Correlation between copy number variation genes (focal events) and selected clinical features
Glioma (Primary solid tumor)
21 August 2015  |  analyses__2015_08_21
Maintainer Information
Citation Information
doi:10.7908/C1SJ1JTG
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 variation genes (focal events) and selected clinical features. Broad Institute of MIT and Harvard. doi:10.7908/C1SJ1JTG
Overview
Introduction

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

Summary

Testing the association between copy number variation 79 focal events and 9 clinical features across 1083 patients, 418 significant findings detected with Q value < 0.25.

  • amp_1p36.21 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.

  • amp_1q22 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'ETHNICITY'.

  • amp_1q32.1 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'ETHNICITY'.

  • amp_1q44 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.

  • amp_2p24.3 cnv correlated to 'Time to Death',  'TUMOR_TISSUE_SITE', and 'HISTOLOGICAL_TYPE'.

  • amp_3p25.3 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'GENDER', and 'HISTOLOGICAL_TYPE'.

  • amp_3q26.33 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'ETHNICITY'.

  • amp_4p16.3 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY', and 'HISTOLOGICAL_TYPE'.

  • amp_4q12 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.

  • amp_5p15.33 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY', and 'HISTOLOGICAL_TYPE'.

  • amp_7p11.2 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE',  'RACE', and 'ETHNICITY'.

  • amp_7q11.21 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE',  'RACE', and 'ETHNICITY'.

  • amp_7q21.2 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE',  'RACE', and 'ETHNICITY'.

  • amp_7q31.2 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE',  'RACE', and 'ETHNICITY'.

  • amp_7q32.3 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE',  'RACE', and 'ETHNICITY'.

  • amp_8q24.21 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE', and 'HISTOLOGICAL_TYPE'.

  • amp_9q34.3 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'GENDER',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.

  • amp_10p15.1 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'ETHNICITY'.

  • amp_11p13 cnv correlated to 'HISTOLOGICAL_TYPE'.

  • amp_11q24.1 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.

  • amp_12p13.32 cnv correlated to 'YEARS_TO_BIRTH' and 'RADIATION_THERAPY'.

  • amp_12q14.1 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'ETHNICITY'.

  • amp_12q15 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'ETHNICITY'.

  • amp_13q34 cnv correlated to 'KARNOFSKY_PERFORMANCE_SCORE'.

  • amp_14q32.33 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.

  • amp_17p13.2 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'GENDER', and 'HISTOLOGICAL_TYPE'.

  • amp_17q25.1 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'GENDER', and 'HISTOLOGICAL_TYPE'.

  • amp_19p13.3 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE', and 'HISTOLOGICAL_TYPE'.

  • amp_19p13.2 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE', and 'HISTOLOGICAL_TYPE'.

  • amp_19q12 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RACE'.

  • amp_19q13.2 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RACE'.

  • amp_xp11.21 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'GENDER',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'ETHNICITY'.

  • del_1p36.32 cnv correlated to 'Time to Death',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RACE'.

  • del_1p36.23 cnv correlated to 'Time to Death',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RACE'.

  • del_1p32.3 cnv correlated to 'Time to Death',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RACE'.

  • del_1p22.1 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'ETHNICITY'.

  • del_1q42.11 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE', and 'KARNOFSKY_PERFORMANCE_SCORE'.

  • del_2q22.1 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'ETHNICITY'.

  • del_2q37.1 cnv correlated to 'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE', and 'HISTOLOGICAL_TYPE'.

  • del_3p21.31 cnv correlated to 'RADIATION_THERAPY'.

  • del_3q13.31 cnv correlated to 'Time to Death' and 'RADIATION_THERAPY'.

  • del_4q34.3 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'GENDER', and 'HISTOLOGICAL_TYPE'.

  • del_5p15.33 cnv correlated to 'RADIATION_THERAPY' and 'HISTOLOGICAL_TYPE'.

  • del_5q34 cnv correlated to 'YEARS_TO_BIRTH',  'RADIATION_THERAPY', and 'HISTOLOGICAL_TYPE'.

  • del_6p25.3 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.

  • del_6q22.31 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'GENDER',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE',  'RACE', and 'ETHNICITY'.

  • del_6q26 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.

  • del_8p23.2 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'HISTOLOGICAL_TYPE', and 'RACE'.

  • del_8q24.3 cnv correlated to 'Time to Death',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY', and 'HISTOLOGICAL_TYPE'.

  • del_9p21.3 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE',  'RACE', and 'ETHNICITY'.

  • del_10p15.3 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'GENDER',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE',  'RACE', and 'ETHNICITY'.

  • del_10p13 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'GENDER',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE',  'RACE', and 'ETHNICITY'.

  • del_10p11.23 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'GENDER',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE',  'RACE', and 'ETHNICITY'.

  • del_10q23.31 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE',  'RACE', and 'ETHNICITY'.

  • del_10q26.3 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE',  'RACE', and 'ETHNICITY'.

  • del_11p15.5 cnv correlated to 'YEARS_TO_BIRTH',  'GENDER',  'RADIATION_THERAPY', and 'HISTOLOGICAL_TYPE'.

  • del_11p15.1 cnv correlated to 'Time to Death',  'TUMOR_TISSUE_SITE',  'GENDER',  'RADIATION_THERAPY', and 'HISTOLOGICAL_TYPE'.

  • del_11p11.2 cnv correlated to 'Time to Death',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY', and 'HISTOLOGICAL_TYPE'.

  • del_12p13.1 cnv correlated to 'Time to Death',  'TUMOR_TISSUE_SITE',  'HISTOLOGICAL_TYPE', and 'ETHNICITY'.

  • del_12q12 cnv correlated to 'HISTOLOGICAL_TYPE'.

  • del_12q15 cnv correlated to 'HISTOLOGICAL_TYPE'.

  • del_13q14.2 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'GENDER',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.

  • del_13q22.1 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'ETHNICITY'.

  • del_14q13.1 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE',  'RACE', and 'ETHNICITY'.

  • del_14q24.2 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'GENDER', and 'HISTOLOGICAL_TYPE'.

  • del_14q31.3 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'GENDER',  'HISTOLOGICAL_TYPE', and 'RACE'.

  • del_15q14 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.

  • del_16p12.2 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY', and 'HISTOLOGICAL_TYPE'.

  • del_16q23.1 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.

  • del_17p13.1 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.

  • del_17q11.2 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RACE'.

  • del_18q23 cnv correlated to 'YEARS_TO_BIRTH'.

  • del_19q13.41 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'ETHNICITY'.

  • del_19q13.43 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.

  • del_22q13.32 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'TUMOR_TISSUE_SITE',  'RADIATION_THERAPY',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'ETHNICITY'.

  • del_xq21.1 cnv correlated to 'YEARS_TO_BIRTH' and 'KARNOFSKY_PERFORMANCE_SCORE'.

Results
Overview of the results

Table 1.  Get Full Table Overview of the association between significant copy number variation of 79 focal events and 9 clinical features. Shown in the table are P values (Q values). Thresholded by Q value < 0.25, 418 significant findings detected.

Clinical
Features 		Time
to
Death 		YEARS
TO
BIRTH 		TUMOR
TISSUE
SITE 		GENDER RADIATION
THERAPY 		KARNOFSKY
PERFORMANCE
SCORE 		HISTOLOGICAL
TYPE 		RACE ETHNICITY
nCNV (%) nWild-Type logrank test Wilcoxon-test Fisher's exact test Fisher's exact test Fisher's exact test Wilcoxon-test Fisher's exact test Fisher's exact test Fisher's exact test
del 6q22 31 234 (22%) 849 9.96e-12
(8.64e-11) 		4.01e-05
(0.000147) 		6.44e-07
(3.61e-06) 		0.0995
(0.178) 		0.0351
(0.0736) 		0.00692
(0.0178) 		1e-05
(3.91e-05) 		0.0988
(0.178) 		0.13
(0.223)
del 10p15 3 547 (51%) 536 0
(0) 		2.28e-71
(6e-70) 		1.4e-109
(4.98e-108) 		0.0645
(0.124) 		1.12e-15
(1.33e-14) 		6.84e-18
(9.93e-17) 		1e-05
(3.91e-05) 		0.00766
(0.0195) 		0.00501
(0.0133)
del 10p13 547 (51%) 536 0
(0) 		1.44e-71
(3.93e-70) 		6.21e-111
(2.32e-109) 		0.0265
(0.058) 		9.39e-17
(1.31e-15) 		2.63e-16
(3.53e-15) 		1e-05
(3.91e-05) 		0.016
(0.0366) 		0.00501
(0.0133)
del 10p11 23 552 (51%) 531 0
(0) 		3.67e-75
(1.09e-73) 		4.92e-114
(1.94e-112) 		0.0485
(0.097) 		6.1e-16
(7.6e-15) 		2.49e-19
(3.84e-18) 		1e-05
(3.91e-05) 		0.00155
(0.00461) 		0.00325
(0.00897)
amp 7p11 2 629 (58%) 454 0
(0) 		1.71e-68
(4.34e-67) 		3.58e-104
(1.21e-102) 		0.289
(0.431) 		8.74e-14
(8.75e-13) 		2.26e-19
(3.56e-18) 		1e-05
(3.91e-05) 		0.00508
(0.0135) 		0.0077
(0.0195)
amp 7q11 21 576 (53%) 507 0
(0) 		4.47e-55
(9.94e-54) 		1.36e-84
(4.2e-83) 		0.323
(0.466) 		5.95e-11
(4.81e-10) 		8.71e-14
(8.75e-13) 		1e-05
(3.91e-05) 		0.00298
(0.00837) 		0.00829
(0.0208)
amp 7q21 2 630 (58%) 453 0
(0) 		4.83e-50
(1.01e-48) 		9.69e-72
(2.75e-70) 		0.755
(0.851) 		1.19e-11
(1.02e-10) 		3.39e-12
(3.02e-11) 		1e-05
(3.91e-05) 		0.00132
(0.00399) 		0.00264
(0.00757)
amp 7q31 2 640 (59%) 443 0
(0) 		5.49e-40
(1.05e-38) 		3.92e-59
(9.29e-58) 		0.802
(0.886) 		1.49e-09
(1.02e-08) 		2.97e-09
(1.95e-08) 		1e-05
(3.91e-05) 		0.00839
(0.0209) 		0.00285
(0.00806)
amp 7q32 3 653 (60%) 430 0
(0) 		1.31e-40
(2.59e-39) 		5.3e-58
(1.22e-56) 		0.801
(0.886) 		1.74e-10
(1.33e-09) 		4.21e-09
(2.72e-08) 		1e-05
(3.91e-05) 		0.00604
(0.0158) 		0.00153
(0.00457)
amp xp11 21 104 (10%) 979 0.000448
(0.00144) 		3.21e-06
(1.71e-05) 		1.89e-05
(7.2e-05) 		0.0284
(0.0613) 		0.00971
(0.024) 		0.0254
(0.0559) 		1e-05
(3.91e-05) 		0.568
(0.692) 		0.0304
(0.0654)
del 9p21 3 589 (54%) 494 0
(0) 		3.58e-30
(5.91e-29) 		5.89e-38
(1.07e-36) 		0.387
(0.535) 		4.11e-10
(3.04e-09) 		4.66e-13
(4.36e-12) 		1e-05
(3.91e-05) 		0.015
(0.0348) 		0.0636
(0.123)
del 10q23 31 622 (57%) 461 0
(0) 		8.17e-64
(2e-62) 		2.51e-118
(1.05e-116) 		0.663
(0.773) 		3.55e-19
(5.37e-18) 		2.2e-18
(3.26e-17) 		1e-05
(3.91e-05) 		0.00702
(0.018) 		0.00831
(0.0208)
del 10q26 3 659 (61%) 424 0
(0) 		4.8e-50
(1.01e-48) 		7.75e-97
(2.5e-95) 		0.9
(0.955) 		8.23e-17
(1.17e-15) 		3.22e-16
(4.24e-15) 		1e-05
(3.91e-05) 		0.00837
(0.0209) 		0.0271
(0.0592)
del 14q13 1 244 (23%) 839 1.86e-10
(1.4e-09) 		1.2e-09
(8.46e-09) 		2.96e-12
(2.66e-11) 		0.377
(0.523) 		0.0203
(0.0459) 		0.00597
(0.0157) 		1e-05
(3.91e-05) 		0.0466
(0.0938) 		0.0569
(0.112)
amp 1q32 1 203 (19%) 880 2.28e-12
(2.08e-11) 		3.54e-13
(3.36e-12) 		5.39e-16
(6.85e-15) 		0.693
(0.796) 		0.017
(0.0388) 		0.000164
(0.000552) 		1e-05
(3.91e-05) 		0.39
(0.538) 		0.0146
(0.034)
amp 9q34 3 139 (13%) 944 0.0254
(0.0559) 		0.0443
(0.0903) 		0.000364
(0.00119) 		0.0798
(0.149) 		0.0856
(0.157) 		0.124
(0.214) 		0.00056
(0.00179) 		0.222
(0.35) 		0.816
(0.894)
amp 12q14 1 171 (16%) 912 6.66e-16
(8.17e-15) 		7.97e-06
(3.91e-05) 		7.18e-14
(7.51e-13) 		0.673
(0.781) 		0.00811
(0.0204) 		0.117
(0.204) 		1e-05
(3.91e-05) 		0.316
(0.457) 		0.0336
(0.0714)
amp 12q15 110 (10%) 973 2.55e-10
(1.91e-09) 		4.78e-05
(0.000174) 		1.49e-12
(1.38e-11) 		0.185
(0.303) 		0.0442
(0.0902) 		0.0364
(0.0761) 		1e-05
(3.91e-05) 		0.359
(0.506) 		0.0172
(0.0391)
amp 19q12 245 (23%) 838 0
(0) 		4.86e-16
(6.28e-15) 		3.12e-38
(5.83e-37) 		0.462
(0.605) 		6.89e-08
(4.15e-07) 		9.53e-05
(0.000334) 		1e-05
(3.91e-05) 		0.0403
(0.0829) 		0.582
(0.701)
amp 19q13 2 230 (21%) 853 0
(0) 		1.81e-15
(2.11e-14) 		9.95e-34
(1.73e-32) 		0.407
(0.554) 		5.99e-07
(3.38e-06) 		0.000304
(0.000995) 		1e-05
(3.91e-05) 		0.0337
(0.0714) 		0.567
(0.692)
del 1p22 1 233 (22%) 850 0
(0) 		0.00387
(0.0106) 		2.27e-30
(3.85e-29) 		0.5
(0.637) 		2.08e-14
(2.28e-13) 		0.000136
(0.000467) 		1e-05
(3.91e-05) 		0.423
(0.569) 		0.139
(0.237)
del 13q14 2 381 (35%) 702 3.31e-05
(0.000122) 		0.0605
(0.118) 		1.23e-06
(6.72e-06) 		0.122
(0.212) 		0.00263
(0.00757) 		0.00468
(0.0126) 		1e-05
(3.91e-05) 		0.573
(0.693) 		0.264
(0.403)
del 13q22 1 364 (34%) 719 1.74e-05
(6.64e-05) 		0.013
(0.0306) 		6.34e-06
(3.24e-05) 		0.268
(0.407) 		0.0151
(0.0349) 		0.00209
(0.0061) 		0.0001
(0.000349) 		0.56
(0.689) 		0.142
(0.242)
del 17q11 2 91 (8%) 992 3.78e-08
(2.34e-07) 		0.000205
(0.000684) 		9.35e-07
(5.19e-06) 		0.912
(0.964) 		0.116
(0.204) 		0.0111
(0.027) 		6e-05
(0.000214) 		0.0845
(0.156) 		0.398
(0.542)
del 19q13 41 366 (34%) 717 0
(0) 		4.16e-08
(2.55e-07) 		3.95e-34
(7.02e-33) 		0.193
(0.312) 		1.35e-08
(8.5e-08) 		5.97e-05
(0.000214) 		1e-05
(3.91e-05) 		0.808
(0.89) 		0.146
(0.248)
del 22q13 32 289 (27%) 794 1.61e-11
(1.36e-10) 		1.31e-10
(1.02e-09) 		1.22e-16
(1.67e-15) 		0.531
(0.663) 		0.000173
(0.000581) 		0.00307
(0.00855) 		1e-05
(3.91e-05) 		0.308
(0.45) 		0.117
(0.204)
amp 1p36 21 103 (10%) 980 8.52e-14
(8.75e-13) 		3.52e-08
(2.2e-07) 		9.73e-16
(1.17e-14) 		0.53
(0.663) 		0.052
(0.103) 		0.00265
(0.00757) 		1e-05
(3.91e-05) 		0.437
(0.578) 		1
(1.00)
amp 1q22 143 (13%) 940 0.0214
(0.0481) 		0.00137
(0.00413) 		3.81e-06
(2.01e-05) 		0.363
(0.509) 		0.171
(0.285) 		0.0481
(0.0966) 		3e-05
(0.000112) 		0.342
(0.486) 		0.107
(0.19)
amp 1q44 128 (12%) 955 2.82e-06
(1.51e-05) 		4.72e-06
(2.43e-05) 		5.06e-09
(3.24e-08) 		0.295
(0.436) 		0.123
(0.212) 		0.00305
(0.00853) 		1e-05
(3.91e-05) 		0.415
(0.563) 		0.809
(0.89)
amp 3q26 33 129 (12%) 954 3.64e-14
(3.92e-13) 		8.37e-10
(5.95e-09) 		8.32e-15
(9.39e-14) 		0.392
(0.539) 		0.186
(0.304) 		0.000652
(0.00206) 		1e-05
(3.91e-05) 		0.34
(0.485) 		0.077
(0.144)
amp 4q12 138 (13%) 945 4.93e-10
(3.61e-09) 		4.41e-06
(2.29e-05) 		4.38e-11
(3.58e-10) 		0.167
(0.279) 		0.086
(0.157) 		0.0486
(0.097) 		1e-05
(3.91e-05) 		0.468
(0.609) 		0.35
(0.496)
amp 10p15 1 88 (8%) 995 3.31e-07
(1.93e-06) 		4.45e-15
(5.11e-14) 		6.15e-10
(4.46e-09) 		0.736
(0.835) 		0.895
(0.953) 		0.000808
(0.00251) 		1e-05
(3.91e-05) 		1
(1.00) 		0.0847
(0.156)
amp 11q24 1 112 (10%) 971 1.57e-06
(8.5e-06) 		0.000491
(0.00157) 		5.68e-12
(4.99e-11) 		0.84
(0.91) 		0.13
(0.223) 		0.0117
(0.028) 		1e-05
(3.91e-05) 		0.289
(0.431) 		0.451
(0.595)
amp 14q32 33 44 (4%) 1039 0.000792
(0.00247) 		8.78e-06
(3.91e-05) 		7.54e-05
(0.000267) 		0.212
(0.335) 		0.0644
(0.124) 		0.0844
(0.156) 		0.00182
(0.00533) 		1
(1.00) 		0.254
(0.393)
del 1p36 32 314 (29%) 769 5.51e-09
(3.5e-08) 		0.555
(0.685) 		1.26e-14
(1.39e-13) 		0.588
(0.704) 		5.48e-08
(3.33e-07) 		0.0215
(0.0481) 		1e-05
(3.91e-05) 		0.022
(0.0493) 		0.736
(0.835)
del 1p36 23 344 (32%) 739 1.37e-05
(5.3e-05) 		0.18
(0.295) 		1.23e-10
(9.74e-10) 		0.467
(0.609) 		4.42e-07
(2.55e-06) 		0.00254
(0.00733) 		1e-05
(3.91e-05) 		0.046
(0.0933) 		1
(1.00)
del 1p32 3 256 (24%) 827 9.31e-14
(9.2e-13) 		0.211
(0.335) 		1.69e-27
(2.73e-26) 		1
(1.00) 		3.12e-13
(3e-12) 		0.00142
(0.00425) 		1e-05
(3.91e-05) 		0.0379
(0.0783) 		0.279
(0.42)
del 2q22 1 68 (6%) 1015 0.00412
(0.0111) 		0.0169
(0.0386) 		0.00558
(0.0147) 		0.899
(0.955) 		0.297
(0.438) 		0.0771
(0.144) 		0.00396
(0.0107) 		0.369
(0.516) 		0.105
(0.187)
del 6q26 259 (24%) 824 1.63e-11
(1.36e-10) 		0.000142
(0.000486) 		2.65e-09
(1.76e-08) 		0.17
(0.283) 		0.00225
(0.00652) 		0.00312
(0.00865) 		1e-05
(3.91e-05) 		0.23
(0.361) 		0.276
(0.418)
del 8p23 2 88 (8%) 995 0.000161
(0.000544) 		6.13e-05
(0.000218) 		1.07e-05
(4.16e-05) 		0.822
(0.896) 		0.0111
(0.027) 		0.301
(0.441) 		0.00012
(0.000414) 		0.0141
(0.0331) 		0.571
(0.693)
del 14q31 3 274 (25%) 809 0.00337
(0.00924) 		0.0713
(0.135) 		0.0427
(0.0874) 		0.0559
(0.11) 		0.323
(0.466) 		0.25
(0.39) 		0.0872
(0.159) 		0.0921
(0.167) 		0.859
(0.924)
del 16q23 1 127 (12%) 956 1.29e-09
(8.97e-09) 		5.91e-05
(0.000213) 		6.77e-10
(4.86e-09) 		0.849
(0.916) 		0.0909
(0.165) 		0.0112
(0.0271) 		1e-05
(3.91e-05) 		0.326
(0.469) 		0.811
(0.89)
del 17p13 1 114 (11%) 969 1.88e-09
(1.27e-08) 		4.99e-07
(2.84e-06) 		1.57e-13
(1.53e-12) 		0.16
(0.27) 		0.0344
(0.0727) 		0.0134
(0.0315) 		1e-05
(3.91e-05) 		0.598
(0.711) 		0.458
(0.602)
del 19q13 43 354 (33%) 729 0
(0) 		4.72e-14
(5e-13) 		2.06e-41
(4.18e-40) 		0.293
(0.435) 		1.43e-09
(9.88e-09) 		4.12e-06
(2.15e-05) 		1e-05
(3.91e-05) 		0.176
(0.291) 		0.193
(0.312)
amp 3p25 3 84 (8%) 999 0.0319
(0.068) 		0.0366
(0.0764) 		0.000888
(0.00273) 		0.0835
(0.155) 		0.687
(0.792) 		0.451
(0.595) 		0.00972
(0.024) 		0.894
(0.953) 		0.559
(0.688)
amp 4p16 3 70 (6%) 1013 0.0115
(0.0277) 		0.0463
(0.0934) 		0.00633
(0.0164) 		0.531
(0.663) 		0.02
(0.0452) 		0.588
(0.704) 		0.0451
(0.0917) 		0.491
(0.63) 		0.763
(0.851)
amp 5p15 33 76 (7%) 1007 0.000888
(0.00273) 		0.0368
(0.0765) 		1.23e-06
(6.72e-06) 		0.47
(0.611) 		0.118
(0.205) 		0.865
(0.928) 		2e-05
(7.52e-05) 		0.273
(0.414) 		1
(1.00)
amp 17p13 2 74 (7%) 1009 0.00322
(0.00891) 		0.0107
(0.0261) 		0.00377
(0.0103) 		0.0664
(0.127) 		0.576
(0.696) 		0.809
(0.89) 		0.0044
(0.0118) 		0.52
(0.657) 		0.762
(0.851)
amp 17q25 1 126 (12%) 957 9.1e-06
(3.91e-05) 		1.93e-05
(7.28e-05) 		0.0017
(0.00503) 		0.103
(0.184) 		0.912
(0.964) 		0.923
(0.967) 		0.0224
(0.0499) 		0.716
(0.817) 		0.626
(0.737)
del 4q34 3 230 (21%) 853 3.46e-05
(0.000127) 		0.0122
(0.0291) 		1.5e-05
(5.77e-05) 		0.114
(0.201) 		0.252
(0.39) 		0.202
(0.324) 		0.00123
(0.00374) 		0.552
(0.682) 		0.347
(0.492)
del 6p25 3 138 (13%) 945 1.65e-07
(9.75e-07) 		0.0347
(0.0729) 		0.00607
(0.0159) 		0.927
(0.967) 		0.51
(0.647) 		0.131
(0.225) 		0.0577
(0.113) 		0.198
(0.32) 		0.49
(0.63)
del 11p15 1 176 (16%) 907 0.0903
(0.164) 		0.679
(0.785) 		0.0697
(0.132) 		0.0372
(0.0771) 		0.0243
(0.0541) 		0.305
(0.447) 		0.00023
(0.000764) 		0.463
(0.605) 		0.528
(0.662)
del 14q24 2 290 (27%) 793 0.00176
(0.00519) 		0.0667
(0.127) 		0.0134
(0.0315) 		0.0602
(0.117) 		0.42
(0.566) 		0.178
(0.293) 		0.0504
(0.1) 		0.162
(0.272) 		0.483
(0.623)
del 15q14 212 (20%) 871 2.76e-07
(1.62e-06) 		2.63e-06
(1.42e-05) 		4.08e-09
(2.66e-08) 		0.351
(0.497) 		0.586
(0.704) 		0.0318
(0.068) 		1e-05
(3.91e-05) 		0.603
(0.716) 		0.568
(0.692)
del 16p12 2 114 (11%) 969 1.53e-10
(1.19e-09) 		1.07e-07
(6.4e-07) 		8.05e-11
(6.43e-10) 		0.368
(0.516) 		0.0611
(0.118) 		0.421
(0.567) 		1e-05
(3.91e-05) 		0.572
(0.693) 		1
(1.00)
amp 8q24 21 169 (16%) 914 0.000447
(0.00144) 		7.58e-05
(0.000267) 		0.000788
(0.00247) 		0.865
(0.928) 		0.424
(0.569) 		0.212
(0.335) 		0.00058
(0.00184) 		0.452
(0.595) 		0.204
(0.326)
amp 19p13 3 372 (34%) 711 0.0101
(0.0247) 		5.05e-05
(0.000183) 		2.19e-09
(1.47e-08) 		0.437
(0.578) 		0.763
(0.851) 		0.994
(1.00) 		1e-05
(3.91e-05) 		0.354
(0.499) 		0.52
(0.657)
amp 19p13 2 368 (34%) 715 0.000258
(0.000855) 		4.93e-07
(2.82e-06) 		1.98e-11
(1.64e-10) 		0.173
(0.286) 		0.595
(0.709) 		0.301
(0.441) 		1e-05
(3.91e-05) 		0.497
(0.635) 		0.516
(0.654)
del 1q42 11 77 (7%) 1006 0.0283
(0.0613) 		0.0334
(0.0711) 		0.0576
(0.113) 		0.549
(0.68) 		0.481
(0.623) 		0.0152
(0.0349) 		0.432
(0.576) 		0.211
(0.335) 		0.763
(0.851)
del 8q24 3 78 (7%) 1005 0.0126
(0.0301) 		0.185
(0.303) 		0.0248
(0.055) 		0.34
(0.485) 		0.0127
(0.0301) 		0.868
(0.93) 		0.0845
(0.156) 		0.251
(0.39) 		1
(1.00)
del 11p15 5 234 (22%) 849 0.673
(0.781) 		0.000747
(0.00235) 		0.417
(0.563) 		0.0515
(0.102) 		0.0146
(0.034) 		0.595
(0.709) 		3e-05
(0.000112) 		0.798
(0.885) 		1
(1.00)
del 11p11 2 159 (15%) 924 0.00283
(0.00806) 		0.377
(0.523) 		0.000289
(0.000952) 		0.258
(0.398) 		0.00293
(0.00827) 		0.635
(0.747) 		0.00012
(0.000414) 		0.657
(0.769) 		0.825
(0.897)
del 12p13 1 109 (10%) 974 0.0581
(0.113) 		0.483
(0.623) 		0.00631
(0.0164) 		0.61
(0.721) 		0.154
(0.261) 		0.844
(0.912) 		0.0114
(0.0275) 		0.287
(0.43) 		0.115
(0.203)
amp 2p24 3 72 (7%) 1011 0.0739
(0.139) 		0.689
(0.793) 		0.00715
(0.0182) 		0.462
(0.605) 		0.311
(0.451) 		0.372
(0.519) 		0.0675
(0.128) 		0.821
(0.896) 		0.758
(0.851)
del 2q37 1 121 (11%) 962 0.383
(0.53) 		0.0283
(0.0613) 		0.1
(0.18) 		0.495
(0.635) 		0.25
(0.39) 		0.497
(0.635) 		0.00613
(0.016) 		0.393
(0.539) 		1
(1.00)
del 5q34 132 (12%) 951 0.396
(0.54) 		0.0929
(0.168) 		0.926
(0.967) 		0.158
(0.267) 		0.00179
(0.00527) 		0.549
(0.68) 		0.00016
(0.000544) 		0.697
(0.798) 		1
(1.00)
amp 12p13 32 152 (14%) 931 0.833
(0.904) 		0.0291
(0.0626) 		0.54
(0.671) 		0.287
(0.43) 		0.00976
(0.024) 		0.841
(0.91) 		0.321
(0.464) 		0.745
(0.841) 		0.823
(0.896)
del 3q13 31 95 (9%) 988 0.114
(0.201) 		0.742
(0.84) 		0.237
(0.371) 		1
(1.00) 		0.0722
(0.136) 		0.43
(0.574) 		0.665
(0.773) 		0.481
(0.623) 		1
(1.00)
del 5p15 33 106 (10%) 977 0.281
(0.422) 		0.647
(0.757) 		1
(1.00) 		0.679
(0.785) 		0.000375
(0.00122) 		0.278
(0.419) 		0.0255
(0.0559) 		0.745
(0.841) 		1
(1.00)
del xq21 1 183 (17%) 900 0.49
(0.63) 		0.0388
(0.0799) 		0.169
(0.281) 		0.681
(0.787) 		0.564
(0.692) 		0.0989
(0.178) 		0.638
(0.749) 		0.694
(0.796) 		1
(1.00)
amp 11p13 59 (5%) 1024 0.707
(0.808) 		0.904
(0.958) 		0.79
(0.877) 		0.416
(0.563) 		0.432
(0.576) 		0.427
(0.571) 		0.114
(0.201) 		0.926
(0.967) 		0.31
(0.451)
amp 13q34 54 (5%) 1029 0.578
(0.697) 		0.976
(1.00) 		0.332
(0.476) 		0.396
(0.54) 		1
(1.00) 		0.0801
(0.149) 		0.583
(0.701) 		0.778
(0.866) 		1
(1.00)
del 3p21 31 108 (10%) 975 0.937
(0.973) 		0.259
(0.398) 		1
(1.00) 		0.918
(0.967) 		0.0012
(0.00366) 		0.19
(0.31) 		0.589
(0.704) 		0.721
(0.82) 		0.2
(0.322)
del 12q12 146 (13%) 937 0.8
(0.886) 		0.766
(0.854) 		0.929
(0.967) 		0.719
(0.819) 		0.29
(0.431) 		0.502
(0.638) 		0.00116
(0.00355) 		0.201
(0.323) 		0.257
(0.397)
del 12q15 141 (13%) 942 0.983
(1.00) 		0.762
(0.851) 		0.528
(0.662) 		0.855
(0.921) 		0.392
(0.539) 		0.948
(0.983) 		0.00702
(0.018) 		0.175
(0.29) 		1
(1.00)
del 18q23 151 (14%) 932 0.565
(0.692) 		0.0625
(0.121) 		0.661
(0.772) 		0.534
(0.664) 		0.297
(0.438) 		0.522
(0.657) 		0.264
(0.403) 		0.227
(0.357) 		0.262
(0.402)
del 1q44 69 (6%) 1014 0.203
(0.325) 		0.207
(0.33) 		0.619
(0.729) 		1
(1.00) 		0.309
(0.45) 		0.392
(0.539) 		0.928
(0.967) 		0.931
(0.967) 		1
(1.00)
del 3q29 107 (10%) 976 0.434
(0.577) 		0.891
(0.951) 		0.361
(0.507) 		0.607
(0.719) 		0.334
(0.478) 		0.167
(0.279) 		0.522
(0.657) 		0.917
(0.967) 		0.609
(0.721)
del xp22 2 227 (21%) 856 0.93
(0.967) 		0.273
(0.414) 		0.823
(0.896) 		0.289
(0.431) 		0.25
(0.39) 		0.166
(0.279) 		0.876
(0.936) 		0.923
(0.967) 		0.571
(0.693)
'amp_1p36.21' versus 'Time to Death'

