSS WILD-TYPE 274 561

Figure S251.  Get High-res Image Gene #50: '5p loss' versus Clinical Feature #7: 'GENDER'

'5p loss' versus 'HISTOLOGICAL_TYPE'

P value = 3e-05 (Fisher's exact test), Q value = 0.00029

Table S252.  Gene #50: '5p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
5P LOSS MUTATED 10 7 7
5P LOSS WILD-TYPE 56 517 262

Figure S252.  Get High-res Image Gene #50: '5p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'5p loss' versus 'NUMBER_PACK_YEARS_SMOKED'

P value = 0.0407 (Wilcoxon-test), Q value = 0.13

Table S253.  Gene #50: '5p loss' versus Clinical Feature #10: 'NUMBER_PACK_YEARS_SMOKED'

nPatients Mean (Std.Dev)
ALL 91 30.8 (26.2)
5P LOSS MUTATED 4 12.2 (15.6)
5P LOSS WILD-TYPE 87 31.6 (26.4)

Figure S253.  Get High-res Image Gene #50: '5p loss' versus Clinical Feature #10: 'NUMBER_PACK_YEARS_SMOKED'

'5p loss' versus 'ETHNICITY'

P value = 0.0942 (Fisher's exact test), Q value = 0.24

Table S254.  Gene #50: '5p loss' versus Clinical Feature #13: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 42 597
5P LOSS MUTATED 3 14
5P LOSS WILD-TYPE 39 583

Figure S254.  Get High-res Image Gene #50: '5p loss' versus Clinical Feature #13: 'ETHNICITY'

'5q loss' versus 'YEARS_TO_BIRTH'

P value = 0.000196 (Wilcoxon-test), Q value = 0.0015

Table S255.  Gene #51: '5q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
5Q LOSS MUTATED 22 48.5 (15.1)
5Q LOSS WILD-TYPE 831 60.4 (12.4)

Figure S255.  Get High-res Image Gene #51: '5q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'5q loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 3e-05 (Fisher's exact test), Q value = 0.00029

Table S256.  Gene #51: '5q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
5Q LOSS MUTATED 2 9 6 4
5Q LOSS WILD-TYPE 446 94 184 96

Figure S256.  Get High-res Image Gene #51: '5q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'5q loss' versus 'PATHOLOGY_T_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S257.  Gene #51: '5q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
5Q LOSS MUTATED 2 9 9 2
5Q LOSS WILD-TYPE 460 114 242 13

Figure S257.  Get High-res Image Gene #51: '5q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'5q loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0392 (Fisher's exact test), Q value = 0.13

Table S258.  Gene #51: '5q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
5Q LOSS MUTATED 10 4 1
5Q LOSS WILD-TYPE 307 39 5

Figure S258.  Get High-res Image Gene #51: '5q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'5q loss' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S259.  Gene #51: '5q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
5Q LOSS MUTATED 10 5 7
5Q LOSS WILD-TYPE 56 519 262

Figure S259.  Get High-res Image Gene #51: '5q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'5q loss' versus 'NUMBER_PACK_YEARS_SMOKED'

P value = 0.0407 (Wilcoxon-test), Q value = 0.13

Table S260.  Gene #51: '5q loss' versus Clinical Feature #10: 'NUMBER_PACK_YEARS_SMOKED'

nPatients Mean (Std.Dev)
ALL 91 30.8 (26.2)
5Q LOSS MUTATED 4 12.2 (15.6)
5Q LOSS WILD-TYPE 87 31.6 (26.4)

Figure S260.  Get High-res Image Gene #51: '5q loss' versus Clinical Feature #10: 'NUMBER_PACK_YEARS_SMOKED'

'5q loss' versus 'ETHNICITY'

P value = 0.0691 (Fisher's exact test), Q value = 0.19

Table S261.  Gene #51: '5q loss' versus Clinical Feature #13: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 42 597
5Q LOSS MUTATED 3 12
5Q LOSS WILD-TYPE 39 585

Figure S261.  Get High-res Image Gene #51: '5q loss' versus Clinical Feature #13: 'ETHNICITY'

'6p loss' versus 'YEARS_TO_BIRTH'

P value = 0.0414 (Wilcoxon-test), Q value = 0.13

Table S262.  Gene #52: '6p loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
6P LOSS MUTATED 168 57.8 (14.6)
6P LOSS WILD-TYPE 685 60.7 (12.0)

Figure S262.  Get High-res Image Gene #52: '6p loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'6p loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S263.  Gene #52: '6p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
6P LOSS MUTATED 59 36 47 27
6P LOSS WILD-TYPE 389 67 143 73

Figure S263.  Get High-res Image Gene #52: '6p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'6p loss' versus 'PATHOLOGY_T_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S264.  Gene #52: '6p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
6P LOSS MUTATED 60 39 66 5
6P LOSS WILD-TYPE 402 84 185 10

Figure S264.  Get High-res Image Gene #52: '6p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'6p loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0452 (Fisher's exact test), Q value = 0.14

Table S265.  Gene #52: '6p loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
6P LOSS MUTATED 72 12 4
6P LOSS WILD-TYPE 245 31 2

Figure S265.  Get High-res Image Gene #52: '6p loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'6p loss' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0911 (Wilcoxon-test), Q value = 0.23

Table S266.  Gene #52: '6p loss' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 115 90.3 (17.6)
6P LOSS MUTATED 24 84.2 (26.9)
6P LOSS WILD-TYPE 91 91.9 (14.0)

Figure S266.  Get High-res Image Gene #52: '6p loss' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'

'6p loss' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S267.  Gene #52: '6p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
6P LOSS MUTATED 50 101 19
6P LOSS WILD-TYPE 16 423 250

Figure S267.  Get High-res Image Gene #52: '6p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'6p loss' versus 'RACE'

P value = 0.00029 (Fisher's exact test), Q value = 0.0022

Table S268.  Gene #52: '6p loss' versus Clinical Feature #12: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 2 15 116 702
6P LOSS MUTATED 0 4 8 151
6P LOSS WILD-TYPE 2 11 108 551

Figure S268.  Get High-res Image Gene #52: '6p loss' versus Clinical Feature #12: 'RACE'

'6q loss' versus 'Time to Death'

P value = 0.0866 (logrank test), Q value = 0.23

Table S269.  Gene #53: '6q loss' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
6Q LOSS MUTATED 202 48 0.1 - 152.0 (40.4)
6Q LOSS WILD-TYPE 641 163 0.1 - 194.8 (28.2)

Figure S269.  Get High-res Image Gene #53: '6q loss' versus Clinical Feature #1: 'Time to Death'

'6q loss' versus 'YEARS_TO_BIRTH'

P value = 0.0432 (Wilcoxon-test), Q value = 0.14

Table S270.  Gene #53: '6q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
6Q LOSS MUTATED 202 58.1 (14.0)
6Q LOSS WILD-TYPE 651 60.7 (12.0)

Figure S270.  Get High-res Image Gene #53: '6q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'6q loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 5e-05 (Fisher's exact test), Q value = 0.00044

Table S271.  Gene #53: '6q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
6Q LOSS MUTATED 82 40 50 31
6Q LOSS WILD-TYPE 366 63 140 69

Figure S271.  Get High-res Image Gene #53: '6q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'6q loss' versus 'PATHOLOGY_T_STAGE'

P value = 4e-05 (Fisher's exact test), Q value = 0.00036

Table S272.  Gene #53: '6q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
6Q LOSS MUTATED 82 42 73 7
6Q LOSS WILD-TYPE 380 81 178 8