P value = 8.52e-14 (logrank test), Q value = 8.8e-13

Table S1.  Gene #1: 'amp_1p36.21' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
AMP PEAK 1(1P36.21) MUTATED 103 85 0.1 - 92.7 (12.5)
AMP PEAK 1(1P36.21) WILD-TYPE 976 506 0.0 - 211.2 (16.2)

Figure S1.  Get High-res Image Gene #1: 'amp_1p36.21' versus Clinical Feature #1: 'Time to Death'

'amp_1p36.21' versus 'YEARS_TO_BIRTH'

P value = 3.52e-08 (Wilcoxon-test), Q value = 2.2e-07

Table S2.  Gene #1: 'amp_1p36.21' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
AMP PEAK 1(1P36.21) MUTATED 103 58.6 (13.0)
AMP PEAK 1(1P36.21) WILD-TYPE 979 49.9 (15.8)

Figure S2.  Get High-res Image Gene #1: 'amp_1p36.21' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_1p36.21' versus 'TUMOR_TISSUE_SITE'

P value = 9.73e-16 (Fisher's exact test), Q value = 1.2e-14

Table S3.  Gene #1: 'amp_1p36.21' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
AMP PEAK 1(1P36.21) MUTATED 91 12
AMP PEAK 1(1P36.21) WILD-TYPE 480 500

Figure S3.  Get High-res Image Gene #1: 'amp_1p36.21' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_1p36.21' versus 'RADIATION_THERAPY'

P value = 0.052 (Fisher's exact test), Q value = 0.1

Table S4.  Gene #1: 'amp_1p36.21' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
AMP PEAK 1(1P36.21) MUTATED 17 83
AMP PEAK 1(1P36.21) WILD-TYPE 241 684

Figure S4.  Get High-res Image Gene #1: 'amp_1p36.21' versus Clinical Feature #5: 'RADIATION_THERAPY'

'amp_1p36.21' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00265 (Wilcoxon-test), Q value = 0.0076

Table S5.  Gene #1: 'amp_1p36.21' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
AMP PEAK 1(1P36.21) MUTATED 66 76.7 (14.0)
AMP PEAK 1(1P36.21) WILD-TYPE 664 81.7 (14.7)

Figure S5.  Get High-res Image Gene #1: 'amp_1p36.21' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_1p36.21' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S6.  Gene #1: 'amp_1p36.21' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 1(1P36.21) MUTATED 9 0 0 3 1 90
AMP PEAK 1(1P36.21) WILD-TYPE 185 28 129 186 17 435

Figure S6.  Get High-res Image Gene #1: 'amp_1p36.21' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_1q22' versus 'Time to Death'

P value = 0.0214 (logrank test), Q value = 0.048

Table S7.  Gene #2: 'amp_1q22' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
AMP PEAK 2(1Q22) MUTATED 143 94 0.1 - 211.2 (14.6)
AMP PEAK 2(1Q22) WILD-TYPE 936 497 0.0 - 182.3 (16.0)

Figure S7.  Get High-res Image Gene #2: 'amp_1q22' versus Clinical Feature #1: 'Time to Death'

'amp_1q22' versus 'YEARS_TO_BIRTH'

P value = 0.00137 (Wilcoxon-test), Q value = 0.0041

Table S8.  Gene #2: 'amp_1q22' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
AMP PEAK 2(1Q22) MUTATED 143 54.4 (15.5)
AMP PEAK 2(1Q22) WILD-TYPE 939 50.2 (15.8)

Figure S8.  Get High-res Image Gene #2: 'amp_1q22' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_1q22' versus 'TUMOR_TISSUE_SITE'

P value = 3.81e-06 (Fisher's exact test), Q value = 2e-05

Table S9.  Gene #2: 'amp_1q22' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
AMP PEAK 2(1Q22) MUTATED 101 42
AMP PEAK 2(1Q22) WILD-TYPE 470 470

Figure S9.  Get High-res Image Gene #2: 'amp_1q22' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_1q22' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0481 (Wilcoxon-test), Q value = 0.097

Table S10.  Gene #2: 'amp_1q22' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
AMP PEAK 2(1Q22) MUTATED 98 78.8 (14.5)
AMP PEAK 2(1Q22) WILD-TYPE 632 81.7 (14.7)

Figure S10.  Get High-res Image Gene #2: 'amp_1q22' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_1q22' versus 'HISTOLOGICAL_TYPE'

P value = 3e-05 (Fisher's exact test), Q value = 0.00011

Table S11.  Gene #2: 'amp_1q22' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 2(1Q22) MUTATED 19 1 6 17 3 97
AMP PEAK 2(1Q22) WILD-TYPE 175 27 123 172 15 428

Figure S11.  Get High-res Image Gene #2: 'amp_1q22' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_1q22' versus 'ETHNICITY'

P value = 0.107 (Fisher's exact test), Q value = 0.19

Table S12.  Gene #2: 'amp_1q22' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 44 919
AMP PEAK 2(1Q22) MUTATED 2 121
AMP PEAK 2(1Q22) WILD-TYPE 42 798

Figure S12.  Get High-res Image Gene #2: 'amp_1q22' versus Clinical Feature #9: 'ETHNICITY'

'amp_1q32.1' versus 'Time to Death'

P value = 2.28e-12 (logrank test), Q value = 2.1e-11

Table S13.  Gene #3: 'amp_1q32.1' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
AMP PEAK 3(1Q32.1) MUTATED 202 151 0.1 - 211.2 (13.3)
AMP PEAK 3(1Q32.1) WILD-TYPE 877 440 0.0 - 182.3 (16.6)

Figure S13.  Get High-res Image Gene #3: 'amp_1q32.1' versus Clinical Feature #1: 'Time to Death'

'amp_1q32.1' versus 'YEARS_TO_BIRTH'

P value = 3.54e-13 (Wilcoxon-test), Q value = 3.4e-12

Table S14.  Gene #3: 'amp_1q32.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
AMP PEAK 3(1Q32.1) MUTATED 203 57.8 (14.0)
AMP PEAK 3(1Q32.1) WILD-TYPE 879 49.1 (15.7)

Figure S14.  Get High-res Image Gene #3: 'amp_1q32.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_1q32.1' versus 'TUMOR_TISSUE_SITE'

P value = 5.39e-16 (Fisher's exact test), Q value = 6.8e-15

Table S15.  Gene #3: 'amp_1q32.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
AMP PEAK 3(1Q32.1) MUTATED 158 45
AMP PEAK 3(1Q32.1) WILD-TYPE 413 467

Figure S15.  Get High-res Image Gene #3: 'amp_1q32.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_1q32.1' versus 'RADIATION_THERAPY'

P value = 0.017 (Fisher's exact test), Q value = 0.039

Table S16.  Gene #3: 'amp_1q32.1' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
AMP PEAK 3(1Q32.1) MUTATED 36 159
AMP PEAK 3(1Q32.1) WILD-TYPE 222 608

Figure S16.  Get High-res Image Gene #3: 'amp_1q32.1' versus Clinical Feature #5: 'RADIATION_THERAPY'

'amp_1q32.1' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.000164 (Wilcoxon-test), Q value = 0.00055

Table S17.  Gene #3: 'amp_1q32.1' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
AMP PEAK 3(1Q32.1) MUTATED 138 77.2 (15.0)
AMP PEAK 3(1Q32.1) WILD-TYPE 592 82.2 (14.5)

Figure S17.  Get High-res Image Gene #3: 'amp_1q32.1' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_1q32.1' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S18.  Gene #3: 'amp_1q32.1' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 3(1Q32.1) MUTATED 23 7 7 15 5 146
AMP PEAK 3(1Q32.1) WILD-TYPE 171 21 122 174 13 379

Figure S18.  Get High-res Image Gene #3: 'amp_1q32.1' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_1q32.1' versus 'ETHNICITY'

P value = 0.0146 (Fisher's exact test), Q value = 0.034

Table S19.  Gene #3: 'amp_1q32.1' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 44 919
AMP PEAK 3(1Q32.1) MUTATED 2 172
AMP PEAK 3(1Q32.1) WILD-TYPE 42 747

Figure S19.  Get High-res Image Gene #3: 'amp_1q32.1' versus Clinical Feature #9: 'ETHNICITY'

'amp_1q44' versus 'Time to Death'

P value = 2.82e-06 (logrank test), Q value = 1.5e-05

Table S20.  Gene #4: 'amp_1q44' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
AMP PEAK 4(1Q44) MUTATED 128 92 0.1 - 211.2 (14.3)
AMP PEAK 4(1Q44) WILD-TYPE 951 499 0.0 - 182.3 (16.1)

Figure S20.  Get High-res Image Gene #4: 'amp_1q44' versus Clinical Feature #1: 'Time to Death'

'amp_1q44' versus 'YEARS_TO_BIRTH'

P value = 4.72e-06 (Wilcoxon-test), Q value = 2.4e-05

Table S21.  Gene #4: 'amp_1q44' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
AMP PEAK 4(1Q44) MUTATED 128 56.5 (14.5)
AMP PEAK 4(1Q44) WILD-TYPE 954 50.0 (15.8)