Figure S272.  Get High-res Image Gene #53: '6q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'6q loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.044 (Fisher's exact test), Q value = 0.14

Table S273.  Gene #53: '6q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
6Q LOSS MUTATED 82 15 4
6Q LOSS WILD-TYPE 235 28 2

Figure S273.  Get High-res Image Gene #53: '6q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'6q loss' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S274.  Gene #53: '6q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
6Q LOSS MUTATED 51 129 24
6Q LOSS WILD-TYPE 15 395 245

Figure S274.  Get High-res Image Gene #53: '6q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'6q loss' versus 'RACE'

P value = 0.00039 (Fisher's exact test), Q value = 0.0028

Table S275.  Gene #53: '6q loss' versus Clinical Feature #12: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 2 15 116 702
6Q LOSS MUTATED 0 6 12 178
6Q LOSS WILD-TYPE 2 9 104 524

Figure S275.  Get High-res Image Gene #53: '6q loss' versus Clinical Feature #12: 'RACE'

'7p loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0487 (Fisher's exact test), Q value = 0.15

Table S276.  Gene #54: '7p loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
7P LOSS MUTATED 1 2 0
7P LOSS WILD-TYPE 316 41 6

Figure S276.  Get High-res Image Gene #54: '7p loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'7q loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0498 (Fisher's exact test), Q value = 0.15

Table S277.  Gene #55: '7q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
7Q LOSS MUTATED 1 2 0
7Q LOSS WILD-TYPE 316 41 6

Figure S277.  Get High-res Image Gene #55: '7q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'8p loss' versus 'Time to Death'

P value = 0.0234 (logrank test), Q value = 0.086

Table S278.  Gene #56: '8p loss' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
8P LOSS MUTATED 161 54 0.1 - 137.1 (36.5)
8P LOSS WILD-TYPE 682 157 0.1 - 194.8 (29.4)

Figure S278.  Get High-res Image Gene #56: '8p loss' versus Clinical Feature #1: 'Time to Death'

'8p loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.0253 (Fisher's exact test), Q value = 0.092

Table S279.  Gene #56: '8p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
8P LOSS MUTATED 70 21 43 27
8P LOSS WILD-TYPE 378 82 147 73

Figure S279.  Get High-res Image Gene #56: '8p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'8p loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.021 (Fisher's exact test), Q value = 0.079

Table S280.  Gene #56: '8p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
8P LOSS MUTATED 72 23 62 4
8P LOSS WILD-TYPE 390 100 189 11

Figure S280.  Get High-res Image Gene #56: '8p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'8p loss' versus 'PATHOLOGY_M_STAGE'

P value = 0.058 (Fisher's exact test), Q value = 0.17

Table S281.  Gene #56: '8p loss' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 542 89
8P LOSS MUTATED 119 28
8P LOSS WILD-TYPE 423 61

Figure S281.  Get High-res Image Gene #56: '8p loss' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'8p loss' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S282.  Gene #56: '8p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
8P LOSS MUTATED 10 138 13
8P LOSS WILD-TYPE 56 386 256

Figure S282.  Get High-res Image Gene #56: '8p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'8p loss' versus 'RACE'

P value = 0.00839 (Fisher's exact test), Q value = 0.038

Table S283.  Gene #56: '8p loss' versus Clinical Feature #12: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 2 15 116 702
8P LOSS MUTATED 0 6 12 141
8P LOSS WILD-TYPE 2 9 104 561

Figure S283.  Get High-res Image Gene #56: '8p loss' versus Clinical Feature #12: 'RACE'

'8q loss' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S284.  Gene #57: '8q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
8Q LOSS MUTATED 9 69 7
8Q LOSS WILD-TYPE 57 455 262

Figure S284.  Get High-res Image Gene #57: '8q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'9p loss' versus 'Time to Death'

P value = 7.22e-11 (logrank test), Q value = 3.8e-08

Table S285.  Gene #58: '9p loss' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
9P LOSS MUTATED 188 83 0.1 - 141.7 (31.3)
9P LOSS WILD-TYPE 655 128 0.1 - 194.8 (30.3)

Figure S285.  Get High-res Image Gene #58: '9p loss' versus Clinical Feature #1: 'Time to Death'

'9p loss' versus 'YEARS_TO_BIRTH'

P value = 0.0745 (Wilcoxon-test), Q value = 0.2

Table S286.  Gene #58: '9p loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
9P LOSS MUTATED 189 61.4 (12.0)
9P LOSS WILD-TYPE 664 59.7 (12.7)

Figure S286.  Get High-res Image Gene #58: '9p loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'9p loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S287.  Gene #58: '9p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
9P LOSS MUTATED 65 15 66 42
9P LOSS WILD-TYPE 383 88 124 58

Figure S287.  Get High-res Image Gene #58: '9p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'9p loss' versus 'PATHOLOGY_T_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S288.  Gene #58: '9p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
9P LOSS MUTATED 69 22 91 8
9P LOSS WILD-TYPE 393 101 160 7

Figure S288.  Get High-res Image Gene #58: '9p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'9p loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0176 (Fisher's exact test), Q value = 0.069

Table S289.  Gene #58: '9p loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
9P LOSS MUTATED 71 18 2
9P LOSS WILD-TYPE 246 25 4

Figure S289.  Get High-res Image Gene #58: '9p loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'9p loss' versus 'PATHOLOGY_M_STAGE'

P value = 0.000376 (Fisher's exact test), Q value = 0.0027

Table S290.  Gene #58: '9p loss' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 542 89
9P LOSS MUTATED 125 37
9P LOSS WILD-TYPE 417 52

Figure S290.  Get High-res Image Gene #58: '9p loss' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'9p loss' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0204 (Wilcoxon-test), Q value = 0.077

Table S291.  Gene #58: '9p loss' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 115 90.3 (17.6)
9P LOSS MUTATED 23 83.0 (27.0)
9P LOSS WILD-TYPE 92 92.1 (13.9)

Figure S291.  Get High-res Image Gene #58: '9p loss' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'

'9p loss' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S292.  Gene #58: '9p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
9P LOSS MUTATED 10 149 32
9P LOSS WILD-TYPE 56 375 237

Figure S292.  Get High-res Image Gene #58: '9p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'9p loss' versus 'RACE'

P value = 0.0186 (Fisher's exact test), Q value = 0.072

Table S293.  Gene #58: '9p loss' versus Clinical Feature #12: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 2 15 116 702
9P LOSS MUTATED 0 3 14 169
9P LOSS WILD-TYPE 2 12 102 533

Figure S293.  Get High-res Image Gene #58: '9p loss' versus Clinical Feature #12: 'RACE'

'9q loss' versus 'Time to Death'

P value = 7.8e-09 (logrank test), Q value = 2.1e-06

Table S294.  Gene #59: '9q loss' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
9Q LOSS MUTATED 190 80 0.1 - 141.7 (31.8)
9Q LOSS WILD-TYPE 653 131 0.1 - 194.8 (29.9)

Figure S294.  Get High-res Image Gene #59: '9q loss' versus Clinical Feature #1: 'Time to Death'

'9q loss' versus 'YEARS_TO_BIRTH'

P value = 0.0692 (Wilcoxon-test), Q value = 0.19

Table S295.  Gene #59: '9q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
9Q LOSS MUTATED 191 61.4 (12.2)
9Q LOSS WILD-TYPE 662 59.7 (12.6)

Figure S295.  Get High-res Image Gene #59: '9q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'9q loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S296.  Gene #59: '9q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
9Q LOSS MUTATED 63 19 69 40
9Q LOSS WILD-TYPE 385 84 121 60

Figure S296.  Get High-res Image Gene #59: '9q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'9q loss' versus 'PATHOLOGY_T_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S297.  Gene #59: '9q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
9Q LOSS MUTATED 66 23 97 6
9Q LOSS WILD-TYPE 396 100 154 9

Figure S297.  Get High-res Image Gene #59: '9q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'9q loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0439 (Fisher's exact test), Q value = 0.14

Table S298.  Gene #59: '9q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
9Q LOSS MUTATED 73 17 2
9Q LOSS WILD-TYPE 244 26 4

Figure S298.  Get High-res Image Gene #59: '9q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'9q loss' versus 'PATHOLOGY_M_STAGE'

P value = 0.00158 (Fisher's exact test), Q value = 0.0095

Table S299.  Gene #59: '9q loss' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 542 89
9Q LOSS MUTATED 128 36
9Q LOSS WILD-TYPE 414 53

Figure S299.  Get High-res Image Gene #59: '9q loss' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'9q loss' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0163 (Wilcoxon-test), Q value = 0.065

Table S300.  Gene #59: '9q loss' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 115 90.3 (17.6)
9Q LOSS MUTATED 20 81.5 (28.7)
9Q LOSS WILD-TYPE 95 92.1 (13.8)

Figure S300.  Get High-res Image Gene #59: '9q loss' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'

'9q loss' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S301.  Gene #59: '9q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
9Q LOSS MUTATED 11 150 32
9Q LOSS WILD-TYPE 55 374 237

Figure S301.  Get High-res Image Gene #59: '9q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'9q loss' versus 'RACE'

P value = 0.0156 (Fisher's exact test), Q value = 0.062

Table S302.  Gene #59: '9q loss' versus Clinical Feature #12: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 2 15 116 702
9Q LOSS MUTATED 0 3 14 171
9Q LOSS WILD-TYPE 2 12 102 531

Figure S302.  Get High-res Image Gene #59: '9q loss' versus Clinical Feature #12: 'RACE'

'10p loss' versus 'YEARS_TO_BIRTH'

P value = 0.0317 (Wilcoxon-test), Q value = 0.11

Table S303.  Gene #60: '10p loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
10P LOSS MUTATED 128 57.4 (14.4)
10P LOSS WILD-TYPE 725 60.6 (12.2)

Figure S303.  Get High-res Image Gene #60: '10p loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'10p loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S304.  Gene #60: '10p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
10P LOSS MUTATED 42 26 41 19
10P LOSS WILD-TYPE 406 77 149 81

Figure S304.  Get High-res Image Gene #60: '10p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'10p loss' versus 'PATHOLOGY_T_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S305.  Gene #60: '10p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
10P LOSS MUTATED 43 28 53 5
10P LOSS WILD-TYPE 419 95 198 10

Figure S305.  Get High-res Image Gene #60: '10p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'10p loss' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S306.  Gene #60: '10p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
10P LOSS MUTATED 48 67 14
10P LOSS WILD-TYPE 18 457 255

Figure S306.  Get High-res Image Gene #60: '10p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'10q loss' versus 'YEARS_TO_BIRTH'

P value = 0.0177 (Wilcoxon-test), Q value = 0.069

Table S307.  Gene #61: '10q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
10Q LOSS MUTATED 152 57.6 (14.1)
10Q LOSS WILD-TYPE 701 60.6 (12.2)

Figure S307.  Get High-res Image Gene #61: '10q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'10q loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S308.  Gene #61: '10q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
10Q LOSS MUTATED 51 32 48 23
10Q LOSS WILD-TYPE 397 71 142 77

Figure S308.  Get High-res Image Gene #61: '10q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'10q loss' versus 'PATHOLOGY_T_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S309.  Gene #61: '10q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
10Q LOSS MUTATED 52 34 61 7
10Q LOSS WILD-TYPE 410 89 190 8

Figure S309.  Get High-res Image Gene #61: '10q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'10q loss' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S310.  Gene #61: '10q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
10Q LOSS MUTATED 49 89 16
10Q LOSS WILD-TYPE 17 435 253

Figure S310.  Get High-res Image Gene #61: '10q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'11p loss' versus 'Time to Death'

P value = 0.019 (logrank test), Q value = 0.073

Table S311.  Gene #62: '11p loss' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
11P LOSS MUTATED 40 14 1.0 - 102.8 (20.6)
11P LOSS WILD-TYPE 803 197 0.1 - 194.8 (30.6)

Figure S311.  Get High-res Image Gene #62: '11p loss' versus Clinical Feature #1: 'Time to Death'

'11p loss' versus 'YEARS_TO_BIRTH'

P value = 0.0189 (Wilcoxon-test), Q value = 0.073

Table S312.  Gene #62: '11p loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
11P LOSS MUTATED 40 64.4 (10.9)
11P LOSS WILD-TYPE 813 59.9 (12.6)

Figure S312.  Get High-res Image Gene #62: '11p loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'11p loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00276 (Fisher's exact test), Q value = 0.016

Table S313.  Gene #62: '11p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
11P LOSS MUTATED 11 10 12 7
11P LOSS WILD-TYPE 437 93 178 93

Figure S313.  Get High-res Image Gene #62: '11p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'11p loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.00316 (Fisher's exact test), Q value = 0.017

Table S314.  Gene #62: '11p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
11P LOSS MUTATED 11 10 18 1
11P LOSS WILD-TYPE 451 113 233 14

Figure S314.  Get High-res Image Gene #62: '11p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'11p loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0124 (Fisher's exact test), Q value = 0.053

Table S315.  Gene #62: '11p loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
11P LOSS MUTATED 13 6 1
11P LOSS WILD-TYPE 304 37 5

Figure S315.  Get High-res Image Gene #62: '11p loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'11p loss' versus 'HISTOLOGICAL_TYPE'

P value = 0.0213 (Fisher's exact test), Q value = 0.08

Table S316.  Gene #62: '11p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
11P LOSS MUTATED 7 18 16
11P LOSS WILD-TYPE 59 506 253

Figure S316.  Get High-res Image Gene #62: '11p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'11q loss' versus 'Time to Death'

P value = 0.00842 (logrank test), Q value = 0.038

Table S317.  Gene #63: '11q loss' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
11Q LOSS MUTATED 50 18 0.1 - 123.6 (19.5)
11Q LOSS WILD-TYPE 793 193 0.1 - 194.8 (30.7)

Figure S317.  Get High-res Image Gene #63: '11q loss' versus Clinical Feature #1: 'Time to Death'

'11q loss' versus 'YEARS_TO_BIRTH'

P value = 0.0128 (Wilcoxon-test), Q value = 0.054

Table S318.  Gene #63: '11q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
11Q LOSS MUTATED 50 64.0 (11.7)
11Q LOSS WILD-TYPE 803 59.9 (12.6)

Figure S318.  Get High-res Image Gene #63: '11q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'11q loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00016 (Fisher's exact test), Q value = 0.0013

Table S319.  Gene #63: '11q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
11Q LOSS MUTATED 12 9 19 10
11Q LOSS WILD-TYPE 436 94 171 90

Figure S319.  Get High-res Image Gene #63: '11q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'11q loss' versus 'PATHOLOGY_T_STAGE'

P value = 8e-05 (Fisher's exact test), Q value = 0.00067

Table S320.  Gene #63: '11q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
11Q LOSS MUTATED 12 10 27 1
11Q LOSS WILD-TYPE 450 113 224 14