Figure S21.  Get High-res Image Gene #4: 'amp_1q44' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_1q44' versus 'TUMOR_TISSUE_SITE'

P value = 5.06e-09 (Fisher's exact test), Q value = 3.2e-08

Table S22.  Gene #4: 'amp_1q44' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
AMP PEAK 4(1Q44) MUTATED 98 30
AMP PEAK 4(1Q44) WILD-TYPE 473 482

Figure S22.  Get High-res Image Gene #4: 'amp_1q44' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_1q44' versus 'RADIATION_THERAPY'

P value = 0.123 (Fisher's exact test), Q value = 0.21

Table S23.  Gene #4: 'amp_1q44' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
AMP PEAK 4(1Q44) MUTATED 24 100
AMP PEAK 4(1Q44) WILD-TYPE 234 667

Figure S23.  Get High-res Image Gene #4: 'amp_1q44' versus Clinical Feature #5: 'RADIATION_THERAPY'

'amp_1q44' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00305 (Wilcoxon-test), Q value = 0.0085

Table S24.  Gene #4: 'amp_1q44' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
AMP PEAK 4(1Q44) MUTATED 84 77.4 (14.2)
AMP PEAK 4(1Q44) WILD-TYPE 646 81.8 (14.7)

Figure S24.  Get High-res Image Gene #4: 'amp_1q44' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_1q44' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S25.  Gene #4: 'amp_1q44' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 4(1Q44) MUTATED 15 1 5 10 3 94
AMP PEAK 4(1Q44) WILD-TYPE 179 27 124 179 15 431

Figure S25.  Get High-res Image Gene #4: 'amp_1q44' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_2p24.3' versus 'Time to Death'

P value = 0.0739 (logrank test), Q value = 0.14

Table S26.  Gene #5: 'amp_2p24.3' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
AMP PEAK 5(2P24.3) MUTATED 72 49 0.1 - 94.5 (16.0)
AMP PEAK 5(2P24.3) WILD-TYPE 1007 542 0.0 - 211.2 (15.7)

Figure S26.  Get High-res Image Gene #5: 'amp_2p24.3' versus Clinical Feature #1: 'Time to Death'

'amp_2p24.3' versus 'TUMOR_TISSUE_SITE'

P value = 0.00715 (Fisher's exact test), Q value = 0.018

Table S27.  Gene #5: 'amp_2p24.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
AMP PEAK 5(2P24.3) MUTATED 49 23
AMP PEAK 5(2P24.3) WILD-TYPE 522 489

Figure S27.  Get High-res Image Gene #5: 'amp_2p24.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_2p24.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.0675 (Fisher's exact test), Q value = 0.13

Table S28.  Gene #5: 'amp_2p24.3' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 5(2P24.3) MUTATED 12 2 3 8 1 46
AMP PEAK 5(2P24.3) WILD-TYPE 182 26 126 181 17 479

Figure S28.  Get High-res Image Gene #5: 'amp_2p24.3' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_3p25.3' versus 'Time to Death'

P value = 0.0319 (logrank test), Q value = 0.068

Table S29.  Gene #6: 'amp_3p25.3' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
AMP PEAK 6(3P25.3) MUTATED 84 56 0.2 - 127.6 (12.7)
AMP PEAK 6(3P25.3) WILD-TYPE 995 535 0.0 - 211.2 (15.8)

Figure S29.  Get High-res Image Gene #6: 'amp_3p25.3' versus Clinical Feature #1: 'Time to Death'

'amp_3p25.3' versus 'YEARS_TO_BIRTH'

P value = 0.0366 (Wilcoxon-test), Q value = 0.076

Table S30.  Gene #6: 'amp_3p25.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
AMP PEAK 6(3P25.3) MUTATED 84 54.2 (15.8)
AMP PEAK 6(3P25.3) WILD-TYPE 998 50.5 (15.8)

Figure S30.  Get High-res Image Gene #6: 'amp_3p25.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_3p25.3' versus 'TUMOR_TISSUE_SITE'

P value = 0.000888 (Fisher's exact test), Q value = 0.0027

Table S31.  Gene #6: 'amp_3p25.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
AMP PEAK 6(3P25.3) MUTATED 59 25
AMP PEAK 6(3P25.3) WILD-TYPE 512 487

Figure S31.  Get High-res Image Gene #6: 'amp_3p25.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_3p25.3' versus 'GENDER'

P value = 0.0835 (Fisher's exact test), Q value = 0.15

Table S32.  Gene #6: 'amp_3p25.3' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 452 631
AMP PEAK 6(3P25.3) MUTATED 43 41
AMP PEAK 6(3P25.3) WILD-TYPE 409 590

Figure S32.  Get High-res Image Gene #6: 'amp_3p25.3' versus Clinical Feature #4: 'GENDER'

'amp_3p25.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.00972 (Fisher's exact test), Q value = 0.024

Table S33.  Gene #6: 'amp_3p25.3' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 6(3P25.3) MUTATED 13 1 5 7 1 57
AMP PEAK 6(3P25.3) WILD-TYPE 181 27 124 182 17 468

Figure S33.  Get High-res Image Gene #6: 'amp_3p25.3' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_3q26.33' versus 'Time to Death'

P value = 3.64e-14 (logrank test), Q value = 3.9e-13

Table S34.  Gene #7: 'amp_3q26.33' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
AMP PEAK 7(3Q26.33) MUTATED 128 98 0.1 - 127.6 (10.5)
AMP PEAK 7(3Q26.33) WILD-TYPE 951 493 0.0 - 211.2 (16.5)

Figure S34.  Get High-res Image Gene #7: 'amp_3q26.33' versus Clinical Feature #1: 'Time to Death'

'amp_3q26.33' versus 'YEARS_TO_BIRTH'

P value = 8.37e-10 (Wilcoxon-test), Q value = 5.9e-09

Table S35.  Gene #7: 'amp_3q26.33' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
AMP PEAK 7(3Q26.33) MUTATED 129 58.6 (12.9)
AMP PEAK 7(3Q26.33) WILD-TYPE 953 49.7 (15.8)

Figure S35.  Get High-res Image Gene #7: 'amp_3q26.33' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_3q26.33' versus 'TUMOR_TISSUE_SITE'

P value = 8.32e-15 (Fisher's exact test), Q value = 9.4e-14

Table S36.  Gene #7: 'amp_3q26.33' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
AMP PEAK 7(3Q26.33) MUTATED 108 21
AMP PEAK 7(3Q26.33) WILD-TYPE 463 491

Figure S36.  Get High-res Image Gene #7: 'amp_3q26.33' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_3q26.33' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.000652 (Wilcoxon-test), Q value = 0.0021

Table S37.  Gene #7: 'amp_3q26.33' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
AMP PEAK 7(3Q26.33) MUTATED 95 77.4 (13.1)
AMP PEAK 7(3Q26.33) WILD-TYPE 635 81.9 (14.8)

Figure S37.  Get High-res Image Gene #7: 'amp_3q26.33' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_3q26.33' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S38.  Gene #7: 'amp_3q26.33' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 7(3Q26.33) MUTATED 15 0 1 5 0 108
AMP PEAK 7(3Q26.33) WILD-TYPE 179 28 128 184 18 417

Figure S38.  Get High-res Image Gene #7: 'amp_3q26.33' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_3q26.33' versus 'ETHNICITY'

P value = 0.077 (Fisher's exact test), Q value = 0.14

Table S39.  Gene #7: 'amp_3q26.33' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 44 919
AMP PEAK 7(3Q26.33) MUTATED 1 102
AMP PEAK 7(3Q26.33) WILD-TYPE 43 817

Figure S39.  Get High-res Image Gene #7: 'amp_3q26.33' versus Clinical Feature #9: 'ETHNICITY'

'amp_4p16.3' versus 'Time to Death'

P value = 0.0115 (logrank test), Q value = 0.028

Table S40.  Gene #8: 'amp_4p16.3' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
AMP PEAK 8(4P16.3) MUTATED 70 48 0.2 - 94.5 (13.9)
AMP PEAK 8(4P16.3) WILD-TYPE 1009 543 0.0 - 211.2 (15.8)

Figure S40.  Get High-res Image Gene #8: 'amp_4p16.3' versus Clinical Feature #1: 'Time to Death'

'amp_4p16.3' versus 'YEARS_TO_BIRTH'

P value = 0.0463 (Wilcoxon-test), Q value = 0.093

Table S41.  Gene #8: 'amp_4p16.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
AMP PEAK 8(4P16.3) MUTATED 70 54.2 (14.6)
AMP PEAK 8(4P16.3) WILD-TYPE 1012 50.5 (15.8)

Figure S41.  Get High-res Image Gene #8: 'amp_4p16.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_4p16.3' versus 'TUMOR_TISSUE_SITE'

P value = 0.00633 (Fisher's exact test), Q value = 0.016

Table S42.  Gene #8: 'amp_4p16.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
AMP PEAK 8(4P16.3) MUTATED 48 22
AMP PEAK 8(4P16.3) WILD-TYPE 523 490

Figure S42.  Get High-res Image Gene #8: 'amp_4p16.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_4p16.3' versus 'RADIATION_THERAPY'

P value = 0.02 (Fisher's exact test), Q value = 0.045

Table S43.  Gene #8: 'amp_4p16.3' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
AMP PEAK 8(4P16.3) MUTATED 9 58
AMP PEAK 8(4P16.3) WILD-TYPE 249 709

Figure S43.  Get High-res Image Gene #8: 'amp_4p16.3' versus Clinical Feature #5: 'RADIATION_THERAPY'

'amp_4p16.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.0451 (Fisher's exact test), Q value = 0.092

Table S44.  Gene #8: 'amp_4p16.3' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 8(4P16.3) MUTATED 12 1 3 7 1 46
AMP PEAK 8(4P16.3) WILD-TYPE 182 27 126 182 17 479

Figure S44.  Get High-res Image Gene #8: 'amp_4p16.3' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_4q12' versus 'Time to Death'

P value = 4.93e-10 (logrank test), Q value = 3.6e-09

Table S45.  Gene #9: 'amp_4q12' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
AMP PEAK 9(4Q12) MUTATED 138 101 0.1 - 92.7 (11.9)
AMP PEAK 9(4Q12) WILD-TYPE 941 490 0.0 - 211.2 (16.2)

Figure S45.  Get High-res Image Gene #9: 'amp_4q12' versus Clinical Feature #1: 'Time to Death'

'amp_4q12' versus 'YEARS_TO_BIRTH'

P value = 4.41e-06 (Wilcoxon-test), Q value = 2.3e-05

Table S46.  Gene #9: 'amp_4q12' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
AMP PEAK 9(4Q12) MUTATED 138 56.2 (15.1)
AMP PEAK 9(4Q12) WILD-TYPE 944 50.0 (15.7)

Figure S46.  Get High-res Image Gene #9: 'amp_4q12' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_4q12' versus 'TUMOR_TISSUE_SITE'

P value = 4.38e-11 (Fisher's exact test), Q value = 3.6e-10

Table S47.  Gene #9: 'amp_4q12' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
AMP PEAK 9(4Q12) MUTATED 108 30
AMP PEAK 9(4Q12) WILD-TYPE 463 482

Figure S47.  Get High-res Image Gene #9: 'amp_4q12' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_4q12' versus 'RADIATION_THERAPY'

P value = 0.086 (Fisher's exact test), Q value = 0.16

Table S48.  Gene #9: 'amp_4q12' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
AMP PEAK 9(4Q12) MUTATED 25 108
AMP PEAK 9(4Q12) WILD-TYPE 233 659

Figure S48.  Get High-res Image Gene #9: 'amp_4q12' versus Clinical Feature #5: 'RADIATION_THERAPY'

'amp_4q12' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0486 (Wilcoxon-test), Q value = 0.097

Table S49.  Gene #9: 'amp_4q12' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
AMP PEAK 9(4Q12) MUTATED 100 78.7 (15.4)
AMP PEAK 9(4Q12) WILD-TYPE 630 81.7 (14.5)

Figure S49.  Get High-res Image Gene #9: 'amp_4q12' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_4q12' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S50.  Gene #9: 'amp_4q12' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 9(4Q12) MUTATED 21 4 2 7 2 102
AMP PEAK 9(4Q12) WILD-TYPE 173 24 127 182 16 423

Figure S50.  Get High-res Image Gene #9: 'amp_4q12' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_5p15.33' versus 'Time to Death'

P value = 0.000888 (logrank test), Q value = 0.0027

Table S51.  Gene #10: 'amp_5p15.33' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
AMP PEAK 10(5P15.33) MUTATED 76 57 0.2 - 92.7 (12.9)
AMP PEAK 10(5P15.33) WILD-TYPE 1003 534 0.0 - 211.2 (15.9)

Figure S51.  Get High-res Image Gene #10: 'amp_5p15.33' versus Clinical Feature #1: 'Time to Death'

'amp_5p15.33' versus 'YEARS_TO_BIRTH'

P value = 0.0368 (Wilcoxon-test), Q value = 0.076

Table S52.  Gene #10: 'amp_5p15.33' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
AMP PEAK 10(5P15.33) MUTATED 76 54.2 (16.4)
AMP PEAK 10(5P15.33) WILD-TYPE 1006 50.5 (15.7)

Figure S52.  Get High-res Image Gene #10: 'amp_5p15.33' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_5p15.33' versus 'TUMOR_TISSUE_SITE'

P value = 1.23e-06 (Fisher's exact test), Q value = 6.7e-06

Table S53.  Gene #10: 'amp_5p15.33' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
AMP PEAK 10(5P15.33) MUTATED 60 16
AMP PEAK 10(5P15.33) WILD-TYPE 511 496

Figure S53.  Get High-res Image Gene #10: 'amp_5p15.33' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_5p15.33' versus 'RADIATION_THERAPY'

P value = 0.118 (Fisher's exact test), Q value = 0.21

Table S54.  Gene #10: 'amp_5p15.33' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
AMP PEAK 10(5P15.33) MUTATED 12 59
AMP PEAK 10(5P15.33) WILD-TYPE 246 708

Figure S54.  Get High-res Image Gene #10: 'amp_5p15.33' versus Clinical Feature #5: 'RADIATION_THERAPY'

'amp_5p15.33' versus 'HISTOLOGICAL_TYPE'

P value = 2e-05 (Fisher's exact test), Q value = 7.5e-05

Table S55.  Gene #10: 'amp_5p15.33' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 10(5P15.33) MUTATED 10 3 4 2 4 53
AMP PEAK 10(5P15.33) WILD-TYPE 184 25 125 187 14 472

Figure S55.  Get High-res Image Gene #10: 'amp_5p15.33' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_7p11.2' versus 'Time to Death'

P value = 0 (logrank test), Q value = 0

Table S56.  Gene #11: 'amp_7p11.2' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
AMP PEAK 11(7P11.2) MUTATED 628 476 0.1 - 211.2 (12.6)
AMP PEAK 11(7P11.2) WILD-TYPE 451 115 0.0 - 182.3 (22.1)

Figure S56.  Get High-res Image Gene #11: 'amp_7p11.2' versus Clinical Feature #1: 'Time to Death'

'amp_7p11.2' versus 'YEARS_TO_BIRTH'

P value = 1.71e-68 (Wilcoxon-test), Q value = 4.3e-67

Table S57.  Gene #11: 'amp_7p11.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
AMP PEAK 11(7P11.2) MUTATED 629 57.8 (13.2)
AMP PEAK 11(7P11.2) WILD-TYPE 453 41.0 (13.7)

Figure S57.  Get High-res Image Gene #11: 'amp_7p11.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_7p11.2' versus 'TUMOR_TISSUE_SITE'

P value = 3.58e-104 (Fisher's exact test), Q value = 1.2e-102

Table S58.  Gene #11: 'amp_7p11.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
AMP PEAK 11(7P11.2) MUTATED 501 128
AMP PEAK 11(7P11.2) WILD-TYPE 70 384

Figure S58.  Get High-res Image Gene #11: 'amp_7p11.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_7p11.2' versus 'RADIATION_THERAPY'

P value = 8.74e-14 (Fisher's exact test), Q value = 8.8e-13

Table S59.  Gene #11: 'amp_7p11.2' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
AMP PEAK 11(7P11.2) MUTATED 99 500
AMP PEAK 11(7P11.2) WILD-TYPE 159 267

Figure S59.  Get High-res Image Gene #11: 'amp_7p11.2' versus Clinical Feature #5: 'RADIATION_THERAPY'

'amp_7p11.2' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 2.26e-19 (Wilcoxon-test), Q value = 3.6e-18

Table S60.  Gene #11: 'amp_7p11.2' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
AMP PEAK 11(7P11.2) MUTATED 449 77.7 (15.3)
AMP PEAK 11(7P11.2) WILD-TYPE 281 87.1 (11.5)

Figure S60.  Get High-res Image Gene #11: 'amp_7p11.2' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_7p11.2' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S61.  Gene #11: 'amp_7p11.2' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 11(7P11.2) MUTATED 58 23 33 37 13 465
AMP PEAK 11(7P11.2) WILD-TYPE 136 5 96 152 5 60

Figure S61.  Get High-res Image Gene #11: 'amp_7p11.2' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_7p11.2' versus 'RACE'

P value = 0.00508 (Fisher's exact test), Q value = 0.013

Table S62.  Gene #11: 'amp_7p11.2' versus Clinical Feature #8: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 1 21 71 957
AMP PEAK 11(7P11.2) MUTATED 1 12 54 540
AMP PEAK 11(7P11.2) WILD-TYPE 0 9 17 417

Figure S62.  Get High-res Image Gene #11: 'amp_7p11.2' versus Clinical Feature #8: 'RACE'

'amp_7p11.2' versus 'ETHNICITY'

P value = 0.0077 (Fisher's exact test), Q value = 0.019

Table S63.  Gene #11: 'amp_7p11.2' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 44 919
AMP PEAK 11(7P11.2) MUTATED 16 527
AMP PEAK 11(7P11.2) WILD-TYPE 28 392

Figure S63.  Get High-res Image Gene #11: 'amp_7p11.2' versus Clinical Feature #9: 'ETHNICITY'

'amp_7q11.21' versus 'Time to Death'

P value = 0 (logrank test), Q value = 0

Table S64.  Gene #12: 'amp_7q11.21' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
AMP PEAK 12(7Q11.21) MUTATED 575 432 0.1 - 211.2 (12.6)
AMP PEAK 12(7Q11.21) WILD-TYPE 504 159 0.0 - 182.3 (20.9)

Figure S64.  Get High-res Image Gene #12: 'amp_7q11.21' versus Clinical Feature #1: 'Time to Death'

'amp_7q11.21' versus 'YEARS_TO_BIRTH'

P value = 4.47e-55 (Wilcoxon-test), Q value = 9.9e-54

Table S65.  Gene #12: 'amp_7q11.21' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
AMP PEAK 12(7Q11.21) MUTATED 576 57.8 (13.2)
AMP PEAK 12(7Q11.21) WILD-TYPE 506 42.8 (14.6)

Figure S65.  Get High-res Image Gene #12: 'amp_7q11.21' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_7q11.21' versus 'TUMOR_TISSUE_SITE'

P value = 1.36e-84 (Fisher's exact test), Q value = 4.2e-83

Table S66.  Gene #12: 'amp_7q11.21' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
AMP PEAK 12(7Q11.21) MUTATED 459 117
AMP PEAK 12(7Q11.21) WILD-TYPE 112 395

Figure S66.  Get High-res Image Gene #12: 'amp_7q11.21' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_7q11.21' versus 'RADIATION_THERAPY'

P value = 5.95e-11 (Fisher's exact test), Q value = 4.8e-10

Table S67.  Gene #12: 'amp_7q11.21' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
AMP PEAK 12(7Q11.21) MUTATED 92 455
AMP PEAK 12(7Q11.21) WILD-TYPE 166 312

Figure S67.  Get High-res Image Gene #12: 'amp_7q11.21' versus Clinical Feature #5: 'RADIATION_THERAPY'

'amp_7q11.21' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 8.71e-14 (Wilcoxon-test), Q value = 8.8e-13

Table S68.  Gene #12: 'amp_7q11.21' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
AMP PEAK 12(7Q11.21) MUTATED 407 77.9 (15.3)
AMP PEAK 12(7Q11.21) WILD-TYPE 323 85.5 (12.7)

Figure S68.  Get High-res Image Gene #12: 'amp_7q11.21' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_7q11.21' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S69.  Gene #12: 'amp_7q11.21' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 12(7Q11.21) MUTATED 51 20 31 35 10 429
AMP PEAK 12(7Q11.21) WILD-TYPE 143 8 98 154 8 96

Figure S69.  Get High-res Image Gene #12: 'amp_7q11.21' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_7q11.21' versus 'RACE'