Figure S320.  Get High-res Image Gene #63: '11q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'11q loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.00082 (Fisher's exact test), Q value = 0.0054

Table S321.  Gene #63: '11q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
11Q LOSS MUTATED 18 9 2
11Q LOSS WILD-TYPE 299 34 4

Figure S321.  Get High-res Image Gene #63: '11q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'11q loss' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0624 (Wilcoxon-test), Q value = 0.18

Table S322.  Gene #63: '11q loss' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 115 90.3 (17.6)
11Q LOSS MUTATED 11 89.1 (7.0)
11Q LOSS WILD-TYPE 104 90.4 (18.4)

Figure S322.  Get High-res Image Gene #63: '11q loss' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'

'11q loss' versus 'HISTOLOGICAL_TYPE'

P value = 0.0353 (Fisher's exact test), Q value = 0.12

Table S323.  Gene #63: '11q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
11Q LOSS MUTATED 7 23 21
11Q LOSS WILD-TYPE 59 501 248

Figure S323.  Get High-res Image Gene #63: '11q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'12p loss' versus 'Time to Death'

P value = 0.0573 (logrank test), Q value = 0.16

Table S324.  Gene #64: '12p loss' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
12P LOSS MUTATED 6 3 0.4 - 60.6 (14.8)
12P LOSS WILD-TYPE 837 208 0.1 - 194.8 (30.6)

Figure S324.  Get High-res Image Gene #64: '12p loss' versus Clinical Feature #1: 'Time to Death'

'12p loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.0461 (Fisher's exact test), Q value = 0.14

Table S325.  Gene #64: '12p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
12P LOSS MUTATED 1 0 4 1
12P LOSS WILD-TYPE 447 103 186 99

Figure S325.  Get High-res Image Gene #64: '12p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'12p loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.064 (Fisher's exact test), Q value = 0.18

Table S326.  Gene #64: '12p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
12P LOSS MUTATED 2 0 3 1
12P LOSS WILD-TYPE 460 123 248 14

Figure S326.  Get High-res Image Gene #64: '12p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'12p loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.048 (Fisher's exact test), Q value = 0.15

Table S327.  Gene #64: '12p loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
12P LOSS MUTATED 1 2 0
12P LOSS WILD-TYPE 316 41 6

Figure S327.  Get High-res Image Gene #64: '12p loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'12p loss' versus 'HISTOLOGICAL_TYPE'

P value = 0.0979 (Fisher's exact test), Q value = 0.25

Table S328.  Gene #64: '12p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
12P LOSS MUTATED 2 3 1
12P LOSS WILD-TYPE 64 521 268

Figure S328.  Get High-res Image Gene #64: '12p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'12q loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.0567 (Fisher's exact test), Q value = 0.16

Table S329.  Gene #65: '12q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
12Q LOSS MUTATED 1 0 2 1
12Q LOSS WILD-TYPE 461 123 249 14

Figure S329.  Get High-res Image Gene #65: '12q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'13q loss' versus 'Time to Death'

P value = 0.067 (logrank test), Q value = 0.19

Table S330.  Gene #66: '13q loss' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
13Q LOSS MUTATED 134 48 0.1 - 152.0 (37.1)
13Q LOSS WILD-TYPE 709 163 0.1 - 194.8 (29.9)

Figure S330.  Get High-res Image Gene #66: '13q loss' versus Clinical Feature #1: 'Time to Death'

'13q loss' versus 'YEARS_TO_BIRTH'

P value = 0.000163 (Wilcoxon-test), Q value = 0.0013

Table S331.  Gene #66: '13q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
13Q LOSS MUTATED 136 55.6 (14.9)
13Q LOSS WILD-TYPE 717 61.0 (11.9)

Figure S331.  Get High-res Image Gene #66: '13q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'13q loss' versus 'NEOPLASM_DISEASESTAGE'

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

Table S332.  Gene #66: '13q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
13Q LOSS MUTATED 43 21 45 27
13Q LOSS WILD-TYPE 405 82 145 73

Figure S332.  Get High-res Image Gene #66: '13q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'13q loss' versus 'PATHOLOGY_T_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S333.  Gene #66: '13q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
13Q LOSS MUTATED 45 23 59 9
13Q LOSS WILD-TYPE 417 100 192 6

Figure S333.  Get High-res Image Gene #66: '13q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'13q loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0069 (Fisher's exact test), Q value = 0.032

Table S334.  Gene #66: '13q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
13Q LOSS MUTATED 63 14 4
13Q LOSS WILD-TYPE 254 29 2

Figure S334.  Get High-res Image Gene #66: '13q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'13q loss' versus 'GENDER'

P value = 0.0289 (Fisher's exact test), Q value = 0.1

Table S335.  Gene #66: '13q loss' versus Clinical Feature #7: 'GENDER'

nPatients FEMALE MALE
ALL 287 572
13Q LOSS MUTATED 57 79
13Q LOSS WILD-TYPE 230 493

Figure S335.  Get High-res Image Gene #66: '13q loss' versus Clinical Feature #7: 'GENDER'

'13q loss' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S336.  Gene #66: '13q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
13Q LOSS MUTATED 43 71 22
13Q LOSS WILD-TYPE 23 453 247

Figure S336.  Get High-res Image Gene #66: '13q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'14q loss' versus 'Time to Death'

P value = 1.13e-08 (logrank test), Q value = 2.4e-06

Table S337.  Gene #67: '14q loss' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
14Q LOSS MUTATED 259 98 0.1 - 96.4 (29.5)
14Q LOSS WILD-TYPE 584 113 0.1 - 194.8 (30.7)

Figure S337.  Get High-res Image Gene #67: '14q loss' versus Clinical Feature #1: 'Time to Death'

'14q loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S338.  Gene #67: '14q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
14Q LOSS MUTATED 97 29 79 52
14Q LOSS WILD-TYPE 351 74 111 48

Figure S338.  Get High-res Image Gene #67: '14q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'14q loss' versus 'PATHOLOGY_T_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S339.  Gene #67: '14q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
14Q LOSS MUTATED 104 38 114 4
14Q LOSS WILD-TYPE 358 85 137 11

Figure S339.  Get High-res Image Gene #67: '14q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'14q loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0106 (Fisher's exact test), Q value = 0.046

Table S340.  Gene #67: '14q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
14Q LOSS MUTATED 101 23 3
14Q LOSS WILD-TYPE 216 20 3

Figure S340.  Get High-res Image Gene #67: '14q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'14q loss' versus 'PATHOLOGY_M_STAGE'

P value = 6.55e-05 (Fisher's exact test), Q value = 0.00057

Table S341.  Gene #67: '14q loss' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 542 89
14Q LOSS MUTATED 175 49
14Q LOSS WILD-TYPE 367 40

Figure S341.  Get High-res Image Gene #67: '14q loss' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'14q loss' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0582 (Wilcoxon-test), Q value = 0.17

Table S342.  Gene #67: '14q loss' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 115 90.3 (17.6)
14Q LOSS MUTATED 28 82.1 (29.9)
14Q LOSS WILD-TYPE 87 92.9 (10.1)

Figure S342.  Get High-res Image Gene #67: '14q loss' versus Clinical Feature #8: 'KARNOFSKY_PERFORMANCE_SCORE'

'14q loss' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S343.  Gene #67: '14q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
14Q LOSS MUTATED 2 214 44
14Q LOSS WILD-TYPE 64 310 225

Figure S343.  Get High-res Image Gene #67: '14q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'14q loss' versus 'YEAR_OF_TOBACCO_SMOKING_ONSET'

P value = 0.00272 (Wilcoxon-test), Q value = 0.015

Table S344.  Gene #67: '14q loss' versus Clinical Feature #11: 'YEAR_OF_TOBACCO_SMOKING_ONSET'

nPatients Mean (Std.Dev)
ALL 67 1973.4 (16.4)
14Q LOSS MUTATED 11 1987.4 (14.2)
14Q LOSS WILD-TYPE 56 1970.7 (15.5)

Figure S344.  Get High-res Image Gene #67: '14q loss' versus Clinical Feature #11: 'YEAR_OF_TOBACCO_SMOKING_ONSET'

'14q loss' versus 'RACE'

P value = 0.0113 (Fisher's exact test), Q value = 0.049

Table S345.  Gene #67: '14q loss' versus Clinical Feature #12: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 2 15 116 702
14Q LOSS MUTATED 0 3 22 228
14Q LOSS WILD-TYPE 2 12 94 474

Figure S345.  Get High-res Image Gene #67: '14q loss' versus Clinical Feature #12: 'RACE'

'15q loss' versus 'Time to Death'

P value = 3.34e-05 (logrank test), Q value = 0.00031

Table S346.  Gene #68: '15q loss' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
15Q LOSS MUTATED 66 26 0.1 - 194.8 (19.2)
15Q LOSS WILD-TYPE 777 185 0.1 - 152.0 (31.2)

Figure S346.  Get High-res Image Gene #68: '15q loss' versus Clinical Feature #1: 'Time to Death'

'15q loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S347.  Gene #68: '15q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
15Q LOSS MUTATED 20 4 23 17
15Q LOSS WILD-TYPE 428 99 167 83

Figure S347.  Get High-res Image Gene #68: '15q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'15q loss' versus 'PATHOLOGY_T_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S348.  Gene #68: '15q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
15Q LOSS MUTATED 23 4 34 5
15Q LOSS WILD-TYPE 439 119 217 10

Figure S348.  Get High-res Image Gene #68: '15q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'15q loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.00986 (Fisher's exact test), Q value = 0.043

Table S349.  Gene #68: '15q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
15Q LOSS MUTATED 22 9 1
15Q LOSS WILD-TYPE 295 34 5

Figure S349.  Get High-res Image Gene #68: '15q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'15q loss' versus 'PATHOLOGY_M_STAGE'

P value = 0.0141 (Fisher's exact test), Q value = 0.058

Table S350.  Gene #68: '15q loss' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 542 89
15Q LOSS MUTATED 34 13
15Q LOSS WILD-TYPE 508 76

Figure S350.  Get High-res Image Gene #68: '15q loss' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'15q loss' versus 'HISTOLOGICAL_TYPE'

P value = 0.0545 (Fisher's exact test), Q value = 0.16

Table S351.  Gene #68: '15q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
15Q LOSS MUTATED 2 36 29
15Q LOSS WILD-TYPE 64 488 240

Figure S351.  Get High-res Image Gene #68: '15q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'16p loss' versus 'Time to Death'

P value = 1.41e-06 (logrank test), Q value = 0.00011

Table S352.  Gene #69: '16p loss' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
16P LOSS MUTATED 17 11 0.1 - 80.2 (28.1)
16P LOSS WILD-TYPE 826 200 0.1 - 194.8 (30.6)

Figure S352.  Get High-res Image Gene #69: '16p loss' versus Clinical Feature #1: 'Time to Death'

'16p loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00858 (Fisher's exact test), Q value = 0.038

Table S353.  Gene #69: '16p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
16P LOSS MUTATED 4 2 6 6
16P LOSS WILD-TYPE 444 101 184 94

Figure S353.  Get High-res Image Gene #69: '16p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'16p loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.00033 (Fisher's exact test), Q value = 0.0024

Table S354.  Gene #69: '16p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
16P LOSS MUTATED 4 2 9 3
16P LOSS WILD-TYPE 458 121 242 12

Figure S354.  Get High-res Image Gene #69: '16p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'16p loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.00115 (Fisher's exact test), Q value = 0.0072

Table S355.  Gene #69: '16p loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
16P LOSS MUTATED 6 4 2
16P LOSS WILD-TYPE 311 39 4

Figure S355.  Get High-res Image Gene #69: '16p loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'16p loss' versus 'HISTOLOGICAL_TYPE'

P value = 0.0774 (Fisher's exact test), Q value = 0.21

Table S356.  Gene #69: '16p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
16P LOSS MUTATED 4 10 4
16P LOSS WILD-TYPE 62 514 265

Figure S356.  Get High-res Image Gene #69: '16p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'16q loss' versus 'Time to Death'

P value = 5.41e-07 (logrank test), Q value = 7.4e-05

Table S357.  Gene #70: '16q loss' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
16Q LOSS MUTATED 27 16 0.1 - 80.2 (28.1)
16Q LOSS WILD-TYPE 816 195 0.1 - 194.8 (30.6)

Figure S357.  Get High-res Image Gene #70: '16q loss' versus Clinical Feature #1: 'Time to Death'

'16q loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00492 (Fisher's exact test), Q value = 0.025

Table S358.  Gene #70: '16q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
16Q LOSS MUTATED 7 4 9 8
16Q LOSS WILD-TYPE 441 99 181 92

Figure S358.  Get High-res Image Gene #70: '16q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'16q loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.00028 (Fisher's exact test), Q value = 0.0021

Table S359.  Gene #70: '16q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
16Q LOSS MUTATED 8 4 12 4
16Q LOSS WILD-TYPE 454 119 239 11

Figure S359.  Get High-res Image Gene #70: '16q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'16q loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.00037 (Fisher's exact test), Q value = 0.0027

Table S360.  Gene #70: '16q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
16Q LOSS MUTATED 9 6 2
16Q LOSS WILD-TYPE 308 37 4

Figure S360.  Get High-res Image Gene #70: '16q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'17p loss' versus 'YEARS_TO_BIRTH'

P value = 0.00206 (Wilcoxon-test), Q value = 0.012

Table S361.  Gene #71: '17p loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
17P LOSS MUTATED 104 56.0 (14.9)
17P LOSS WILD-TYPE 749 60.7 (12.1)

Figure S361.  Get High-res Image Gene #71: '17p loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'17p loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S362.  Gene #71: '17p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
17P LOSS MUTATED 32 30 25 18
17P LOSS WILD-TYPE 416 73 165 82

Figure S362.  Get High-res Image Gene #71: '17p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'17p loss' versus 'PATHOLOGY_T_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S363.  Gene #71: '17p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
17P LOSS MUTATED 32 32 38 3
17P LOSS WILD-TYPE 430 91 213 12

Figure S363.  Get High-res Image Gene #71: '17p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'17p loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.00636 (Fisher's exact test), Q value = 0.03

Table S364.  Gene #71: '17p loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
17P LOSS MUTATED 53 4 4
17P LOSS WILD-TYPE 264 39 2

Figure S364.  Get High-res Image Gene #71: '17p loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'17p loss' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S365.  Gene #71: '17p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
17P LOSS MUTATED 50 46 9
17P LOSS WILD-TYPE 16 478 260

Figure S365.  Get High-res Image Gene #71: '17p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'17q loss' versus 'Time to Death'