P value = 0.00298 (Fisher's exact test), Q value = 0.0084

Table S70.  Gene #12: 'amp_7q11.21' versus Clinical Feature #8: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 1 21 71 957
AMP PEAK 12(7Q11.21) MUTATED 1 10 51 492
AMP PEAK 12(7Q11.21) WILD-TYPE 0 11 20 465

Figure S70.  Get High-res Image Gene #12: 'amp_7q11.21' versus Clinical Feature #8: 'RACE'

'amp_7q11.21' versus 'ETHNICITY'

P value = 0.00829 (Fisher's exact test), Q value = 0.021

Table S71.  Gene #12: 'amp_7q11.21' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 44 919
AMP PEAK 12(7Q11.21) MUTATED 14 483
AMP PEAK 12(7Q11.21) WILD-TYPE 30 436

Figure S71.  Get High-res Image Gene #12: 'amp_7q11.21' versus Clinical Feature #9: 'ETHNICITY'

'amp_7q21.2' versus 'Time to Death'

P value = 0 (logrank test), Q value = 0

Table S72.  Gene #13: 'amp_7q21.2' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
AMP PEAK 13(7Q21.2) MUTATED 629 455 0.1 - 211.2 (13.1)
AMP PEAK 13(7Q21.2) WILD-TYPE 450 136 0.0 - 182.3 (21.1)

Figure S72.  Get High-res Image Gene #13: 'amp_7q21.2' versus Clinical Feature #1: 'Time to Death'

'amp_7q21.2' versus 'YEARS_TO_BIRTH'

P value = 4.83e-50 (Wilcoxon-test), Q value = 1e-48

Table S73.  Gene #13: 'amp_7q21.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
AMP PEAK 13(7Q21.2) MUTATED 630 56.8 (13.5)
AMP PEAK 13(7Q21.2) WILD-TYPE 452 42.4 (14.9)

Figure S73.  Get High-res Image Gene #13: 'amp_7q21.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_7q21.2' versus 'TUMOR_TISSUE_SITE'

P value = 9.69e-72 (Fisher's exact test), Q value = 2.8e-70

Table S74.  Gene #13: 'amp_7q21.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
AMP PEAK 13(7Q21.2) MUTATED 474 156
AMP PEAK 13(7Q21.2) WILD-TYPE 97 356

Figure S74.  Get High-res Image Gene #13: 'amp_7q21.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_7q21.2' versus 'RADIATION_THERAPY'

P value = 1.19e-11 (Fisher's exact test), Q value = 1e-10

Table S75.  Gene #13: 'amp_7q21.2' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
AMP PEAK 13(7Q21.2) MUTATED 104 496
AMP PEAK 13(7Q21.2) WILD-TYPE 154 271

Figure S75.  Get High-res Image Gene #13: 'amp_7q21.2' versus Clinical Feature #5: 'RADIATION_THERAPY'

'amp_7q21.2' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 3.39e-12 (Wilcoxon-test), Q value = 3e-11

Table S76.  Gene #13: 'amp_7q21.2' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
AMP PEAK 13(7Q21.2) MUTATED 441 78.4 (15.5)
AMP PEAK 13(7Q21.2) WILD-TYPE 289 85.7 (12.1)

Figure S76.  Get High-res Image Gene #13: 'amp_7q21.2' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_7q21.2' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S77.  Gene #13: 'amp_7q21.2' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 13(7Q21.2) MUTATED 68 22 40 48 12 440
AMP PEAK 13(7Q21.2) WILD-TYPE 126 6 89 141 6 85

Figure S77.  Get High-res Image Gene #13: 'amp_7q21.2' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_7q21.2' versus 'RACE'

P value = 0.00132 (Fisher's exact test), Q value = 0.004

Table S78.  Gene #13: 'amp_7q21.2' versus Clinical Feature #8: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 1 21 71 957
AMP PEAK 13(7Q21.2) MUTATED 1 10 55 542
AMP PEAK 13(7Q21.2) WILD-TYPE 0 11 16 415

Figure S78.  Get High-res Image Gene #13: 'amp_7q21.2' versus Clinical Feature #8: 'RACE'

'amp_7q21.2' versus 'ETHNICITY'

P value = 0.00264 (Fisher's exact test), Q value = 0.0076

Table S79.  Gene #13: 'amp_7q21.2' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 44 919
AMP PEAK 13(7Q21.2) MUTATED 15 535
AMP PEAK 13(7Q21.2) WILD-TYPE 29 384

Figure S79.  Get High-res Image Gene #13: 'amp_7q21.2' versus Clinical Feature #9: 'ETHNICITY'

'amp_7q31.2' versus 'Time to Death'

P value = 0 (logrank test), Q value = 0

Table S80.  Gene #14: 'amp_7q31.2' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
AMP PEAK 14(7Q31.2) MUTATED 639 450 0.1 - 211.2 (13.6)
AMP PEAK 14(7Q31.2) WILD-TYPE 440 141 0.0 - 182.3 (20.7)

Figure S80.  Get High-res Image Gene #14: 'amp_7q31.2' versus Clinical Feature #1: 'Time to Death'

'amp_7q31.2' versus 'YEARS_TO_BIRTH'

P value = 5.49e-40 (Wilcoxon-test), Q value = 1.1e-38

Table S81.  Gene #14: 'amp_7q31.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
AMP PEAK 14(7Q31.2) MUTATED 640 56.1 (13.8)
AMP PEAK 14(7Q31.2) WILD-TYPE 442 43.1 (15.4)

Figure S81.  Get High-res Image Gene #14: 'amp_7q31.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_7q31.2' versus 'TUMOR_TISSUE_SITE'

P value = 3.92e-59 (Fisher's exact test), Q value = 9.3e-58

Table S82.  Gene #14: 'amp_7q31.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
AMP PEAK 14(7Q31.2) MUTATED 466 174
AMP PEAK 14(7Q31.2) WILD-TYPE 105 338

Figure S82.  Get High-res Image Gene #14: 'amp_7q31.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_7q31.2' versus 'RADIATION_THERAPY'

P value = 1.49e-09 (Fisher's exact test), Q value = 1e-08

Table S83.  Gene #14: 'amp_7q31.2' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
AMP PEAK 14(7Q31.2) MUTATED 111 496
AMP PEAK 14(7Q31.2) WILD-TYPE 147 271

Figure S83.  Get High-res Image Gene #14: 'amp_7q31.2' versus Clinical Feature #5: 'RADIATION_THERAPY'

'amp_7q31.2' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 2.97e-09 (Wilcoxon-test), Q value = 2e-08

Table S84.  Gene #14: 'amp_7q31.2' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
AMP PEAK 14(7Q31.2) MUTATED 444 78.9 (15.2)
AMP PEAK 14(7Q31.2) WILD-TYPE 286 85.0 (13.1)

Figure S84.  Get High-res Image Gene #14: 'amp_7q31.2' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_7q31.2' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S85.  Gene #14: 'amp_7q31.2' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 14(7Q31.2) MUTATED 75 21 47 52 13 432
AMP PEAK 14(7Q31.2) WILD-TYPE 119 7 82 137 5 93

Figure S85.  Get High-res Image Gene #14: 'amp_7q31.2' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_7q31.2' versus 'RACE'

P value = 0.00839 (Fisher's exact test), Q value = 0.021

Table S86.  Gene #14: 'amp_7q31.2' versus Clinical Feature #8: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 1 21 71 957
AMP PEAK 14(7Q31.2) MUTATED 1 11 54 553
AMP PEAK 14(7Q31.2) WILD-TYPE 0 10 17 404

Figure S86.  Get High-res Image Gene #14: 'amp_7q31.2' versus Clinical Feature #8: 'RACE'

'amp_7q31.2' versus 'ETHNICITY'

P value = 0.00285 (Fisher's exact test), Q value = 0.0081

Table S87.  Gene #14: 'amp_7q31.2' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 44 919
AMP PEAK 14(7Q31.2) MUTATED 16 546
AMP PEAK 14(7Q31.2) WILD-TYPE 28 373

Figure S87.  Get High-res Image Gene #14: 'amp_7q31.2' versus Clinical Feature #9: 'ETHNICITY'

'amp_7q32.3' versus 'Time to Death'

P value = 0 (logrank test), Q value = 0

Table S88.  Gene #15: 'amp_7q32.3' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
AMP PEAK 15(7Q32.3) MUTATED 652 456 0.1 - 211.2 (13.7)
AMP PEAK 15(7Q32.3) WILD-TYPE 427 135 0.0 - 182.3 (20.7)

Figure S88.  Get High-res Image Gene #15: 'amp_7q32.3' versus Clinical Feature #1: 'Time to Death'

'amp_7q32.3' versus 'YEARS_TO_BIRTH'

P value = 1.31e-40 (Wilcoxon-test), Q value = 2.6e-39

Table S89.  Gene #15: 'amp_7q32.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
AMP PEAK 15(7Q32.3) MUTATED 653 56.0 (13.8)
AMP PEAK 15(7Q32.3) WILD-TYPE 429 42.9 (15.4)

Figure S89.  Get High-res Image Gene #15: 'amp_7q32.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_7q32.3' versus 'TUMOR_TISSUE_SITE'

P value = 5.3e-58 (Fisher's exact test), Q value = 1.2e-56

Table S90.  Gene #15: 'amp_7q32.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
AMP PEAK 15(7Q32.3) MUTATED 471 182
AMP PEAK 15(7Q32.3) WILD-TYPE 100 330

Figure S90.  Get High-res Image Gene #15: 'amp_7q32.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_7q32.3' versus 'RADIATION_THERAPY'

P value = 1.74e-10 (Fisher's exact test), Q value = 1.3e-09

Table S91.  Gene #15: 'amp_7q32.3' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
AMP PEAK 15(7Q32.3) MUTATED 112 508
AMP PEAK 15(7Q32.3) WILD-TYPE 146 259

Figure S91.  Get High-res Image Gene #15: 'amp_7q32.3' versus Clinical Feature #5: 'RADIATION_THERAPY'

'amp_7q32.3' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 4.21e-09 (Wilcoxon-test), Q value = 2.7e-08

Table S92.  Gene #15: 'amp_7q32.3' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
AMP PEAK 15(7Q32.3) MUTATED 454 78.9 (15.3)
AMP PEAK 15(7Q32.3) WILD-TYPE 276 85.1 (12.7)

Figure S92.  Get High-res Image Gene #15: 'amp_7q32.3' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_7q32.3' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S93.  Gene #15: 'amp_7q32.3' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 15(7Q32.3) MUTATED 78 21 49 55 12 438
AMP PEAK 15(7Q32.3) WILD-TYPE 116 7 80 134 6 87

Figure S93.  Get High-res Image Gene #15: 'amp_7q32.3' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_7q32.3' versus 'RACE'

P value = 0.00604 (Fisher's exact test), Q value = 0.016

Table S94.  Gene #15: 'amp_7q32.3' versus Clinical Feature #8: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 1 21 71 957
AMP PEAK 15(7Q32.3) MUTATED 1 11 55 565
AMP PEAK 15(7Q32.3) WILD-TYPE 0 10 16 392

Figure S94.  Get High-res Image Gene #15: 'amp_7q32.3' versus Clinical Feature #8: 'RACE'

'amp_7q32.3' versus 'ETHNICITY'

P value = 0.00153 (Fisher's exact test), Q value = 0.0046

Table S95.  Gene #15: 'amp_7q32.3' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 44 919
AMP PEAK 15(7Q32.3) MUTATED 16 559
AMP PEAK 15(7Q32.3) WILD-TYPE 28 360

Figure S95.  Get High-res Image Gene #15: 'amp_7q32.3' versus Clinical Feature #9: 'ETHNICITY'

'amp_8q24.21' versus 'Time to Death'

P value = 0.000447 (logrank test), Q value = 0.0014

Table S96.  Gene #16: 'amp_8q24.21' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
AMP PEAK 16(8Q24.21) MUTATED 169 79 0.1 - 146.1 (18.9)
AMP PEAK 16(8Q24.21) WILD-TYPE 910 512 0.0 - 211.2 (15.0)

Figure S96.  Get High-res Image Gene #16: 'amp_8q24.21' versus Clinical Feature #1: 'Time to Death'

'amp_8q24.21' versus 'YEARS_TO_BIRTH'

P value = 7.58e-05 (Wilcoxon-test), Q value = 0.00027

Table S97.  Gene #16: 'amp_8q24.21' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
AMP PEAK 16(8Q24.21) MUTATED 169 46.2 (16.2)
AMP PEAK 16(8Q24.21) WILD-TYPE 913 51.6 (15.6)

Figure S97.  Get High-res Image Gene #16: 'amp_8q24.21' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_8q24.21' versus 'TUMOR_TISSUE_SITE'

P value = 0.000788 (Fisher's exact test), Q value = 0.0025

Table S98.  Gene #16: 'amp_8q24.21' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
AMP PEAK 16(8Q24.21) MUTATED 69 100
AMP PEAK 16(8Q24.21) WILD-TYPE 502 412

Figure S98.  Get High-res Image Gene #16: 'amp_8q24.21' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_8q24.21' versus 'HISTOLOGICAL_TYPE'

P value = 0.00058 (Fisher's exact test), Q value = 0.0018

Table S99.  Gene #16: 'amp_8q24.21' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 16(8Q24.21) MUTATED 47 2 29 24 2 65
AMP PEAK 16(8Q24.21) WILD-TYPE 147 26 100 165 16 460

Figure S99.  Get High-res Image Gene #16: 'amp_8q24.21' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_9q34.3' versus 'Time to Death'

P value = 0.0254 (logrank test), Q value = 0.056

Table S100.  Gene #17: 'amp_9q34.3' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
AMP PEAK 17(9Q34.3) MUTATED 139 88 0.1 - 172.8 (14.2)
AMP PEAK 17(9Q34.3) WILD-TYPE 940 503 0.0 - 211.2 (15.9)

Figure S100.  Get High-res Image Gene #17: 'amp_9q34.3' versus Clinical Feature #1: 'Time to Death'

'amp_9q34.3' versus 'YEARS_TO_BIRTH'

P value = 0.0443 (Wilcoxon-test), Q value = 0.09

Table S101.  Gene #17: 'amp_9q34.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
AMP PEAK 17(9Q34.3) MUTATED 139 52.9 (16.6)
AMP PEAK 17(9Q34.3) WILD-TYPE 943 50.5 (15.6)

Figure S101.  Get High-res Image Gene #17: 'amp_9q34.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_9q34.3' versus 'TUMOR_TISSUE_SITE'

P value = 0.000364 (Fisher's exact test), Q value = 0.0012

Table S102.  Gene #17: 'amp_9q34.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
AMP PEAK 17(9Q34.3) MUTATED 93 46
AMP PEAK 17(9Q34.3) WILD-TYPE 478 466

Figure S102.  Get High-res Image Gene #17: 'amp_9q34.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_9q34.3' versus 'GENDER'

P value = 0.0798 (Fisher's exact test), Q value = 0.15

Table S103.  Gene #17: 'amp_9q34.3' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 452 631
AMP PEAK 17(9Q34.3) MUTATED 68 71
AMP PEAK 17(9Q34.3) WILD-TYPE 384 560

Figure S103.  Get High-res Image Gene #17: 'amp_9q34.3' versus Clinical Feature #4: 'GENDER'

'amp_9q34.3' versus 'RADIATION_THERAPY'

P value = 0.0856 (Fisher's exact test), Q value = 0.16

Table S104.  Gene #17: 'amp_9q34.3' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
AMP PEAK 17(9Q34.3) MUTATED 25 107
AMP PEAK 17(9Q34.3) WILD-TYPE 233 660

Figure S104.  Get High-res Image Gene #17: 'amp_9q34.3' versus Clinical Feature #5: 'RADIATION_THERAPY'

'amp_9q34.3' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.124 (Wilcoxon-test), Q value = 0.21

Table S105.  Gene #17: 'amp_9q34.3' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
AMP PEAK 17(9Q34.3) MUTATED 102 79.1 (15.2)
AMP PEAK 17(9Q34.3) WILD-TYPE 628 81.6 (14.6)

Figure S105.  Get High-res Image Gene #17: 'amp_9q34.3' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_9q34.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.00056 (Fisher's exact test), Q value = 0.0018

Table S106.  Gene #17: 'amp_9q34.3' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 17(9Q34.3) MUTATED 24 3 13 9 2 88
AMP PEAK 17(9Q34.3) WILD-TYPE 170 25 116 180 16 437

Figure S106.  Get High-res Image Gene #17: 'amp_9q34.3' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_10p15.1' versus 'Time to Death'

P value = 3.31e-07 (logrank test), Q value = 1.9e-06

Table S107.  Gene #18: 'amp_10p15.1' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
AMP PEAK 18(10P15.1) MUTATED 88 29 0.1 - 172.8 (24.0)
AMP PEAK 18(10P15.1) WILD-TYPE 991 562 0.0 - 211.2 (15.1)

Figure S107.  Get High-res Image Gene #18: 'amp_10p15.1' versus Clinical Feature #1: 'Time to Death'

'amp_10p15.1' versus 'YEARS_TO_BIRTH'

P value = 4.45e-15 (Wilcoxon-test), Q value = 5.1e-14

Table S108.  Gene #18: 'amp_10p15.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
AMP PEAK 18(10P15.1) MUTATED 88 38.2 (12.4)
AMP PEAK 18(10P15.1) WILD-TYPE 994 51.9 (15.6)

Figure S108.  Get High-res Image Gene #18: 'amp_10p15.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_10p15.1' versus 'TUMOR_TISSUE_SITE'

P value = 6.15e-10 (Fisher's exact test), Q value = 4.5e-09

Table S109.  Gene #18: 'amp_10p15.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
AMP PEAK 18(10P15.1) MUTATED 19 69
AMP PEAK 18(10P15.1) WILD-TYPE 552 443

Figure S109.  Get High-res Image Gene #18: 'amp_10p15.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_10p15.1' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.000808 (Wilcoxon-test), Q value = 0.0025

Table S110.  Gene #18: 'amp_10p15.1' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
AMP PEAK 18(10P15.1) MUTATED 58 86.9 (11.9)
AMP PEAK 18(10P15.1) WILD-TYPE 672 80.8 (14.8)

Figure S110.  Get High-res Image Gene #18: 'amp_10p15.1' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_10p15.1' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S111.  Gene #18: 'amp_10p15.1' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 18(10P15.1) MUTATED 37 1 23 9 1 17
AMP PEAK 18(10P15.1) WILD-TYPE 157 27 106 180 17 508

Figure S111.  Get High-res Image Gene #18: 'amp_10p15.1' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_10p15.1' versus 'ETHNICITY'

P value = 0.0847 (Fisher's exact test), Q value = 0.16

Table S112.  Gene #18: 'amp_10p15.1' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 44 919
AMP PEAK 18(10P15.1) MUTATED 7 73
AMP PEAK 18(10P15.1) WILD-TYPE 37 846

Figure S112.  Get High-res Image Gene #18: 'amp_10p15.1' versus Clinical Feature #9: 'ETHNICITY'

'amp_11p13' versus 'HISTOLOGICAL_TYPE'

P value = 0.114 (Fisher's exact test), Q value = 0.2

Table S113.  Gene #19: 'amp_11p13' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 19(11P13) MUTATED 5 2 7 17 1 27
AMP PEAK 19(11P13) WILD-TYPE 189 26 122 172 17 498

Figure S113.  Get High-res Image Gene #19: 'amp_11p13' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_11q24.1' versus 'Time to Death'

P value = 1.57e-06 (logrank test), Q value = 8.5e-06

Table S114.  Gene #20: 'amp_11q24.1' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
AMP PEAK 20(11Q24.1) MUTATED 112 39 0.2 - 211.2 (23.0)
AMP PEAK 20(11Q24.1) WILD-TYPE 967 552 0.0 - 172.8 (15.1)

Figure S114.  Get High-res Image Gene #20: 'amp_11q24.1' versus Clinical Feature #1: 'Time to Death'

'amp_11q24.1' versus 'YEARS_TO_BIRTH'

P value = 0.000491 (Wilcoxon-test), Q value = 0.0016

Table S115.  Gene #20: 'amp_11q24.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
AMP PEAK 20(11Q24.1) MUTATED 112 46.0 (14.0)
AMP PEAK 20(11Q24.1) WILD-TYPE 970 51.3 (15.9)

Figure S115.  Get High-res Image Gene #20: 'amp_11q24.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_11q24.1' versus 'TUMOR_TISSUE_SITE'

P value = 5.68e-12 (Fisher's exact test), Q value = 5e-11

Table S116.  Gene #20: 'amp_11q24.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
AMP PEAK 20(11Q24.1) MUTATED 25 87
AMP PEAK 20(11Q24.1) WILD-TYPE 546 425

Figure S116.  Get High-res Image Gene #20: 'amp_11q24.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_11q24.1' versus 'RADIATION_THERAPY'

P value = 0.13 (Fisher's exact test), Q value = 0.22

Table S117.  Gene #20: 'amp_11q24.1' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
AMP PEAK 20(11Q24.1) MUTATED 34 75
AMP PEAK 20(11Q24.1) WILD-TYPE 224 692

Figure S117.  Get High-res Image Gene #20: 'amp_11q24.1' versus Clinical Feature #5: 'RADIATION_THERAPY'

'amp_11q24.1' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0117 (Wilcoxon-test), Q value = 0.028

Table S118.  Gene #20: 'amp_11q24.1' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
AMP PEAK 20(11Q24.1) MUTATED 74 85.0 (13.3)
AMP PEAK 20(11Q24.1) WILD-TYPE 656 80.9 (14.8)

Figure S118.  Get High-res Image Gene #20: 'amp_11q24.1' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_11q24.1' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S119.  Gene #20: 'amp_11q24.1' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 20(11Q24.1) MUTATED 33 0 18 36 1 24
AMP PEAK 20(11Q24.1) WILD-TYPE 161 28 111 153 17 501

Figure S119.  Get High-res Image Gene #20: 'amp_11q24.1' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_12p13.32' versus 'YEARS_TO_BIRTH'

P value = 0.0291 (Wilcoxon-test), Q value = 0.063

Table S120.  Gene #21: 'amp_12p13.32' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
AMP PEAK 21(12P13.32) MUTATED 152 48.1 (16.5)
AMP PEAK 21(12P13.32) WILD-TYPE 930 51.2 (15.6)

Figure S120.  Get High-res Image Gene #21: 'amp_12p13.32' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_12p13.32' versus 'RADIATION_THERAPY'

P value = 0.00976 (Fisher's exact test), Q value = 0.024

Table S121.  Gene #21: 'amp_12p13.32' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
AMP PEAK 21(12P13.32) MUTATED 24 122
AMP PEAK 21(12P13.32) WILD-TYPE 234 645

Figure S121.  Get High-res Image Gene #21: 'amp_12p13.32' versus Clinical Feature #5: 'RADIATION_THERAPY'

'amp_12q14.1' versus 'Time to Death'

P value = 6.66e-16 (logrank test), Q value = 8.2e-15

Table S122.  Gene #22: 'amp_12q14.1' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
AMP PEAK 22(12Q14.1) MUTATED 170 134 0.1 - 84.3 (13.9)
AMP PEAK 22(12Q14.1) WILD-TYPE 909 457 0.0 - 211.2 (16.2)

Figure S122.  Get High-res Image Gene #22: 'amp_12q14.1' versus Clinical Feature #1: 'Time to Death'

'amp_12q14.1' versus 'YEARS_TO_BIRTH'

P value = 7.97e-06 (Wilcoxon-test), Q value = 3.9e-05

Table S123.  Gene #22: 'amp_12q14.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
AMP PEAK 22(12Q14.1) MUTATED 171 55.7 (15.3)
AMP PEAK 22(12Q14.1) WILD-TYPE 911 49.9 (15.7)

Figure S123.  Get High-res Image Gene #22: 'amp_12q14.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_12q14.1' versus 'TUMOR_TISSUE_SITE'

P value = 7.18e-14 (Fisher's exact test), Q value = 7.5e-13

Table S124.  Gene #22: 'amp_12q14.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
AMP PEAK 22(12Q14.1) MUTATED 134 37
AMP PEAK 22(12Q14.1) WILD-TYPE 437 475

Figure S124.  Get High-res Image Gene #22: 'amp_12q14.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_12q14.1' versus 'RADIATION_THERAPY'

P value = 0.00811 (Fisher's exact test), Q value = 0.02

Table S125.  Gene #22: 'amp_12q14.1' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
AMP PEAK 22(12Q14.1) MUTATED 28 136
AMP PEAK 22(12Q14.1) WILD-TYPE 230 631

Figure S125.  Get High-res Image Gene #22: 'amp_12q14.1' versus Clinical Feature #5: 'RADIATION_THERAPY'

'amp_12q14.1' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.117 (Wilcoxon-test), Q value = 0.2

Table S126.  Gene #22: 'amp_12q14.1' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
AMP PEAK 22(12Q14.1) MUTATED 119 79.2 (15.5)
AMP PEAK 22(12Q14.1) WILD-TYPE 611 81.7 (14.5)

Figure S126.  Get High-res Image Gene #22: 'amp_12q14.1' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_12q14.1' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S127.  Gene #22: 'amp_12q14.1' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 22(12Q14.1) MUTATED 22 5 5 10 3 126
AMP PEAK 22(12Q14.1) WILD-TYPE 172 23 124 179 15 399

Figure S127.  Get High-res Image Gene #22: 'amp_12q14.1' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_12q14.1' versus 'ETHNICITY'

P value = 0.0336 (Fisher's exact test), Q value = 0.071

Table S128.  Gene #22: 'amp_12q14.1' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 44 919
AMP PEAK 22(12Q14.1) MUTATED 2 150
AMP PEAK 22(12Q14.1) WILD-TYPE 42 769

Figure S128.  Get High-res Image Gene #22: 'amp_12q14.1' versus Clinical Feature #9: 'ETHNICITY'

'amp_12q15' versus 'Time to Death'

P value = 2.55e-10 (logrank test), Q value = 1.9e-09

Table S129.  Gene #23: 'amp_12q15' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
AMP PEAK 23(12Q15) MUTATED 110 89 0.2 - 84.3 (14.0)
AMP PEAK 23(12Q15) WILD-TYPE 969 502 0.0 - 211.2 (16.0)

Figure S129.  Get High-res Image Gene #23: 'amp_12q15' versus Clinical Feature #1: 'Time to Death'

'amp_12q15' versus 'YEARS_TO_BIRTH'

P value = 4.78e-05 (Wilcoxon-test), Q value = 0.00017

Table S130.  Gene #23: 'amp_12q15' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
AMP PEAK 23(12Q15) MUTATED 110 56.6 (14.3)
AMP PEAK 23(12Q15) WILD-TYPE 972 50.1 (15.8)

Figure S130.  Get High-res Image Gene #23: 'amp_12q15' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_12q15' versus 'TUMOR_TISSUE_SITE'

P value = 1.49e-12 (Fisher's exact test), Q value = 1.4e-11

Table S131.  Gene #23: 'amp_12q15' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
AMP PEAK 23(12Q15) MUTATED 92 18
AMP PEAK 23(12Q15) WILD-TYPE 479 494

Figure S131.  Get High-res Image Gene #23: 'amp_12q15' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_12q15' versus 'RADIATION_THERAPY'

P value = 0.0442 (Fisher's exact test), Q value = 0.09

Table S132.  Gene #23: 'amp_12q15' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
AMP PEAK 23(12Q15) MUTATED 18 88
AMP PEAK 23(12Q15) WILD-TYPE 240 679

Figure S132.  Get High-res Image Gene #23: 'amp_12q15' versus Clinical Feature #5: 'RADIATION_THERAPY'

'amp_12q15' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0364 (Wilcoxon-test), Q value = 0.076

Table S133.  Gene #23: 'amp_12q15' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
AMP PEAK 23(12Q15) MUTATED 86 78.5 (14.5)
AMP PEAK 23(12Q15) WILD-TYPE 644 81.7 (14.7)

Figure S133.  Get High-res Image Gene #23: 'amp_12q15' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_12q15' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S134.  Gene #23: 'amp_12q15' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 23(12Q15) MUTATED 8 3 2 8 2 87
AMP PEAK 23(12Q15) WILD-TYPE 186 25 127 181 16 438

Figure S134.  Get High-res Image Gene #23: 'amp_12q15' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_12q15' versus 'ETHNICITY'

P value = 0.0172 (Fisher's exact test), Q value = 0.039

Table S135.  Gene #23: 'amp_12q15' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 44 919
AMP PEAK 23(12Q15) MUTATED 0 96
AMP PEAK 23(12Q15) WILD-TYPE 44 823

Figure S135.  Get High-res Image Gene #23: 'amp_12q15' versus Clinical Feature #9: 'ETHNICITY'

'amp_13q34' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0801 (Wilcoxon-test), Q value = 0.15

Table S136.  Gene #24: 'amp_13q34' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
AMP PEAK 24(13Q34) MUTATED 36 76.9 (15.8)
AMP PEAK 24(13Q34) WILD-TYPE 694 81.5 (14.6)

Figure S136.  Get High-res Image Gene #24: 'amp_13q34' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_14q32.33' versus 'Time to Death'

P value = 0.000792 (logrank test), Q value = 0.0025

Table S137.  Gene #25: 'amp_14q32.33' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
AMP PEAK 25(14Q32.33) MUTATED 44 34 0.4 - 72.9 (13.0)
AMP PEAK 25(14Q32.33) WILD-TYPE 1035 557 0.0 - 211.2 (15.8)

Figure S137.  Get High-res Image Gene #25: 'amp_14q32.33' versus Clinical Feature #1: 'Time to Death'

'amp_14q32.33' versus 'YEARS_TO_BIRTH'

P value = 8.78e-06 (Wilcoxon-test), Q value = 3.9e-05

Table S138.  Gene #25: 'amp_14q32.33' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
AMP PEAK 25(14Q32.33) MUTATED 44 61.0 (14.9)
AMP PEAK 25(14Q32.33) WILD-TYPE 1038 50.3 (15.7)

Figure S138.  Get High-res Image Gene #25: 'amp_14q32.33' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_14q32.33' versus 'TUMOR_TISSUE_SITE'

P value = 7.54e-05 (Fisher's exact test), Q value = 0.00027

Table S139.  Gene #25: 'amp_14q32.33' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
AMP PEAK 25(14Q32.33) MUTATED 36 8
AMP PEAK 25(14Q32.33) WILD-TYPE 535 504

Figure S139.  Get High-res Image Gene #25: 'amp_14q32.33' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_14q32.33' versus 'RADIATION_THERAPY'

P value = 0.0644 (Fisher's exact test), Q value = 0.12

Table S140.  Gene #25: 'amp_14q32.33' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
AMP PEAK 25(14Q32.33) MUTATED 5 36
AMP PEAK 25(14Q32.33) WILD-TYPE 253 731

Figure S140.  Get High-res Image Gene #25: 'amp_14q32.33' versus Clinical Feature #5: 'RADIATION_THERAPY'

'amp_14q32.33' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0844 (Wilcoxon-test), Q value = 0.16

Table S141.  Gene #25: 'amp_14q32.33' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
AMP PEAK 25(14Q32.33) MUTATED 33 76.7 (16.7)
AMP PEAK 25(14Q32.33) WILD-TYPE 697 81.5 (14.6)

Figure S141.  Get High-res Image Gene #25: 'amp_14q32.33' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_14q32.33' versus 'HISTOLOGICAL_TYPE'

P value = 0.00182 (Fisher's exact test), Q value = 0.0053

Table S142.  Gene #25: 'amp_14q32.33' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 25(14Q32.33) MUTATED 2 2 3 3 2 32
AMP PEAK 25(14Q32.33) WILD-TYPE 192 26 126 186 16 493

Figure S142.  Get High-res Image Gene #25: 'amp_14q32.33' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_17p13.2' versus 'Time to Death'

P value = 0.00322 (logrank test), Q value = 0.0089

Table S143.  Gene #26: 'amp_17p13.2' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
AMP PEAK 26(17P13.2) MUTATED 74 52 0.2 - 72.4 (14.5)
AMP PEAK 26(17P13.2) WILD-TYPE 1005 539 0.0 - 211.2 (15.8)

Figure S143.  Get High-res Image Gene #26: 'amp_17p13.2' versus Clinical Feature #1: 'Time to Death'

'amp_17p13.2' versus 'YEARS_TO_BIRTH'

P value = 0.0107 (Wilcoxon-test), Q value = 0.026

Table S144.  Gene #26: 'amp_17p13.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
AMP PEAK 26(17P13.2) MUTATED 74 55.0 (16.1)
AMP PEAK 26(17P13.2) WILD-TYPE 1008 50.5 (15.7)

Figure S144.  Get High-res Image Gene #26: 'amp_17p13.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_17p13.2' versus 'TUMOR_TISSUE_SITE'

P value = 0.00377 (Fisher's exact test), Q value = 0.01

Table S145.  Gene #26: 'amp_17p13.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
AMP PEAK 26(17P13.2) MUTATED 51 23
AMP PEAK 26(17P13.2) WILD-TYPE 520 489

Figure S145.  Get High-res Image Gene #26: 'amp_17p13.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_17p13.2' versus 'GENDER'

P value = 0.0664 (Fisher's exact test), Q value = 0.13

Table S146.  Gene #26: 'amp_17p13.2' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 452 631
AMP PEAK 26(17P13.2) MUTATED 23 51
AMP PEAK 26(17P13.2) WILD-TYPE 429 580

Figure S146.  Get High-res Image Gene #26: 'amp_17p13.2' versus Clinical Feature #4: 'GENDER'

'amp_17p13.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.0044 (Fisher's exact test), Q value = 0.012

Table S147.  Gene #26: 'amp_17p13.2' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 26(17P13.2) MUTATED 10 4 1 12 1 46
AMP PEAK 26(17P13.2) WILD-TYPE 184 24 128 177 17 479

Figure S147.  Get High-res Image Gene #26: 'amp_17p13.2' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_17q25.1' versus 'Time to Death'

P value = 9.1e-06 (logrank test), Q value = 3.9e-05

Table S148.  Gene #27: 'amp_17q25.1' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
AMP PEAK 27(17Q25.1) MUTATED 126 89 0.1 - 91.8 (13.6)
AMP PEAK 27(17Q25.1) WILD-TYPE 953 502 0.0 - 211.2 (16.0)

Figure S148.  Get High-res Image Gene #27: 'amp_17q25.1' versus Clinical Feature #1: 'Time to Death'

'amp_17q25.1' versus 'YEARS_TO_BIRTH'

P value = 1.93e-05 (Wilcoxon-test), Q value = 7.3e-05

Table S149.  Gene #27: 'amp_17q25.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
AMP PEAK 27(17Q25.1) MUTATED 126 56.3 (14.9)
AMP PEAK 27(17Q25.1) WILD-TYPE 956 50.1 (15.8)

Figure S149.  Get High-res Image Gene #27: 'amp_17q25.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_17q25.1' versus 'TUMOR_TISSUE_SITE'

P value = 0.0017 (Fisher's exact test), Q value = 0.005

Table S150.  Gene #27: 'amp_17q25.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
AMP PEAK 27(17Q25.1) MUTATED 83 43
AMP PEAK 27(17Q25.1) WILD-TYPE 488 469

Figure S150.  Get High-res Image Gene #27: 'amp_17q25.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_17q25.1' versus 'GENDER'

P value = 0.103 (Fisher's exact test), Q value = 0.18

Table S151.  Gene #27: 'amp_17q25.1' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 452 631
AMP PEAK 27(17Q25.1) MUTATED 44 82
AMP PEAK 27(17Q25.1) WILD-TYPE 408 549

Figure S151.  Get High-res Image Gene #27: 'amp_17q25.1' versus Clinical Feature #4: 'GENDER'

'amp_17q25.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0224 (Fisher's exact test), Q value = 0.05

Table S152.  Gene #27: 'amp_17q25.1' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 27(17Q25.1) MUTATED 21 5 8 14 2 76
AMP PEAK 27(17Q25.1) WILD-TYPE 173 23 121 175 16 449

Figure S152.  Get High-res Image Gene #27: 'amp_17q25.1' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_19p13.3' versus 'Time to Death'

P value = 0.0101 (logrank test), Q value = 0.025

Table S153.  Gene #28: 'amp_19p13.3' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
AMP PEAK 28(19P13.3) MUTATED 370 229 0.0 - 172.8 (15.8)
AMP PEAK 28(19P13.3) WILD-TYPE 709 362 0.1 - 211.2 (15.3)

Figure S153.  Get High-res Image Gene #28: 'amp_19p13.3' versus Clinical Feature #1: 'Time to Death'

'amp_19p13.3' versus 'YEARS_TO_BIRTH'

P value = 5.05e-05 (Wilcoxon-test), Q value = 0.00018

Table S154.  Gene #28: 'amp_19p13.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
AMP PEAK 28(19P13.3) MUTATED 371 53.4 (14.6)
AMP PEAK 28(19P13.3) WILD-TYPE 711 49.4 (16.2)

Figure S154.  Get High-res Image Gene #28: 'amp_19p13.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_19p13.3' versus 'TUMOR_TISSUE_SITE'

P value = 2.19e-09 (Fisher's exact test), Q value = 1.5e-08

Table S155.  Gene #28: 'amp_19p13.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
AMP PEAK 28(19P13.3) MUTATED 243 129
AMP PEAK 28(19P13.3) WILD-TYPE 328 383

Figure S155.  Get High-res Image Gene #28: 'amp_19p13.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_19p13.3' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S156.  Gene #28: 'amp_19p13.3' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 28(19P13.3) MUTATED 26 12 29 74 10 221
AMP PEAK 28(19P13.3) WILD-TYPE 168 16 100 115 8 304

Figure S156.  Get High-res Image Gene #28: 'amp_19p13.3' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_19p13.2' versus 'Time to Death'

P value = 0.000258 (logrank test), Q value = 0.00085

Table S157.  Gene #29: 'amp_19p13.2' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
AMP PEAK 29(19P13.2) MUTATED 365 230 0.1 - 169.8 (15.4)
AMP PEAK 29(19P13.2) WILD-TYPE 714 361 0.0 - 211.2 (15.9)

Figure S157.  Get High-res Image Gene #29: 'amp_19p13.2' versus Clinical Feature #1: 'Time to Death'

'amp_19p13.2' versus 'YEARS_TO_BIRTH'

P value = 4.93e-07 (Wilcoxon-test), Q value = 2.8e-06

Table S158.  Gene #29: 'amp_19p13.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
AMP PEAK 29(19P13.2) MUTATED 367 54.2 (14.4)
AMP PEAK 29(19P13.2) WILD-TYPE 715 49.0 (16.2)

Figure S158.  Get High-res Image Gene #29: 'amp_19p13.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_19p13.2' versus 'TUMOR_TISSUE_SITE'

P value = 1.98e-11 (Fisher's exact test), Q value = 1.6e-10

Table S159.  Gene #29: 'amp_19p13.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
AMP PEAK 29(19P13.2) MUTATED 246 122
AMP PEAK 29(19P13.2) WILD-TYPE 325 390

Figure S159.  Get High-res Image Gene #29: 'amp_19p13.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_19p13.2' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S160.  Gene #29: 'amp_19p13.2' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 29(19P13.2) MUTATED 24 11 25 73 10 225
AMP PEAK 29(19P13.2) WILD-TYPE 170 17 104 116 8 300

Figure S160.  Get High-res Image Gene #29: 'amp_19p13.2' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_19q12' versus 'Time to Death'

P value = 0 (logrank test), Q value = 0

Table S161.  Gene #30: 'amp_19q12' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
AMP PEAK 30(19Q12) MUTATED 244 190 0.0 - 92.7 (14.1)
AMP PEAK 30(19Q12) WILD-TYPE 835 401 0.1 - 211.2 (16.4)

Figure S161.  Get High-res Image Gene #30: 'amp_19q12' versus Clinical Feature #1: 'Time to Death'

'amp_19q12' versus 'YEARS_TO_BIRTH'

P value = 4.86e-16 (Wilcoxon-test), Q value = 6.3e-15

Table S162.  Gene #30: 'amp_19q12' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
AMP PEAK 30(19Q12) MUTATED 245 57.9 (12.8)
AMP PEAK 30(19Q12) WILD-TYPE 837 48.7 (16.0)

Figure S162.  Get High-res Image Gene #30: 'amp_19q12' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_19q12' versus 'TUMOR_TISSUE_SITE'

P value = 3.12e-38 (Fisher's exact test), Q value = 5.8e-37

Table S163.  Gene #30: 'amp_19q12' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
AMP PEAK 30(19Q12) MUTATED 214 31
AMP PEAK 30(19Q12) WILD-TYPE 357 481

Figure S163.  Get High-res Image Gene #30: 'amp_19q12' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_19q12' versus 'RADIATION_THERAPY'

P value = 6.89e-08 (Fisher's exact test), Q value = 4.2e-07

Table S164.  Gene #30: 'amp_19q12' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
AMP PEAK 30(19Q12) MUTATED 28 202
AMP PEAK 30(19Q12) WILD-TYPE 230 565

Figure S164.  Get High-res Image Gene #30: 'amp_19q12' versus Clinical Feature #5: 'RADIATION_THERAPY'

'amp_19q12' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 9.53e-05 (Wilcoxon-test), Q value = 0.00033

Table S165.  Gene #30: 'amp_19q12' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
AMP PEAK 30(19Q12) MUTATED 166 77.9 (14.7)
AMP PEAK 30(19Q12) WILD-TYPE 564 82.3 (14.6)