P value = 0.00648 (logrank test), Q value = 0.031

Table S366.  Gene #72: '17q loss' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
17Q LOSS MUTATED 79 16 0.4 - 152.0 (52.3)
17Q LOSS WILD-TYPE 764 195 0.1 - 194.8 (28.4)

Figure S366.  Get High-res Image Gene #72: '17q loss' versus Clinical Feature #1: 'Time to Death'

'17q loss' versus 'YEARS_TO_BIRTH'

P value = 0.000132 (Wilcoxon-test), Q value = 0.0011

Table S367.  Gene #72: '17q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
17Q LOSS MUTATED 80 54.3 (14.7)
17Q LOSS WILD-TYPE 773 60.7 (12.2)

Figure S367.  Get High-res Image Gene #72: '17q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'17q loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S368.  Gene #72: '17q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
17Q LOSS MUTATED 23 27 18 12
17Q LOSS WILD-TYPE 425 76 172 88

Figure S368.  Get High-res Image Gene #72: '17q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'17q loss' versus 'PATHOLOGY_T_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S369.  Gene #72: '17q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
17Q LOSS MUTATED 23 28 26 3
17Q LOSS WILD-TYPE 439 95 225 12

Figure S369.  Get High-res Image Gene #72: '17q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'17q loss' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S370.  Gene #72: '17q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
17Q LOSS MUTATED 50 30 0
17Q LOSS WILD-TYPE 16 494 269

Figure S370.  Get High-res Image Gene #72: '17q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'18p loss' versus 'Time to Death'

P value = 5.86e-06 (logrank test), Q value = 0.00011

Table S371.  Gene #73: '18p loss' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
18P LOSS MUTATED 136 53 0.1 - 123.6 (25.6)
18P LOSS WILD-TYPE 707 158 0.1 - 194.8 (31.3)

Figure S371.  Get High-res Image Gene #73: '18p loss' versus Clinical Feature #1: 'Time to Death'

'18p loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S372.  Gene #73: '18p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
18P LOSS MUTATED 45 11 50 29
18P LOSS WILD-TYPE 403 92 140 71

Figure S372.  Get High-res Image Gene #73: '18p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'18p loss' versus 'PATHOLOGY_T_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S373.  Gene #73: '18p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
18P LOSS MUTATED 47 15 69 6
18P LOSS WILD-TYPE 415 108 182 9

Figure S373.  Get High-res Image Gene #73: '18p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'18p loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0314 (Fisher's exact test), Q value = 0.11

Table S374.  Gene #73: '18p loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
18P LOSS MUTATED 53 12 3
18P LOSS WILD-TYPE 264 31 3

Figure S374.  Get High-res Image Gene #73: '18p loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'18p loss' versus 'PATHOLOGY_M_STAGE'

P value = 0.0261 (Fisher's exact test), Q value = 0.094

Table S375.  Gene #73: '18p loss' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 542 89
18P LOSS MUTATED 91 24
18P LOSS WILD-TYPE 451 65

Figure S375.  Get High-res Image Gene #73: '18p loss' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'18p loss' versus 'YEAR_OF_TOBACCO_SMOKING_ONSET'

P value = 0.0492 (Wilcoxon-test), Q value = 0.15

Table S376.  Gene #73: '18p loss' versus Clinical Feature #11: 'YEAR_OF_TOBACCO_SMOKING_ONSET'

nPatients Mean (Std.Dev)
ALL 67 1973.4 (16.4)
18P LOSS MUTATED 6 1985.3 (12.5)
18P LOSS WILD-TYPE 61 1972.2 (16.4)

Figure S376.  Get High-res Image Gene #73: '18p loss' versus Clinical Feature #11: 'YEAR_OF_TOBACCO_SMOKING_ONSET'

'18q loss' versus 'Time to Death'

P value = 9.35e-06 (logrank test), Q value = 0.00011

Table S377.  Gene #74: '18q loss' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
18Q LOSS MUTATED 143 55 0.1 - 123.6 (25.6)
18Q LOSS WILD-TYPE 700 156 0.1 - 194.8 (31.2)

Figure S377.  Get High-res Image Gene #74: '18q loss' versus Clinical Feature #1: 'Time to Death'

'18q loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S378.  Gene #74: '18q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
18Q LOSS MUTATED 50 12 51 30
18Q LOSS WILD-TYPE 398 91 139 70

Figure S378.  Get High-res Image Gene #74: '18q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'18q loss' versus 'PATHOLOGY_T_STAGE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S379.  Gene #74: '18q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
18Q LOSS MUTATED 53 17 68 7
18Q LOSS WILD-TYPE 409 106 183 8

Figure S379.  Get High-res Image Gene #74: '18q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'18q loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0088 (Fisher's exact test), Q value = 0.039

Table S380.  Gene #74: '18q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
18Q LOSS MUTATED 58 15 3
18Q LOSS WILD-TYPE 259 28 3

Figure S380.  Get High-res Image Gene #74: '18q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'18q loss' versus 'PATHOLOGY_M_STAGE'

P value = 0.0393 (Fisher's exact test), Q value = 0.13

Table S381.  Gene #74: '18q loss' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 542 89
18Q LOSS MUTATED 94 24
18Q LOSS WILD-TYPE 448 65

Figure S381.  Get High-res Image Gene #74: '18q loss' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'18q loss' versus 'RACE'

P value = 0.0552 (Fisher's exact test), Q value = 0.16

Table S382.  Gene #74: '18q loss' versus Clinical Feature #12: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 2 15 116 702
18Q LOSS MUTATED 0 6 14 123
18Q LOSS WILD-TYPE 2 9 102 579

Figure S382.  Get High-res Image Gene #74: '18q loss' versus Clinical Feature #12: 'RACE'

'19p loss' versus 'Time to Death'

P value = 0.00113 (logrank test), Q value = 0.0071

Table S383.  Gene #75: '19p loss' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
19P LOSS MUTATED 26 11 0.9 - 109.9 (18.7)
19P LOSS WILD-TYPE 817 200 0.1 - 194.8 (30.7)

Figure S383.  Get High-res Image Gene #75: '19p loss' versus Clinical Feature #1: 'Time to Death'

'19p loss' versus 'YEARS_TO_BIRTH'

P value = 0.0984 (Wilcoxon-test), Q value = 0.25

Table S384.  Gene #75: '19p loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
19P LOSS MUTATED 26 64.2 (10.8)
19P LOSS WILD-TYPE 827 60.0 (12.6)

Figure S384.  Get High-res Image Gene #75: '19p loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'19p loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00422 (Fisher's exact test), Q value = 0.022

Table S385.  Gene #75: '19p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
19P LOSS MUTATED 7 1 12 5
19P LOSS WILD-TYPE 441 102 178 95

Figure S385.  Get High-res Image Gene #75: '19p loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'19p loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.00104 (Fisher's exact test), Q value = 0.0066

Table S386.  Gene #75: '19p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
19P LOSS MUTATED 8 2 13 3
19P LOSS WILD-TYPE 454 121 238 12

Figure S386.  Get High-res Image Gene #75: '19p loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'19p loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0325 (Fisher's exact test), Q value = 0.11

Table S387.  Gene #75: '19p loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
19P LOSS MUTATED 7 3 1
19P LOSS WILD-TYPE 310 40 5

Figure S387.  Get High-res Image Gene #75: '19p loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'19p loss' versus 'HISTOLOGICAL_TYPE'

P value = 0.0176 (Fisher's exact test), Q value = 0.069

Table S388.  Gene #75: '19p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
19P LOSS MUTATED 1 10 15
19P LOSS WILD-TYPE 65 514 254