Figure S165.  Get High-res Image Gene #30: 'amp_19q12' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_19q12' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S166.  Gene #30: 'amp_19q12' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 30(19Q12) MUTATED 16 13 9 6 8 193
AMP PEAK 30(19Q12) WILD-TYPE 178 15 120 183 10 332

Figure S166.  Get High-res Image Gene #30: 'amp_19q12' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_19q12' versus 'RACE'

P value = 0.0403 (Fisher's exact test), Q value = 0.083

Table S167.  Gene #30: 'amp_19q12' versus Clinical Feature #8: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 1 21 71 957
AMP PEAK 30(19Q12) MUTATED 0 8 23 206
AMP PEAK 30(19Q12) WILD-TYPE 1 13 48 751

Figure S167.  Get High-res Image Gene #30: 'amp_19q12' versus Clinical Feature #8: 'RACE'

'amp_19q13.2' versus 'Time to Death'

P value = 0 (logrank test), Q value = 0

Table S168.  Gene #31: 'amp_19q13.2' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
AMP PEAK 31(19Q13.2) MUTATED 229 175 0.1 - 92.7 (14.2)
AMP PEAK 31(19Q13.2) WILD-TYPE 850 416 0.0 - 211.2 (16.3)

Figure S168.  Get High-res Image Gene #31: 'amp_19q13.2' versus Clinical Feature #1: 'Time to Death'

'amp_19q13.2' versus 'YEARS_TO_BIRTH'

P value = 1.81e-15 (Wilcoxon-test), Q value = 2.1e-14

Table S169.  Gene #31: 'amp_19q13.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
AMP PEAK 31(19Q13.2) MUTATED 230 58.0 (12.4)
AMP PEAK 31(19Q13.2) WILD-TYPE 852 48.8 (16.0)

Figure S169.  Get High-res Image Gene #31: 'amp_19q13.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_19q13.2' versus 'TUMOR_TISSUE_SITE'

P value = 9.95e-34 (Fisher's exact test), Q value = 1.7e-32

Table S170.  Gene #31: 'amp_19q13.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
AMP PEAK 31(19Q13.2) MUTATED 199 31
AMP PEAK 31(19Q13.2) WILD-TYPE 372 481

Figure S170.  Get High-res Image Gene #31: 'amp_19q13.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_19q13.2' versus 'RADIATION_THERAPY'

P value = 5.99e-07 (Fisher's exact test), Q value = 3.4e-06

Table S171.  Gene #31: 'amp_19q13.2' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
AMP PEAK 31(19Q13.2) MUTATED 27 188
AMP PEAK 31(19Q13.2) WILD-TYPE 231 579

Figure S171.  Get High-res Image Gene #31: 'amp_19q13.2' versus Clinical Feature #5: 'RADIATION_THERAPY'

'amp_19q13.2' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.000304 (Wilcoxon-test), Q value = 0.00099

Table S172.  Gene #31: 'amp_19q13.2' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
AMP PEAK 31(19Q13.2) MUTATED 160 78.2 (14.6)
AMP PEAK 31(19Q13.2) WILD-TYPE 570 82.2 (14.6)

Figure S172.  Get High-res Image Gene #31: 'amp_19q13.2' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_19q13.2' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S173.  Gene #31: 'amp_19q13.2' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 31(19Q13.2) MUTATED 18 12 7 6 6 181
AMP PEAK 31(19Q13.2) WILD-TYPE 176 16 122 183 12 344

Figure S173.  Get High-res Image Gene #31: 'amp_19q13.2' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_19q13.2' versus 'RACE'

P value = 0.0337 (Fisher's exact test), Q value = 0.071

Table S174.  Gene #31: 'amp_19q13.2' versus Clinical Feature #8: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 1 21 71 957
AMP PEAK 31(19Q13.2) MUTATED 0 7 23 193
AMP PEAK 31(19Q13.2) WILD-TYPE 1 14 48 764

Figure S174.  Get High-res Image Gene #31: 'amp_19q13.2' versus Clinical Feature #8: 'RACE'

'amp_xp11.21' versus 'Time to Death'

P value = 0.000448 (logrank test), Q value = 0.0014

Table S175.  Gene #32: 'amp_xp11.21' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
AMP PEAK 32(XP11.21) MUTATED 104 41 0.1 - 145.1 (19.5)
AMP PEAK 32(XP11.21) WILD-TYPE 975 550 0.0 - 211.2 (15.3)

Figure S175.  Get High-res Image Gene #32: 'amp_xp11.21' versus Clinical Feature #1: 'Time to Death'

'amp_xp11.21' versus 'YEARS_TO_BIRTH'

P value = 3.21e-06 (Wilcoxon-test), Q value = 1.7e-05

Table S176.  Gene #32: 'amp_xp11.21' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
AMP PEAK 32(XP11.21) MUTATED 104 43.9 (15.7)
AMP PEAK 32(XP11.21) WILD-TYPE 978 51.5 (15.6)

Figure S176.  Get High-res Image Gene #32: 'amp_xp11.21' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_xp11.21' versus 'TUMOR_TISSUE_SITE'

P value = 1.89e-05 (Fisher's exact test), Q value = 7.2e-05

Table S177.  Gene #32: 'amp_xp11.21' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
AMP PEAK 32(XP11.21) MUTATED 34 70
AMP PEAK 32(XP11.21) WILD-TYPE 537 442

Figure S177.  Get High-res Image Gene #32: 'amp_xp11.21' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'amp_xp11.21' versus 'GENDER'

P value = 0.0284 (Fisher's exact test), Q value = 0.061

Table S178.  Gene #32: 'amp_xp11.21' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 452 631
AMP PEAK 32(XP11.21) MUTATED 54 50
AMP PEAK 32(XP11.21) WILD-TYPE 398 581

Figure S178.  Get High-res Image Gene #32: 'amp_xp11.21' versus Clinical Feature #4: 'GENDER'

'amp_xp11.21' versus 'RADIATION_THERAPY'

P value = 0.00971 (Fisher's exact test), Q value = 0.024

Table S179.  Gene #32: 'amp_xp11.21' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
AMP PEAK 32(XP11.21) MUTATED 14 84
AMP PEAK 32(XP11.21) WILD-TYPE 244 683

Figure S179.  Get High-res Image Gene #32: 'amp_xp11.21' versus Clinical Feature #5: 'RADIATION_THERAPY'

'amp_xp11.21' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0254 (Wilcoxon-test), Q value = 0.056

Table S180.  Gene #32: 'amp_xp11.21' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
AMP PEAK 32(XP11.21) MUTATED 67 84.3 (15.1)
AMP PEAK 32(XP11.21) WILD-TYPE 663 81.0 (14.6)

Figure S180.  Get High-res Image Gene #32: 'amp_xp11.21' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_xp11.21' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S181.  Gene #32: 'amp_xp11.21' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
AMP PEAK 32(XP11.21) MUTATED 44 3 17 9 2 29
AMP PEAK 32(XP11.21) WILD-TYPE 150 25 112 180 16 496

Figure S181.  Get High-res Image Gene #32: 'amp_xp11.21' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'amp_xp11.21' versus 'ETHNICITY'

P value = 0.0304 (Fisher's exact test), Q value = 0.065

Table S182.  Gene #32: 'amp_xp11.21' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 44 919
AMP PEAK 32(XP11.21) MUTATED 9 84
AMP PEAK 32(XP11.21) WILD-TYPE 35 835

Figure S182.  Get High-res Image Gene #32: 'amp_xp11.21' versus Clinical Feature #9: 'ETHNICITY'

'del_1p36.32' versus 'Time to Death'

P value = 5.51e-09 (logrank test), Q value = 3.5e-08

Table S183.  Gene #33: 'del_1p36.32' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 1(1P36.32) MUTATED 312 127 0.1 - 182.3 (17.2)
DEL PEAK 1(1P36.32) WILD-TYPE 767 464 0.0 - 211.2 (14.9)

Figure S183.  Get High-res Image Gene #33: 'del_1p36.32' versus Clinical Feature #1: 'Time to Death'

'del_1p36.32' versus 'TUMOR_TISSUE_SITE'

P value = 1.26e-14 (Fisher's exact test), Q value = 1.4e-13

Table S184.  Gene #33: 'del_1p36.32' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 1(1P36.32) MUTATED 108 206
DEL PEAK 1(1P36.32) WILD-TYPE 463 306

Figure S184.  Get High-res Image Gene #33: 'del_1p36.32' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_1p36.32' versus 'RADIATION_THERAPY'

P value = 5.48e-08 (Fisher's exact test), Q value = 3.3e-07

Table S185.  Gene #33: 'del_1p36.32' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 1(1P36.32) MUTATED 110 187
DEL PEAK 1(1P36.32) WILD-TYPE 148 580

Figure S185.  Get High-res Image Gene #33: 'del_1p36.32' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_1p36.32' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0215 (Wilcoxon-test), Q value = 0.048

Table S186.  Gene #33: 'del_1p36.32' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
DEL PEAK 1(1P36.32) MUTATED 215 82.7 (15.9)
DEL PEAK 1(1P36.32) WILD-TYPE 515 80.7 (14.2)

Figure S186.  Get High-res Image Gene #33: 'del_1p36.32' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_1p36.32' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S187.  Gene #33: 'del_1p36.32' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 1(1P36.32) MUTATED 22 1 46 138 4 103
DEL PEAK 1(1P36.32) WILD-TYPE 172 27 83 51 14 422

Figure S187.  Get High-res Image Gene #33: 'del_1p36.32' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_1p36.32' versus 'RACE'

P value = 0.022 (Fisher's exact test), Q value = 0.049

Table S188.  Gene #33: 'del_1p36.32' versus Clinical Feature #8: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 1 21 71 957
DEL PEAK 1(1P36.32) MUTATED 1 10 14 281
DEL PEAK 1(1P36.32) WILD-TYPE 0 11 57 676

Figure S188.  Get High-res Image Gene #33: 'del_1p36.32' versus Clinical Feature #8: 'RACE'

'del_1p36.23' versus 'Time to Death'

P value = 1.37e-05 (logrank test), Q value = 5.3e-05

Table S189.  Gene #34: 'del_1p36.23' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 2(1P36.23) MUTATED 342 154 0.1 - 182.3 (16.5)
DEL PEAK 2(1P36.23) WILD-TYPE 737 437 0.0 - 211.2 (15.0)

Figure S189.  Get High-res Image Gene #34: 'del_1p36.23' versus Clinical Feature #1: 'Time to Death'

'del_1p36.23' versus 'TUMOR_TISSUE_SITE'

P value = 1.23e-10 (Fisher's exact test), Q value = 9.7e-10

Table S190.  Gene #34: 'del_1p36.23' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 2(1P36.23) MUTATED 132 212
DEL PEAK 2(1P36.23) WILD-TYPE 439 300

Figure S190.  Get High-res Image Gene #34: 'del_1p36.23' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_1p36.23' versus 'RADIATION_THERAPY'

P value = 4.42e-07 (Fisher's exact test), Q value = 2.6e-06

Table S191.  Gene #34: 'del_1p36.23' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 2(1P36.23) MUTATED 116 211
DEL PEAK 2(1P36.23) WILD-TYPE 142 556

Figure S191.  Get High-res Image Gene #34: 'del_1p36.23' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_1p36.23' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00254 (Wilcoxon-test), Q value = 0.0073

Table S192.  Gene #34: 'del_1p36.23' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
DEL PEAK 2(1P36.23) MUTATED 234 83.1 (16.0)
DEL PEAK 2(1P36.23) WILD-TYPE 496 80.4 (14.0)

Figure S192.  Get High-res Image Gene #34: 'del_1p36.23' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_1p36.23' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S193.  Gene #34: 'del_1p36.23' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 2(1P36.23) MUTATED 24 4 48 140 3 125
DEL PEAK 2(1P36.23) WILD-TYPE 170 24 81 49 15 400

Figure S193.  Get High-res Image Gene #34: 'del_1p36.23' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_1p36.23' versus 'RACE'

P value = 0.046 (Fisher's exact test), Q value = 0.093

Table S194.  Gene #34: 'del_1p36.23' versus Clinical Feature #8: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 1 21 71 957
DEL PEAK 2(1P36.23) MUTATED 1 11 18 304
DEL PEAK 2(1P36.23) WILD-TYPE 0 10 53 653

Figure S194.  Get High-res Image Gene #34: 'del_1p36.23' versus Clinical Feature #8: 'RACE'

'del_1p32.3' versus 'Time to Death'

P value = 9.31e-14 (logrank test), Q value = 9.2e-13

Table S195.  Gene #35: 'del_1p32.3' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 3(1P32.3) MUTATED 254 81 0.1 - 182.3 (17.1)
DEL PEAK 3(1P32.3) WILD-TYPE 825 510 0.0 - 211.2 (15.1)

Figure S195.  Get High-res Image Gene #35: 'del_1p32.3' versus Clinical Feature #1: 'Time to Death'

'del_1p32.3' versus 'TUMOR_TISSUE_SITE'

P value = 1.69e-27 (Fisher's exact test), Q value = 2.7e-26

Table S196.  Gene #35: 'del_1p32.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 3(1P32.3) MUTATED 60 196
DEL PEAK 3(1P32.3) WILD-TYPE 511 316

Figure S196.  Get High-res Image Gene #35: 'del_1p32.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_1p32.3' versus 'RADIATION_THERAPY'

P value = 3.12e-13 (Fisher's exact test), Q value = 3e-12

Table S197.  Gene #35: 'del_1p32.3' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 3(1P32.3) MUTATED 105 134
DEL PEAK 3(1P32.3) WILD-TYPE 153 633

Figure S197.  Get High-res Image Gene #35: 'del_1p32.3' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_1p32.3' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00142 (Wilcoxon-test), Q value = 0.0042

Table S198.  Gene #35: 'del_1p32.3' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
DEL PEAK 3(1P32.3) MUTATED 161 84.5 (13.4)
DEL PEAK 3(1P32.3) WILD-TYPE 569 80.4 (14.9)

Figure S198.  Get High-res Image Gene #35: 'del_1p32.3' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_1p32.3' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S199.  Gene #35: 'del_1p32.3' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 3(1P32.3) MUTATED 16 1 42 138 2 57
DEL PEAK 3(1P32.3) WILD-TYPE 178 27 87 51 16 468

Figure S199.  Get High-res Image Gene #35: 'del_1p32.3' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_1p32.3' versus 'RACE'

P value = 0.0379 (Fisher's exact test), Q value = 0.078

Table S200.  Gene #35: 'del_1p32.3' versus Clinical Feature #8: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 1 21 71 957
DEL PEAK 3(1P32.3) MUTATED 1 7 10 230
DEL PEAK 3(1P32.3) WILD-TYPE 0 14 61 727

Figure S200.  Get High-res Image Gene #35: 'del_1p32.3' versus Clinical Feature #8: 'RACE'

'del_1p22.1' versus 'Time to Death'

P value = 0 (logrank test), Q value = 0

Table S201.  Gene #36: 'del_1p22.1' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 4(1P22.1) MUTATED 231 66 0.1 - 182.3 (20.1)
DEL PEAK 4(1P22.1) WILD-TYPE 848 525 0.0 - 211.2 (14.9)

Figure S201.  Get High-res Image Gene #36: 'del_1p22.1' versus Clinical Feature #1: 'Time to Death'

'del_1p22.1' versus 'YEARS_TO_BIRTH'

P value = 0.00387 (Wilcoxon-test), Q value = 0.011

Table S202.  Gene #36: 'del_1p22.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 4(1P22.1) MUTATED 232 48.3 (13.9)
DEL PEAK 4(1P22.1) WILD-TYPE 850 51.5 (16.2)

Figure S202.  Get High-res Image Gene #36: 'del_1p22.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_1p22.1' versus 'TUMOR_TISSUE_SITE'

P value = 2.27e-30 (Fisher's exact test), Q value = 3.8e-29

Table S203.  Gene #36: 'del_1p22.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 4(1P22.1) MUTATED 47 186
DEL PEAK 4(1P22.1) WILD-TYPE 524 326

Figure S203.  Get High-res Image Gene #36: 'del_1p22.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_1p22.1' versus 'RADIATION_THERAPY'

P value = 2.08e-14 (Fisher's exact test), Q value = 2.3e-13

Table S204.  Gene #36: 'del_1p22.1' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 4(1P22.1) MUTATED 100 117
DEL PEAK 4(1P22.1) WILD-TYPE 158 650

Figure S204.  Get High-res Image Gene #36: 'del_1p22.1' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_1p22.1' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.000136 (Wilcoxon-test), Q value = 0.00047

Table S205.  Gene #36: 'del_1p22.1' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
DEL PEAK 4(1P22.1) MUTATED 148 84.9 (14.5)
DEL PEAK 4(1P22.1) WILD-TYPE 582 80.4 (14.6)

Figure S205.  Get High-res Image Gene #36: 'del_1p22.1' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_1p22.1' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S206.  Gene #36: 'del_1p22.1' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 4(1P22.1) MUTATED 11 1 39 136 4 42
DEL PEAK 4(1P22.1) WILD-TYPE 183 27 90 53 14 483

Figure S206.  Get High-res Image Gene #36: 'del_1p22.1' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_1p22.1' versus 'ETHNICITY'

P value = 0.139 (Fisher's exact test), Q value = 0.24

Table S207.  Gene #36: 'del_1p22.1' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 44 919
DEL PEAK 4(1P22.1) MUTATED 14 202
DEL PEAK 4(1P22.1) WILD-TYPE 30 717

Figure S207.  Get High-res Image Gene #36: 'del_1p22.1' versus Clinical Feature #9: 'ETHNICITY'

'del_1q42.11' versus 'Time to Death'

P value = 0.0283 (logrank test), Q value = 0.061

Table S208.  Gene #37: 'del_1q42.11' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 5(1Q42.11) MUTATED 77 50 0.1 - 146.1 (12.6)
DEL PEAK 5(1Q42.11) WILD-TYPE 1002 541 0.0 - 211.2 (16.0)

Figure S208.  Get High-res Image Gene #37: 'del_1q42.11' versus Clinical Feature #1: 'Time to Death'

'del_1q42.11' versus 'YEARS_TO_BIRTH'

P value = 0.0334 (Wilcoxon-test), Q value = 0.071

Table S209.  Gene #37: 'del_1q42.11' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 5(1Q42.11) MUTATED 77 54.6 (15.0)
DEL PEAK 5(1Q42.11) WILD-TYPE 1005 50.5 (15.8)

Figure S209.  Get High-res Image Gene #37: 'del_1q42.11' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_1q42.11' versus 'TUMOR_TISSUE_SITE'

P value = 0.0576 (Fisher's exact test), Q value = 0.11

Table S210.  Gene #37: 'del_1q42.11' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 5(1Q42.11) MUTATED 49 28
DEL PEAK 5(1Q42.11) WILD-TYPE 522 484

Figure S210.  Get High-res Image Gene #37: 'del_1q42.11' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_1q42.11' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0152 (Wilcoxon-test), Q value = 0.035

Table S211.  Gene #37: 'del_1q42.11' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
DEL PEAK 5(1Q42.11) MUTATED 61 75.9 (18.0)
DEL PEAK 5(1Q42.11) WILD-TYPE 669 81.8 (14.3)

Figure S211.  Get High-res Image Gene #37: 'del_1q42.11' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_2q22.1' versus 'Time to Death'

P value = 0.00412 (logrank test), Q value = 0.011

Table S212.  Gene #39: 'del_2q22.1' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 7(2Q22.1) MUTATED 68 51 1.3 - 117.4 (15.2)
DEL PEAK 7(2Q22.1) WILD-TYPE 1011 540 0.0 - 211.2 (15.8)

Figure S212.  Get High-res Image Gene #39: 'del_2q22.1' versus Clinical Feature #1: 'Time to Death'

'del_2q22.1' versus 'YEARS_TO_BIRTH'

P value = 0.0169 (Wilcoxon-test), Q value = 0.039

Table S213.  Gene #39: 'del_2q22.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 7(2Q22.1) MUTATED 68 55.0 (16.8)
DEL PEAK 7(2Q22.1) WILD-TYPE 1014 50.5 (15.7)

Figure S213.  Get High-res Image Gene #39: 'del_2q22.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_2q22.1' versus 'TUMOR_TISSUE_SITE'

P value = 0.00558 (Fisher's exact test), Q value = 0.015

Table S214.  Gene #39: 'del_2q22.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 7(2Q22.1) MUTATED 47 21
DEL PEAK 7(2Q22.1) WILD-TYPE 524 491

Figure S214.  Get High-res Image Gene #39: 'del_2q22.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_2q22.1' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0771 (Wilcoxon-test), Q value = 0.14

Table S215.  Gene #39: 'del_2q22.1' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
DEL PEAK 7(2Q22.1) MUTATED 48 78.3 (13.1)
DEL PEAK 7(2Q22.1) WILD-TYPE 682 81.5 (14.8)

Figure S215.  Get High-res Image Gene #39: 'del_2q22.1' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_2q22.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.00396 (Fisher's exact test), Q value = 0.011

Table S216.  Gene #39: 'del_2q22.1' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 7(2Q22.1) MUTATED 13 5 3 5 2 40
DEL PEAK 7(2Q22.1) WILD-TYPE 181 23 126 184 16 485

Figure S216.  Get High-res Image Gene #39: 'del_2q22.1' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_2q22.1' versus 'ETHNICITY'

P value = 0.105 (Fisher's exact test), Q value = 0.19

Table S217.  Gene #39: 'del_2q22.1' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 44 919
DEL PEAK 7(2Q22.1) MUTATED 0 60
DEL PEAK 7(2Q22.1) WILD-TYPE 44 859

Figure S217.  Get High-res Image Gene #39: 'del_2q22.1' versus Clinical Feature #9: 'ETHNICITY'

'del_2q37.1' versus 'YEARS_TO_BIRTH'

P value = 0.0283 (Wilcoxon-test), Q value = 0.061

Table S218.  Gene #40: 'del_2q37.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 8(2Q37.1) MUTATED 121 47.9 (17.0)
DEL PEAK 8(2Q37.1) WILD-TYPE 961 51.1 (15.6)

Figure S218.  Get High-res Image Gene #40: 'del_2q37.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_2q37.1' versus 'TUMOR_TISSUE_SITE'

P value = 0.1 (Fisher's exact test), Q value = 0.18

Table S219.  Gene #40: 'del_2q37.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 8(2Q37.1) MUTATED 55 66
DEL PEAK 8(2Q37.1) WILD-TYPE 516 446

Figure S219.  Get High-res Image Gene #40: 'del_2q37.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_2q37.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.00613 (Fisher's exact test), Q value = 0.016

Table S220.  Gene #40: 'del_2q37.1' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 8(2Q37.1) MUTATED 34 3 20 12 1 51
DEL PEAK 8(2Q37.1) WILD-TYPE 160 25 109 177 17 474

Figure S220.  Get High-res Image Gene #40: 'del_2q37.1' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_3p21.31' versus 'RADIATION_THERAPY'

P value = 0.0012 (Fisher's exact test), Q value = 0.0037

Table S221.  Gene #41: 'del_3p21.31' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 9(3P21.31) MUTATED 13 91
DEL PEAK 9(3P21.31) WILD-TYPE 245 676

Figure S221.  Get High-res Image Gene #41: 'del_3p21.31' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_3q13.31' versus 'Time to Death'

P value = 0.114 (logrank test), Q value = 0.2

Table S222.  Gene #42: 'del_3q13.31' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 10(3Q13.31) MUTATED 95 63 0.1 - 117.4 (15.9)
DEL PEAK 10(3Q13.31) WILD-TYPE 984 528 0.0 - 211.2 (15.4)

Figure S222.  Get High-res Image Gene #42: 'del_3q13.31' versus Clinical Feature #1: 'Time to Death'

'del_3q13.31' versus 'RADIATION_THERAPY'

P value = 0.0722 (Fisher's exact test), Q value = 0.14

Table S223.  Gene #42: 'del_3q13.31' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 10(3Q13.31) MUTATED 15 73
DEL PEAK 10(3Q13.31) WILD-TYPE 243 694

Figure S223.  Get High-res Image Gene #42: 'del_3q13.31' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_4q34.3' versus 'Time to Death'

P value = 3.46e-05 (logrank test), Q value = 0.00013

Table S224.  Gene #44: 'del_4q34.3' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 12(4Q34.3) MUTATED 230 101 0.1 - 156.2 (19.8)
DEL PEAK 12(4Q34.3) WILD-TYPE 849 490 0.0 - 211.2 (14.9)

Figure S224.  Get High-res Image Gene #44: 'del_4q34.3' versus Clinical Feature #1: 'Time to Death'

'del_4q34.3' versus 'YEARS_TO_BIRTH'

P value = 0.0122 (Wilcoxon-test), Q value = 0.029

Table S225.  Gene #44: 'del_4q34.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 12(4Q34.3) MUTATED 230 48.5 (14.5)
DEL PEAK 12(4Q34.3) WILD-TYPE 852 51.4 (16.1)

Figure S225.  Get High-res Image Gene #44: 'del_4q34.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_4q34.3' versus 'TUMOR_TISSUE_SITE'

P value = 1.5e-05 (Fisher's exact test), Q value = 5.8e-05

Table S226.  Gene #44: 'del_4q34.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 12(4Q34.3) MUTATED 92 138
DEL PEAK 12(4Q34.3) WILD-TYPE 479 374

Figure S226.  Get High-res Image Gene #44: 'del_4q34.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_4q34.3' versus 'GENDER'

P value = 0.114 (Fisher's exact test), Q value = 0.2

Table S227.  Gene #44: 'del_4q34.3' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 452 631
DEL PEAK 12(4Q34.3) MUTATED 85 145
DEL PEAK 12(4Q34.3) WILD-TYPE 367 486

Figure S227.  Get High-res Image Gene #44: 'del_4q34.3' versus Clinical Feature #4: 'GENDER'

'del_4q34.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.00123 (Fisher's exact test), Q value = 0.0037

Table S228.  Gene #44: 'del_4q34.3' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 12(4Q34.3) MUTATED 49 5 36 53 2 85
DEL PEAK 12(4Q34.3) WILD-TYPE 145 23 93 136 16 440

Figure S228.  Get High-res Image Gene #44: 'del_4q34.3' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_5p15.33' versus 'RADIATION_THERAPY'

P value = 0.000375 (Fisher's exact test), Q value = 0.0012

Table S229.  Gene #45: 'del_5p15.33' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 13(5P15.33) MUTATED 11 88
DEL PEAK 13(5P15.33) WILD-TYPE 247 679

Figure S229.  Get High-res Image Gene #45: 'del_5p15.33' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_5p15.33' versus 'HISTOLOGICAL_TYPE'

P value = 0.0255 (Fisher's exact test), Q value = 0.056

Table S230.  Gene #45: 'del_5p15.33' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 13(5P15.33) MUTATED 23 3 19 8 1 52
DEL PEAK 13(5P15.33) WILD-TYPE 171 25 110 181 17 473

Figure S230.  Get High-res Image Gene #45: 'del_5p15.33' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_5q34' versus 'YEARS_TO_BIRTH'

P value = 0.0929 (Wilcoxon-test), Q value = 0.17

Table S231.  Gene #46: 'del_5q34' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 14(5Q34) MUTATED 132 48.5 (17.7)
DEL PEAK 14(5Q34) WILD-TYPE 950 51.1 (15.5)

Figure S231.  Get High-res Image Gene #46: 'del_5q34' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_5q34' versus 'RADIATION_THERAPY'

P value = 0.00179 (Fisher's exact test), Q value = 0.0053

Table S232.  Gene #46: 'del_5q34' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 14(5Q34) MUTATED 17 106
DEL PEAK 14(5Q34) WILD-TYPE 241 661

Figure S232.  Get High-res Image Gene #46: 'del_5q34' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_5q34' versus 'HISTOLOGICAL_TYPE'

P value = 0.00016 (Fisher's exact test), Q value = 0.00054

Table S233.  Gene #46: 'del_5q34' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 14(5Q34) MUTATED 40 6 13 10 1 62
DEL PEAK 14(5Q34) WILD-TYPE 154 22 116 179 17 463

Figure S233.  Get High-res Image Gene #46: 'del_5q34' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_6p25.3' versus 'Time to Death'

P value = 1.65e-07 (logrank test), Q value = 9.8e-07

Table S234.  Gene #47: 'del_6p25.3' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 15(6P25.3) MUTATED 137 95 0.1 - 145.1 (10.8)
DEL PEAK 15(6P25.3) WILD-TYPE 942 496 0.0 - 211.2 (16.3)

Figure S234.  Get High-res Image Gene #47: 'del_6p25.3' versus Clinical Feature #1: 'Time to Death'

'del_6p25.3' versus 'YEARS_TO_BIRTH'

P value = 0.0347 (Wilcoxon-test), Q value = 0.073

Table S235.  Gene #47: 'del_6p25.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 15(6P25.3) MUTATED 138 53.3 (15.9)
DEL PEAK 15(6P25.3) WILD-TYPE 944 50.4 (15.7)

Figure S235.  Get High-res Image Gene #47: 'del_6p25.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_6p25.3' versus 'TUMOR_TISSUE_SITE'

P value = 0.00607 (Fisher's exact test), Q value = 0.016

Table S236.  Gene #47: 'del_6p25.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 15(6P25.3) MUTATED 88 50
DEL PEAK 15(6P25.3) WILD-TYPE 483 462

Figure S236.  Get High-res Image Gene #47: 'del_6p25.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_6p25.3' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.131 (Wilcoxon-test), Q value = 0.23

Table S237.  Gene #47: 'del_6p25.3' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
DEL PEAK 15(6P25.3) MUTATED 99 79.7 (13.9)
DEL PEAK 15(6P25.3) WILD-TYPE 631 81.5 (14.8)

Figure S237.  Get High-res Image Gene #47: 'del_6p25.3' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_6p25.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.0577 (Fisher's exact test), Q value = 0.11

Table S238.  Gene #47: 'del_6p25.3' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 15(6P25.3) MUTATED 24 3 10 16 2 83
DEL PEAK 15(6P25.3) WILD-TYPE 170 25 119 173 16 442

Figure S238.  Get High-res Image Gene #47: 'del_6p25.3' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_6q22.31' versus 'Time to Death'

P value = 9.96e-12 (logrank test), Q value = 8.6e-11

Table S239.  Gene #48: 'del_6q22.31' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 16(6Q22.31) MUTATED 233 161 0.1 - 117.4 (12.6)
DEL PEAK 16(6Q22.31) WILD-TYPE 846 430 0.0 - 211.2 (16.8)

Figure S239.  Get High-res Image Gene #48: 'del_6q22.31' versus Clinical Feature #1: 'Time to Death'

'del_6q22.31' versus 'YEARS_TO_BIRTH'

P value = 4.01e-05 (Wilcoxon-test), Q value = 0.00015

Table S240.  Gene #48: 'del_6q22.31' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 16(6Q22.31) MUTATED 234 54.6 (15.4)
DEL PEAK 16(6Q22.31) WILD-TYPE 848 49.7 (15.7)

Figure S240.  Get High-res Image Gene #48: 'del_6q22.31' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_6q22.31' versus 'TUMOR_TISSUE_SITE'

P value = 6.44e-07 (Fisher's exact test), Q value = 3.6e-06

Table S241.  Gene #48: 'del_6q22.31' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 16(6Q22.31) MUTATED 157 77
DEL PEAK 16(6Q22.31) WILD-TYPE 414 435

Figure S241.  Get High-res Image Gene #48: 'del_6q22.31' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_6q22.31' versus 'GENDER'

P value = 0.0995 (Fisher's exact test), Q value = 0.18

Table S242.  Gene #48: 'del_6q22.31' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 452 631
DEL PEAK 16(6Q22.31) MUTATED 109 125
DEL PEAK 16(6Q22.31) WILD-TYPE 343 506

Figure S242.  Get High-res Image Gene #48: 'del_6q22.31' versus Clinical Feature #4: 'GENDER'

'del_6q22.31' versus 'RADIATION_THERAPY'

P value = 0.0351 (Fisher's exact test), Q value = 0.074

Table S243.  Gene #48: 'del_6q22.31' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 16(6Q22.31) MUTATED 43 176
DEL PEAK 16(6Q22.31) WILD-TYPE 215 591

Figure S243.  Get High-res Image Gene #48: 'del_6q22.31' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_6q22.31' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00692 (Wilcoxon-test), Q value = 0.018

Table S244.  Gene #48: 'del_6q22.31' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
DEL PEAK 16(6Q22.31) MUTATED 169 78.9 (14.8)
DEL PEAK 16(6Q22.31) WILD-TYPE 561 82.0 (14.6)

Figure S244.  Get High-res Image Gene #48: 'del_6q22.31' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_6q22.31' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S245.  Gene #48: 'del_6q22.31' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 16(6Q22.31) MUTATED 47 6 11 19 7 144
DEL PEAK 16(6Q22.31) WILD-TYPE 147 22 118 170 11 381

Figure S245.  Get High-res Image Gene #48: 'del_6q22.31' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_6q22.31' versus 'RACE'

P value = 0.0988 (Fisher's exact test), Q value = 0.18

Table S246.  Gene #48: 'del_6q22.31' versus Clinical Feature #8: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 1 21 71 957
DEL PEAK 16(6Q22.31) MUTATED 1 6 20 200
DEL PEAK 16(6Q22.31) WILD-TYPE 0 15 51 757

Figure S246.  Get High-res Image Gene #48: 'del_6q22.31' versus Clinical Feature #8: 'RACE'

'del_6q22.31' versus 'ETHNICITY'

P value = 0.13 (Fisher's exact test), Q value = 0.22

Table S247.  Gene #48: 'del_6q22.31' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 44 919
DEL PEAK 16(6Q22.31) MUTATED 5 199
DEL PEAK 16(6Q22.31) WILD-TYPE 39 720

Figure S247.  Get High-res Image Gene #48: 'del_6q22.31' versus Clinical Feature #9: 'ETHNICITY'

'del_6q26' versus 'Time to Death'

P value = 1.63e-11 (logrank test), Q value = 1.4e-10

Table S248.  Gene #49: 'del_6q26' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 17(6Q26) MUTATED 258 178 0.0 - 145.1 (13.2)
DEL PEAK 17(6Q26) WILD-TYPE 821 413 0.1 - 211.2 (16.8)

Figure S248.  Get High-res Image Gene #49: 'del_6q26' versus Clinical Feature #1: 'Time to Death'

'del_6q26' versus 'YEARS_TO_BIRTH'

P value = 0.000142 (Wilcoxon-test), Q value = 0.00049

Table S249.  Gene #49: 'del_6q26' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 17(6Q26) MUTATED 259 53.9 (14.9)
DEL PEAK 17(6Q26) WILD-TYPE 823 49.8 (15.9)

Figure S249.  Get High-res Image Gene #49: 'del_6q26' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_6q26' versus 'TUMOR_TISSUE_SITE'

P value = 2.65e-09 (Fisher's exact test), Q value = 1.8e-08

Table S250.  Gene #49: 'del_6q26' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 17(6Q26) MUTATED 178 81
DEL PEAK 17(6Q26) WILD-TYPE 393 431

Figure S250.  Get High-res Image Gene #49: 'del_6q26' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_6q26' versus 'RADIATION_THERAPY'

P value = 0.00225 (Fisher's exact test), Q value = 0.0065

Table S251.  Gene #49: 'del_6q26' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 17(6Q26) MUTATED 43 199
DEL PEAK 17(6Q26) WILD-TYPE 215 568

Figure S251.  Get High-res Image Gene #49: 'del_6q26' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_6q26' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00312 (Wilcoxon-test), Q value = 0.0087

Table S252.  Gene #49: 'del_6q26' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
DEL PEAK 17(6Q26) MUTATED 186 79.0 (14.4)
DEL PEAK 17(6Q26) WILD-TYPE 544 82.1 (14.7)

Figure S252.  Get High-res Image Gene #49: 'del_6q26' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_6q26' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S253.  Gene #49: 'del_6q26' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 17(6Q26) MUTATED 48 7 12 21 9 162
DEL PEAK 17(6Q26) WILD-TYPE 146 21 117 168 9 363

Figure S253.  Get High-res Image Gene #49: 'del_6q26' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_8p23.2' versus 'Time to Death'

P value = 0.000161 (logrank test), Q value = 0.00054

Table S254.  Gene #50: 'del_8p23.2' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 18(8P23.2) MUTATED 87 59 0.1 - 120.6 (12.7)
DEL PEAK 18(8P23.2) WILD-TYPE 992 532 0.0 - 211.2 (16.0)

Figure S254.  Get High-res Image Gene #50: 'del_8p23.2' versus Clinical Feature #1: 'Time to Death'

'del_8p23.2' versus 'YEARS_TO_BIRTH'

P value = 6.13e-05 (Wilcoxon-test), Q value = 0.00022

Table S255.  Gene #50: 'del_8p23.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 18(8P23.2) MUTATED 88 57.1 (14.5)
DEL PEAK 18(8P23.2) WILD-TYPE 994 50.2 (15.8)

Figure S255.  Get High-res Image Gene #50: 'del_8p23.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_8p23.2' versus 'TUMOR_TISSUE_SITE'

P value = 1.07e-05 (Fisher's exact test), Q value = 4.2e-05

Table S256.  Gene #50: 'del_8p23.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 18(8P23.2) MUTATED 66 22
DEL PEAK 18(8P23.2) WILD-TYPE 505 490

Figure S256.  Get High-res Image Gene #50: 'del_8p23.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_8p23.2' versus 'RADIATION_THERAPY'

P value = 0.0111 (Fisher's exact test), Q value = 0.027

Table S257.  Gene #50: 'del_8p23.2' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 18(8P23.2) MUTATED 11 71
DEL PEAK 18(8P23.2) WILD-TYPE 247 696

Figure S257.  Get High-res Image Gene #50: 'del_8p23.2' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_8p23.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.00012 (Fisher's exact test), Q value = 0.00041

Table S258.  Gene #50: 'del_8p23.2' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 18(8P23.2) MUTATED 13 3 5 4 1 62
DEL PEAK 18(8P23.2) WILD-TYPE 181 25 124 185 17 463

Figure S258.  Get High-res Image Gene #50: 'del_8p23.2' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_8p23.2' versus 'RACE'

P value = 0.0141 (Fisher's exact test), Q value = 0.033

Table S259.  Gene #50: 'del_8p23.2' versus Clinical Feature #8: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 1 21 71 957
DEL PEAK 18(8P23.2) MUTATED 0 6 6 72
DEL PEAK 18(8P23.2) WILD-TYPE 1 15 65 885

Figure S259.  Get High-res Image Gene #50: 'del_8p23.2' versus Clinical Feature #8: 'RACE'

'del_8q24.3' versus 'Time to Death'

P value = 0.0126 (logrank test), Q value = 0.03

Table S260.  Gene #51: 'del_8q24.3' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 19(8Q24.3) MUTATED 78 49 0.2 - 82.6 (14.3)
DEL PEAK 19(8Q24.3) WILD-TYPE 1001 542 0.0 - 211.2 (15.9)

Figure S260.  Get High-res Image Gene #51: 'del_8q24.3' versus Clinical Feature #1: 'Time to Death'

'del_8q24.3' versus 'TUMOR_TISSUE_SITE'

P value = 0.0248 (Fisher's exact test), Q value = 0.055

Table S261.  Gene #51: 'del_8q24.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 19(8Q24.3) MUTATED 51 27
DEL PEAK 19(8Q24.3) WILD-TYPE 520 485

Figure S261.  Get High-res Image Gene #51: 'del_8q24.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_8q24.3' versus 'RADIATION_THERAPY'

P value = 0.0127 (Fisher's exact test), Q value = 0.03

Table S262.  Gene #51: 'del_8q24.3' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 19(8Q24.3) MUTATED 10 65
DEL PEAK 19(8Q24.3) WILD-TYPE 248 702

Figure S262.  Get High-res Image Gene #51: 'del_8q24.3' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_8q24.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.0845 (Fisher's exact test), Q value = 0.16

Table S263.  Gene #51: 'del_8q24.3' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 19(8Q24.3) MUTATED 12 1 9 6 2 48
DEL PEAK 19(8Q24.3) WILD-TYPE 182 27 120 183 16 477

Figure S263.  Get High-res Image Gene #51: 'del_8q24.3' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_9p21.3' versus 'Time to Death'

P value = 0 (logrank test), Q value = 0

Table S264.  Gene #52: 'del_9p21.3' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 20(9P21.3) MUTATED 587 409 0.1 - 169.8 (13.3)
DEL PEAK 20(9P21.3) WILD-TYPE 492 182 0.0 - 211.2 (18.7)

Figure S264.  Get High-res Image Gene #52: 'del_9p21.3' versus Clinical Feature #1: 'Time to Death'

'del_9p21.3' versus 'YEARS_TO_BIRTH'

P value = 3.58e-30 (Wilcoxon-test), Q value = 5.9e-29

Table S265.  Gene #52: 'del_9p21.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 20(9P21.3) MUTATED 588 55.6 (14.8)
DEL PEAK 20(9P21.3) WILD-TYPE 494 45.0 (14.9)

Figure S265.  Get High-res Image Gene #52: 'del_9p21.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_9p21.3' versus 'TUMOR_TISSUE_SITE'