Figure S388.  Get High-res Image Gene #75: '19p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'19q loss' versus 'Time to Death'

P value = 0.00198 (logrank test), Q value = 0.012

Table S389.  Gene #76: '19q loss' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
19Q LOSS MUTATED 22 8 0.9 - 57.2 (15.5)
19Q LOSS WILD-TYPE 821 203 0.1 - 194.8 (30.7)

Figure S389.  Get High-res Image Gene #76: '19q loss' versus Clinical Feature #1: 'Time to Death'

'19q loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00076 (Fisher's exact test), Q value = 0.0051

Table S390.  Gene #76: '19q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
19Q LOSS MUTATED 4 1 11 5
19Q LOSS WILD-TYPE 444 102 179 95

Figure S390.  Get High-res Image Gene #76: '19q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'19q loss' versus 'PATHOLOGY_T_STAGE'

P value = 3e-05 (Fisher's exact test), Q value = 0.00029

Table S391.  Gene #76: '19q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
19Q LOSS MUTATED 5 1 13 3
19Q LOSS WILD-TYPE 457 122 238 12

Figure S391.  Get High-res Image Gene #76: '19q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'19q loss' versus 'PATHOLOGY_N_STAGE'

P value = 7e-05 (Fisher's exact test), Q value = 6e-04

Table S392.  Gene #76: '19q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
19Q LOSS MUTATED 3 4 2
19Q LOSS WILD-TYPE 314 39 4

Figure S392.  Get High-res Image Gene #76: '19q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'19q loss' versus 'HISTOLOGICAL_TYPE'

P value = 9e-05 (Fisher's exact test), Q value = 0.00073

Table S393.  Gene #76: '19q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
19Q LOSS MUTATED 3 4 15
19Q LOSS WILD-TYPE 63 520 254

Figure S393.  Get High-res Image Gene #76: '19q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'20p loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0963 (Fisher's exact test), Q value = 0.25

Table S394.  Gene #77: '20p loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
20P LOSS MUTATED 5 1 1
20P LOSS WILD-TYPE 312 42 5

Figure S394.  Get High-res Image Gene #77: '20p loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'20p loss' versus 'HISTOLOGICAL_TYPE'

P value = 0.0067 (Fisher's exact test), Q value = 0.031

Table S395.  Gene #77: '20p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
20P LOSS MUTATED 4 7 1
20P LOSS WILD-TYPE 62 517 268

Figure S395.  Get High-res Image Gene #77: '20p loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'20q loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.0989 (Fisher's exact test), Q value = 0.25

Table S396.  Gene #78: '20q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
20Q LOSS MUTATED 1 1 2 2
20Q LOSS WILD-TYPE 447 102 188 98

Figure S396.  Get High-res Image Gene #78: '20q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'20q loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0855 (Fisher's exact test), Q value = 0.22

Table S397.  Gene #78: '20q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
20Q LOSS MUTATED 2 0 1
20Q LOSS WILD-TYPE 315 43 5

Figure S397.  Get High-res Image Gene #78: '20q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'20q loss' versus 'HISTOLOGICAL_TYPE'

P value = 0.00761 (Fisher's exact test), Q value = 0.035

Table S398.  Gene #78: '20q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
20Q LOSS MUTATED 3 3 0
20Q LOSS WILD-TYPE 63 521 269

Figure S398.  Get High-res Image Gene #78: '20q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'20q loss' versus 'ETHNICITY'

P value = 0.0657 (Fisher's exact test), Q value = 0.18

Table S399.  Gene #78: '20q loss' versus Clinical Feature #13: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 42 597
20Q LOSS MUTATED 1 0
20Q LOSS WILD-TYPE 41 597

Figure S399.  Get High-res Image Gene #78: '20q loss' versus Clinical Feature #13: 'ETHNICITY'

'21q loss' versus 'YEARS_TO_BIRTH'

P value = 0.0429 (Wilcoxon-test), Q value = 0.14

Table S400.  Gene #79: '21q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
21Q LOSS MUTATED 129 57.7 (13.5)
21Q LOSS WILD-TYPE 724 60.5 (12.3)

Figure S400.  Get High-res Image Gene #79: '21q loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'21q loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.0018 (Fisher's exact test), Q value = 0.011

Table S401.  Gene #79: '21q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
21Q LOSS MUTATED 48 20 40 19
21Q LOSS WILD-TYPE 400 83 150 81

Figure S401.  Get High-res Image Gene #79: '21q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'21q loss' versus 'PATHOLOGY_T_STAGE'

P value = 9e-05 (Fisher's exact test), Q value = 0.00073

Table S402.  Gene #79: '21q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
21Q LOSS MUTATED 48 23 52 6
21Q LOSS WILD-TYPE 414 100 199 9

Figure S402.  Get High-res Image Gene #79: '21q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'21q loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0133 (Fisher's exact test), Q value = 0.055

Table S403.  Gene #79: '21q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
21Q LOSS MUTATED 49 12 3
21Q LOSS WILD-TYPE 268 31 3

Figure S403.  Get High-res Image Gene #79: '21q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'21q loss' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S404.  Gene #79: '21q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
21Q LOSS MUTATED 35 54 41
21Q LOSS WILD-TYPE 31 470 228

Figure S404.  Get High-res Image Gene #79: '21q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'21q loss' versus 'YEAR_OF_TOBACCO_SMOKING_ONSET'

P value = 0.0905 (Wilcoxon-test), Q value = 0.23

Table S405.  Gene #79: '21q loss' versus Clinical Feature #11: 'YEAR_OF_TOBACCO_SMOKING_ONSET'

nPatients Mean (Std.Dev)
ALL 67 1973.4 (16.4)
21Q LOSS MUTATED 9 1981.4 (13.4)
21Q LOSS WILD-TYPE 58 1972.2 (16.6)

Figure S405.  Get High-res Image Gene #79: '21q loss' versus Clinical Feature #11: 'YEAR_OF_TOBACCO_SMOKING_ONSET'

'21q loss' versus 'RACE'

P value = 0.0803 (Fisher's exact test), Q value = 0.21

Table S406.  Gene #79: '21q loss' versus Clinical Feature #12: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 2 15 116 702
21Q LOSS MUTATED 0 3 9 112
21Q LOSS WILD-TYPE 2 12 107 590

Figure S406.  Get High-res Image Gene #79: '21q loss' versus Clinical Feature #12: 'RACE'

'22q loss' versus 'Time to Death'

P value = 0.00476 (logrank test), Q value = 0.025

Table S407.  Gene #80: '22q loss' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 843 211 0.1 - 194.8 (30.5)
22Q LOSS MUTATED 103 34 0.1 - 152.0 (25.5)
22Q LOSS WILD-TYPE 740 177 0.1 - 194.8 (31.8)

Figure S407.  Get High-res Image Gene #80: '22q loss' versus Clinical Feature #1: 'Time to Death'

'22q loss' versus 'NEOPLASM_DISEASESTAGE'

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

Table S408.  Gene #80: '22q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
22Q LOSS MUTATED 33 10 38 19
22Q LOSS WILD-TYPE 415 93 152 81

Figure S408.  Get High-res Image Gene #80: '22q loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'22q loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.00037 (Fisher's exact test), Q value = 0.0027

Table S409.  Gene #80: '22q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
22Q LOSS MUTATED 39 13 49 1
22Q LOSS WILD-TYPE 423 110 202 14

Figure S409.  Get High-res Image Gene #80: '22q loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'22q loss' versus 'PATHOLOGY_N_STAGE'

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

Table S410.  Gene #80: '22q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
22Q LOSS MUTATED 32 15 3
22Q LOSS WILD-TYPE 285 28 3

Figure S410.  Get High-res Image Gene #80: '22q loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'22q loss' versus 'PATHOLOGY_M_STAGE'

P value = 0.0257 (Fisher's exact test), Q value = 0.093

Table S411.  Gene #80: '22q loss' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

nPatients 0 1
ALL 542 89
22Q LOSS MUTATED 52 16
22Q LOSS WILD-TYPE 490 73

Figure S411.  Get High-res Image Gene #80: '22q loss' versus Clinical Feature #6: 'PATHOLOGY_M_STAGE'

'22q loss' versus 'GENDER'

P value = 0.0265 (Fisher's exact test), Q value = 0.095

Table S412.  Gene #80: '22q loss' versus Clinical Feature #7: 'GENDER'

nPatients FEMALE MALE
ALL 287 572
22Q LOSS MUTATED 45 59
22Q LOSS WILD-TYPE 242 513

Figure S412.  Get High-res Image Gene #80: '22q loss' versus Clinical Feature #7: 'GENDER'

'22q loss' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S413.  Gene #80: '22q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
22Q LOSS MUTATED 8 39 57
22Q LOSS WILD-TYPE 58 485 212

Figure S413.  Get High-res Image Gene #80: '22q loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'22q loss' versus 'ETHNICITY'

P value = 0.0263 (Fisher's exact test), Q value = 0.094

Table S414.  Gene #80: '22q loss' versus Clinical Feature #13: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 42 597
22Q LOSS MUTATED 10 68
22Q LOSS WILD-TYPE 32 529

Figure S414.  Get High-res Image Gene #80: '22q loss' versus Clinical Feature #13: 'ETHNICITY'

'xp loss' versus 'YEARS_TO_BIRTH'

P value = 0.000742 (Wilcoxon-test), Q value = 0.005

Table S415.  Gene #81: 'xp loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
XP LOSS MUTATED 114 55.8 (14.2)
XP LOSS WILD-TYPE 739 60.8 (12.2)

Figure S415.  Get High-res Image Gene #81: 'xp loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'xp loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.00084 (Fisher's exact test), Q value = 0.0055

Table S416.  Gene #81: 'xp loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
XP LOSS MUTATED 41 22 35 14
XP LOSS WILD-TYPE 407 81 155 86

Figure S416.  Get High-res Image Gene #81: 'xp loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'xp loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.00022 (Fisher's exact test), Q value = 0.0017

Table S417.  Gene #81: 'xp loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
XP LOSS MUTATED 41 24 47 2
XP LOSS WILD-TYPE 421 99 204 13

Figure S417.  Get High-res Image Gene #81: 'xp loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'xp loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0127 (Fisher's exact test), Q value = 0.053

Table S418.  Gene #81: 'xp loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
XP LOSS MUTATED 40 12 2
XP LOSS WILD-TYPE 277 31 4

Figure S418.  Get High-res Image Gene #81: 'xp loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'xp loss' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S419.  Gene #81: 'xp loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
XP LOSS MUTATED 38 47 30
XP LOSS WILD-TYPE 28 477 239

Figure S419.  Get High-res Image Gene #81: 'xp loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'xq loss' versus 'YEARS_TO_BIRTH'

P value = 0.00108 (Wilcoxon-test), Q value = 0.0068

Table S420.  Gene #82: 'xq loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 853 60.1 (12.6)
XQ LOSS MUTATED 112 55.8 (14.2)
XQ LOSS WILD-TYPE 741 60.8 (12.2)

Figure S420.  Get High-res Image Gene #82: 'xq loss' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'xq loss' versus 'NEOPLASM_DISEASESTAGE'

P value = 0.0012 (Fisher's exact test), Q value = 0.0074

Table S421.  Gene #82: 'xq loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

nPatients STAGE I STAGE II STAGE III STAGE IV
ALL 448 103 190 100
XQ LOSS MUTATED 41 21 35 14
XQ LOSS WILD-TYPE 407 82 155 86

Figure S421.  Get High-res Image Gene #82: 'xq loss' versus Clinical Feature #3: 'NEOPLASM_DISEASESTAGE'

'xq loss' versus 'PATHOLOGY_T_STAGE'

P value = 0.00064 (Fisher's exact test), Q value = 0.0044

Table S422.  Gene #82: 'xq loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

nPatients T1 T2 T3 T4
ALL 462 123 251 15
XQ LOSS MUTATED 41 22 46 3
XQ LOSS WILD-TYPE 421 101 205 12

Figure S422.  Get High-res Image Gene #82: 'xq loss' versus Clinical Feature #4: 'PATHOLOGY_T_STAGE'

'xq loss' versus 'PATHOLOGY_N_STAGE'

P value = 0.0134 (Fisher's exact test), Q value = 0.056

Table S423.  Gene #82: 'xq loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

nPatients N0 N1 N2
ALL 317 43 6
XQ LOSS MUTATED 40 12 2
XQ LOSS WILD-TYPE 277 31 4

Figure S423.  Get High-res Image Gene #82: 'xq loss' versus Clinical Feature #5: 'PATHOLOGY_N_STAGE'

'xq loss' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 0.00011

Table S424.  Gene #82: 'xq loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

nPatients KIDNEY CHROMOPHOBE KIDNEY CLEAR CELL RENAL CARCINOMA KIDNEY PAPILLARY RENAL CELL CARCINOMA
ALL 66 524 269
XQ LOSS MUTATED 38 46 29
XQ LOSS WILD-TYPE 28 478 240

Figure S424.  Get High-res Image Gene #82: 'xq loss' versus Clinical Feature #9: 'HISTOLOGICAL_TYPE'

'xq loss' versus 'RACE'

P value = 0.0981 (Fisher's exact test), Q value = 0.25

Table S425.  Gene #82: 'xq loss' versus Clinical Feature #12: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 2 15 116 702
XQ LOSS MUTATED 0 5 17 86
XQ LOSS WILD-TYPE 2 10 99 616

Figure S425.  Get High-res Image Gene #82: 'xq loss' versus Clinical Feature #12: 'RACE'

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/KIPAN-TP/15087102/transformed.cor.cli.txt

  • Clinical data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/KIPAN-TP/15081103/KIPAN-TP.merged_data.txt

  • Number of patients = 859

  • Number of significantly arm-level cnvs = 82

  • Number of selected clinical features = 13

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

Survival analysis

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

Fisher's exact test

For binary or multi-class clinical features (nominal or ordinal), two-tailed Fisher's exact tests (Fisher 1922) were used to estimate the P values using the 'fisher.test' function in R

Q value calculation

For multiple hypothesis correction, Q value is the False Discovery Rate (FDR) analogue of the P value (Benjamini and Hochberg 1995), defined as the minimum FDR at which the test may be called significant. We used the 'Benjamini and Hochberg' method of 'p.adjust' function in R to convert P values into Q values.

Download Results

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

References
[1] Bland and Altman, Statistics notes: The logrank test, BMJ 328(7447):1073 (2004)
[2] Fisher, R.A., On the interpretation of chi-square from contingency tables, and the calculation of P, Journal of the Royal Statistical Society 85(1):87-94 (1922)
[3] Benjamini and Hochberg, Controlling the false discovery rate: a practical and powerful approach to multiple testing, Journal of the Royal Statistical Society Series B 59:289-300 (1995)
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