P value = 5.89e-38 (Fisher's exact test), Q value = 1.1e-36

Table S266.  Gene #52: 'del_9p21.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 20(9P21.3) MUTATED 415 174
DEL PEAK 20(9P21.3) WILD-TYPE 156 338

Figure S266.  Get High-res Image Gene #52: 'del_9p21.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_9p21.3' versus 'RADIATION_THERAPY'

P value = 4.11e-10 (Fisher's exact test), Q value = 3e-09

Table S267.  Gene #52: 'del_9p21.3' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 20(9P21.3) MUTATED 96 458
DEL PEAK 20(9P21.3) WILD-TYPE 162 309

Figure S267.  Get High-res Image Gene #52: 'del_9p21.3' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_9p21.3' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 4.66e-13 (Wilcoxon-test), Q value = 4.4e-12

Table S268.  Gene #52: 'del_9p21.3' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
DEL PEAK 20(9P21.3) MUTATED 409 77.9 (15.5)
DEL PEAK 20(9P21.3) WILD-TYPE 321 85.6 (12.4)

Figure S268.  Get High-res Image Gene #52: 'del_9p21.3' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_9p21.3' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S269.  Gene #52: 'del_9p21.3' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 20(9P21.3) MUTATED 85 21 36 53 15 379
DEL PEAK 20(9P21.3) WILD-TYPE 109 7 93 136 3 146

Figure S269.  Get High-res Image Gene #52: 'del_9p21.3' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_9p21.3' versus 'RACE'

P value = 0.015 (Fisher's exact test), Q value = 0.035

Table S270.  Gene #52: 'del_9p21.3' versus Clinical Feature #8: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 1 21 71 957
DEL PEAK 20(9P21.3) MUTATED 0 12 50 508
DEL PEAK 20(9P21.3) WILD-TYPE 1 9 21 449

Figure S270.  Get High-res Image Gene #52: 'del_9p21.3' versus Clinical Feature #8: 'RACE'

'del_9p21.3' versus 'ETHNICITY'

P value = 0.0636 (Fisher's exact test), Q value = 0.12

Table S271.  Gene #52: 'del_9p21.3' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 44 919
DEL PEAK 20(9P21.3) MUTATED 17 491
DEL PEAK 20(9P21.3) WILD-TYPE 27 428

Figure S271.  Get High-res Image Gene #52: 'del_9p21.3' versus Clinical Feature #9: 'ETHNICITY'

'del_10p15.3' versus 'Time to Death'

P value = 0 (logrank test), Q value = 0

Table S272.  Gene #53: 'del_10p15.3' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 21(10P15.3) MUTATED 546 437 0.1 - 134.3 (12.2)
DEL PEAK 21(10P15.3) WILD-TYPE 533 154 0.0 - 211.2 (21.0)

Figure S272.  Get High-res Image Gene #53: 'del_10p15.3' versus Clinical Feature #1: 'Time to Death'

'del_10p15.3' versus 'YEARS_TO_BIRTH'

P value = 2.28e-71 (Wilcoxon-test), Q value = 6e-70

Table S273.  Gene #53: 'del_10p15.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 21(10P15.3) MUTATED 547 59.1 (12.4)
DEL PEAK 21(10P15.3) WILD-TYPE 535 42.2 (14.2)

Figure S273.  Get High-res Image Gene #53: 'del_10p15.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_10p15.3' versus 'TUMOR_TISSUE_SITE'

P value = 1.4e-109 (Fisher's exact test), Q value = 5e-108

Table S274.  Gene #53: 'del_10p15.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 21(10P15.3) MUTATED 464 83
DEL PEAK 21(10P15.3) WILD-TYPE 107 429

Figure S274.  Get High-res Image Gene #53: 'del_10p15.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_10p15.3' versus 'GENDER'

P value = 0.0645 (Fisher's exact test), Q value = 0.12

Table S275.  Gene #53: 'del_10p15.3' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 452 631
DEL PEAK 21(10P15.3) MUTATED 213 334
DEL PEAK 21(10P15.3) WILD-TYPE 239 297

Figure S275.  Get High-res Image Gene #53: 'del_10p15.3' versus Clinical Feature #4: 'GENDER'

'del_10p15.3' versus 'RADIATION_THERAPY'

P value = 1.12e-15 (Fisher's exact test), Q value = 1.3e-14

Table S276.  Gene #53: 'del_10p15.3' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 21(10P15.3) MUTATED 75 443
DEL PEAK 21(10P15.3) WILD-TYPE 183 324

Figure S276.  Get High-res Image Gene #53: 'del_10p15.3' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_10p15.3' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 6.84e-18 (Wilcoxon-test), Q value = 9.9e-17

Table S277.  Gene #53: 'del_10p15.3' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
DEL PEAK 21(10P15.3) MUTATED 398 77.4 (15.3)
DEL PEAK 21(10P15.3) WILD-TYPE 332 86.0 (12.5)

Figure S277.  Get High-res Image Gene #53: 'del_10p15.3' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_10p15.3' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S278.  Gene #53: 'del_10p15.3' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 21(10P15.3) MUTATED 50 20 15 18 11 433
DEL PEAK 21(10P15.3) WILD-TYPE 144 8 114 171 7 92

Figure S278.  Get High-res Image Gene #53: 'del_10p15.3' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_10p15.3' versus 'RACE'

P value = 0.00766 (Fisher's exact test), Q value = 0.019

Table S279.  Gene #53: 'del_10p15.3' versus Clinical Feature #8: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 1 21 71 957
DEL PEAK 21(10P15.3) MUTATED 1 9 48 468
DEL PEAK 21(10P15.3) WILD-TYPE 0 12 23 489

Figure S279.  Get High-res Image Gene #53: 'del_10p15.3' versus Clinical Feature #8: 'RACE'

'del_10p15.3' versus 'ETHNICITY'

P value = 0.00501 (Fisher's exact test), Q value = 0.013

Table S280.  Gene #53: 'del_10p15.3' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 44 919
DEL PEAK 21(10P15.3) MUTATED 12 453
DEL PEAK 21(10P15.3) WILD-TYPE 32 466

Figure S280.  Get High-res Image Gene #53: 'del_10p15.3' versus Clinical Feature #9: 'ETHNICITY'

'del_10p13' versus 'Time to Death'

P value = 0 (logrank test), Q value = 0

Table S281.  Gene #54: 'del_10p13' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 22(10P13) MUTATED 546 439 0.1 - 134.3 (12.3)
DEL PEAK 22(10P13) WILD-TYPE 533 152 0.0 - 211.2 (21.1)

Figure S281.  Get High-res Image Gene #54: 'del_10p13' versus Clinical Feature #1: 'Time to Death'

'del_10p13' versus 'YEARS_TO_BIRTH'

P value = 1.44e-71 (Wilcoxon-test), Q value = 3.9e-70

Table S282.  Gene #54: 'del_10p13' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 22(10P13) MUTATED 547 59.1 (12.2)
DEL PEAK 22(10P13) WILD-TYPE 535 42.2 (14.4)

Figure S282.  Get High-res Image Gene #54: 'del_10p13' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_10p13' versus 'TUMOR_TISSUE_SITE'

P value = 6.21e-111 (Fisher's exact test), Q value = 2.3e-109

Table S283.  Gene #54: 'del_10p13' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 22(10P13) MUTATED 465 82
DEL PEAK 22(10P13) WILD-TYPE 106 430

Figure S283.  Get High-res Image Gene #54: 'del_10p13' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_10p13' versus 'GENDER'

P value = 0.0265 (Fisher's exact test), Q value = 0.058

Table S284.  Gene #54: 'del_10p13' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 452 631
DEL PEAK 22(10P13) MUTATED 210 337
DEL PEAK 22(10P13) WILD-TYPE 242 294

Figure S284.  Get High-res Image Gene #54: 'del_10p13' versus Clinical Feature #4: 'GENDER'

'del_10p13' versus 'RADIATION_THERAPY'

P value = 9.39e-17 (Fisher's exact test), Q value = 1.3e-15

Table S285.  Gene #54: 'del_10p13' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 22(10P13) MUTATED 73 445
DEL PEAK 22(10P13) WILD-TYPE 185 322

Figure S285.  Get High-res Image Gene #54: 'del_10p13' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_10p13' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 2.63e-16 (Wilcoxon-test), Q value = 3.5e-15

Table S286.  Gene #54: 'del_10p13' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
DEL PEAK 22(10P13) MUTATED 399 77.6 (15.3)
DEL PEAK 22(10P13) WILD-TYPE 331 85.8 (12.5)

Figure S286.  Get High-res Image Gene #54: 'del_10p13' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_10p13' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S287.  Gene #54: 'del_10p13' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 22(10P13) MUTATED 50 19 15 17 11 435
DEL PEAK 22(10P13) WILD-TYPE 144 9 114 172 7 90

Figure S287.  Get High-res Image Gene #54: 'del_10p13' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_10p13' versus 'RACE'

P value = 0.016 (Fisher's exact test), Q value = 0.037

Table S288.  Gene #54: 'del_10p13' versus Clinical Feature #8: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 1 21 71 957
DEL PEAK 22(10P13) MUTATED 1 9 47 469
DEL PEAK 22(10P13) WILD-TYPE 0 12 24 488

Figure S288.  Get High-res Image Gene #54: 'del_10p13' versus Clinical Feature #8: 'RACE'

'del_10p13' versus 'ETHNICITY'

P value = 0.00501 (Fisher's exact test), Q value = 0.013

Table S289.  Gene #54: 'del_10p13' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 44 919
DEL PEAK 22(10P13) MUTATED 12 453
DEL PEAK 22(10P13) WILD-TYPE 32 466

Figure S289.  Get High-res Image Gene #54: 'del_10p13' versus Clinical Feature #9: 'ETHNICITY'

'del_10p11.23' versus 'Time to Death'

P value = 0 (logrank test), Q value = 0

Table S290.  Gene #55: 'del_10p11.23' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 23(10P11.23) MUTATED 551 443 0.1 - 134.3 (12.2)
DEL PEAK 23(10P11.23) WILD-TYPE 528 148 0.0 - 211.2 (21.4)

Figure S290.  Get High-res Image Gene #55: 'del_10p11.23' versus Clinical Feature #1: 'Time to Death'

'del_10p11.23' versus 'YEARS_TO_BIRTH'

P value = 3.67e-75 (Wilcoxon-test), Q value = 1.1e-73

Table S291.  Gene #55: 'del_10p11.23' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 23(10P11.23) MUTATED 552 59.3 (12.3)
DEL PEAK 23(10P11.23) WILD-TYPE 530 41.9 (14.1)

Figure S291.  Get High-res Image Gene #55: 'del_10p11.23' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_10p11.23' versus 'TUMOR_TISSUE_SITE'

P value = 4.92e-114 (Fisher's exact test), Q value = 1.9e-112

Table S292.  Gene #55: 'del_10p11.23' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 23(10P11.23) MUTATED 470 82
DEL PEAK 23(10P11.23) WILD-TYPE 101 430

Figure S292.  Get High-res Image Gene #55: 'del_10p11.23' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_10p11.23' versus 'GENDER'

P value = 0.0485 (Fisher's exact test), Q value = 0.097

Table S293.  Gene #55: 'del_10p11.23' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 452 631
DEL PEAK 23(10P11.23) MUTATED 214 338
DEL PEAK 23(10P11.23) WILD-TYPE 238 293

Figure S293.  Get High-res Image Gene #55: 'del_10p11.23' versus Clinical Feature #4: 'GENDER'

'del_10p11.23' versus 'RADIATION_THERAPY'

P value = 6.1e-16 (Fisher's exact test), Q value = 7.6e-15

Table S294.  Gene #55: 'del_10p11.23' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 23(10P11.23) MUTATED 76 448
DEL PEAK 23(10P11.23) WILD-TYPE 182 319

Figure S294.  Get High-res Image Gene #55: 'del_10p11.23' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_10p11.23' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 2.49e-19 (Wilcoxon-test), Q value = 3.8e-18

Table S295.  Gene #55: 'del_10p11.23' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
DEL PEAK 23(10P11.23) MUTATED 404 77.3 (15.3)
DEL PEAK 23(10P11.23) WILD-TYPE 326 86.3 (12.3)

Figure S295.  Get High-res Image Gene #55: 'del_10p11.23' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_10p11.23' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S296.  Gene #55: 'del_10p11.23' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 23(10P11.23) MUTATED 50 20 14 18 10 440
DEL PEAK 23(10P11.23) WILD-TYPE 144 8 115 171 8 85

Figure S296.  Get High-res Image Gene #55: 'del_10p11.23' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_10p11.23' versus 'RACE'

P value = 0.00155 (Fisher's exact test), Q value = 0.0046

Table S297.  Gene #55: 'del_10p11.23' versus Clinical Feature #8: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 1 21 71 957
DEL PEAK 23(10P11.23) MUTATED 1 9 50 470
DEL PEAK 23(10P11.23) WILD-TYPE 0 12 21 487

Figure S297.  Get High-res Image Gene #55: 'del_10p11.23' versus Clinical Feature #8: 'RACE'

'del_10p11.23' versus 'ETHNICITY'

P value = 0.00325 (Fisher's exact test), Q value = 0.009

Table S298.  Gene #55: 'del_10p11.23' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 44 919
DEL PEAK 23(10P11.23) MUTATED 12 459
DEL PEAK 23(10P11.23) WILD-TYPE 32 460

Figure S298.  Get High-res Image Gene #55: 'del_10p11.23' versus Clinical Feature #9: 'ETHNICITY'

'del_10q23.31' versus 'Time to Death'

P value = 0 (logrank test), Q value = 0

Table S299.  Gene #56: 'del_10q23.31' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 24(10Q23.31) MUTATED 621 484 0.1 - 156.2 (12.6)
DEL PEAK 24(10Q23.31) WILD-TYPE 458 107 0.0 - 211.2 (22.9)

Figure S299.  Get High-res Image Gene #56: 'del_10q23.31' versus Clinical Feature #1: 'Time to Death'

'del_10q23.31' versus 'YEARS_TO_BIRTH'

P value = 8.17e-64 (Wilcoxon-test), Q value = 2e-62

Table S300.  Gene #56: 'del_10q23.31' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 24(10Q23.31) MUTATED 622 57.6 (13.6)
DEL PEAK 24(10Q23.31) WILD-TYPE 460 41.5 (13.7)

Figure S300.  Get High-res Image Gene #56: 'del_10q23.31' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_10q23.31' versus 'TUMOR_TISSUE_SITE'

P value = 2.51e-118 (Fisher's exact test), Q value = 1e-116

Table S301.  Gene #56: 'del_10q23.31' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 24(10Q23.31) MUTATED 508 114
DEL PEAK 24(10Q23.31) WILD-TYPE 63 398

Figure S301.  Get High-res Image Gene #56: 'del_10q23.31' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_10q23.31' versus 'RADIATION_THERAPY'

P value = 3.55e-19 (Fisher's exact test), Q value = 5.4e-18

Table S302.  Gene #56: 'del_10q23.31' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 24(10Q23.31) MUTATED 87 504
DEL PEAK 24(10Q23.31) WILD-TYPE 171 263

Figure S302.  Get High-res Image Gene #56: 'del_10q23.31' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_10q23.31' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 2.2e-18 (Wilcoxon-test), Q value = 3.3e-17

Table S303.  Gene #56: 'del_10q23.31' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
DEL PEAK 24(10Q23.31) MUTATED 444 77.7 (15.2)
DEL PEAK 24(10Q23.31) WILD-TYPE 286 86.8 (11.9)

Figure S303.  Get High-res Image Gene #56: 'del_10q23.31' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_10q23.31' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S304.  Gene #56: 'del_10q23.31' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 24(10Q23.31) MUTATED 68 23 19 27 13 472
DEL PEAK 24(10Q23.31) WILD-TYPE 126 5 110 162 5 53

Figure S304.  Get High-res Image Gene #56: 'del_10q23.31' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_10q23.31' versus 'RACE'

P value = 0.00702 (Fisher's exact test), Q value = 0.018

Table S305.  Gene #56: 'del_10q23.31' versus Clinical Feature #8: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 1 21 71 957
DEL PEAK 24(10Q23.31) MUTATED 1 11 53 535
DEL PEAK 24(10Q23.31) WILD-TYPE 0 10 18 422

Figure S305.  Get High-res Image Gene #56: 'del_10q23.31' versus Clinical Feature #8: 'RACE'

'del_10q23.31' versus 'ETHNICITY'

P value = 0.00831 (Fisher's exact test), Q value = 0.021

Table S306.  Gene #56: 'del_10q23.31' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 44 919
DEL PEAK 24(10Q23.31) MUTATED 16 522
DEL PEAK 24(10Q23.31) WILD-TYPE 28 397

Figure S306.  Get High-res Image Gene #56: 'del_10q23.31' versus Clinical Feature #9: 'ETHNICITY'

'del_10q26.3' versus 'Time to Death'

P value = 0 (logrank test), Q value = 0

Table S307.  Gene #57: 'del_10q26.3' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 25(10Q26.3) MUTATED 657 490 0.1 - 172.8 (13.3)
DEL PEAK 25(10Q26.3) WILD-TYPE 422 101 0.0 - 211.2 (22.2)

Figure S307.  Get High-res Image Gene #57: 'del_10q26.3' versus Clinical Feature #1: 'Time to Death'

'del_10q26.3' versus 'YEARS_TO_BIRTH'

P value = 4.8e-50 (Wilcoxon-test), Q value = 1e-48

Table S308.  Gene #57: 'del_10q26.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 25(10Q26.3) MUTATED 659 56.4 (14.3)
DEL PEAK 25(10Q26.3) WILD-TYPE 423 42.0 (13.9)

Figure S308.  Get High-res Image Gene #57: 'del_10q26.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_10q26.3' versus 'TUMOR_TISSUE_SITE'

P value = 7.75e-97 (Fisher's exact test), Q value = 2.5e-95

Table S309.  Gene #57: 'del_10q26.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 25(10Q26.3) MUTATED 509 150
DEL PEAK 25(10Q26.3) WILD-TYPE 62 362

Figure S309.  Get High-res Image Gene #57: 'del_10q26.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_10q26.3' versus 'RADIATION_THERAPY'

P value = 8.23e-17 (Fisher's exact test), Q value = 1.2e-15

Table S310.  Gene #57: 'del_10q26.3' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 25(10Q26.3) MUTATED 101 528
DEL PEAK 25(10Q26.3) WILD-TYPE 157 239

Figure S310.  Get High-res Image Gene #57: 'del_10q26.3' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_10q26.3' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 3.22e-16 (Wilcoxon-test), Q value = 4.2e-15

Table S311.  Gene #57: 'del_10q26.3' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
DEL PEAK 25(10Q26.3) MUTATED 469 78.1 (15.4)
DEL PEAK 25(10Q26.3) WILD-TYPE 261 86.9 (11.3)

Figure S311.  Get High-res Image Gene #57: 'del_10q26.3' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_10q26.3' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S312.  Gene #57: 'del_10q26.3' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 25(10Q26.3) MUTATED 81 23 32 37 14 472
DEL PEAK 25(10Q26.3) WILD-TYPE 113 5 97 152 4 53

Figure S312.  Get High-res Image Gene #57: 'del_10q26.3' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_10q26.3' versus 'RACE'

P value = 0.00837 (Fisher's exact test), Q value = 0.021

Table S313.  Gene #57: 'del_10q26.3' versus Clinical Feature #8: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 1 21 71 957
DEL PEAK 25(10Q26.3) MUTATED 1 11 55 570
DEL PEAK 25(10Q26.3) WILD-TYPE 0 10 16 387

Figure S313.  Get High-res Image Gene #57: 'del_10q26.3' versus Clinical Feature #8: 'RACE'

'del_10q26.3' versus 'ETHNICITY'

P value = 0.0271 (Fisher's exact test), Q value = 0.059

Table S314.  Gene #57: 'del_10q26.3' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 44 919
DEL PEAK 25(10Q26.3) MUTATED 19 556
DEL PEAK 25(10Q26.3) WILD-TYPE 25 363

Figure S314.  Get High-res Image Gene #57: 'del_10q26.3' versus Clinical Feature #9: 'ETHNICITY'

'del_11p15.5' versus 'YEARS_TO_BIRTH'

P value = 0.000747 (Wilcoxon-test), Q value = 0.0023

Table S315.  Gene #58: 'del_11p15.5' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 26(11P15.5) MUTATED 234 47.8 (15.9)
DEL PEAK 26(11P15.5) WILD-TYPE 848 51.6 (15.7)

Figure S315.  Get High-res Image Gene #58: 'del_11p15.5' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_11p15.5' versus 'GENDER'

P value = 0.0515 (Fisher's exact test), Q value = 0.1

Table S316.  Gene #58: 'del_11p15.5' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 452 631
DEL PEAK 26(11P15.5) MUTATED 111 123
DEL PEAK 26(11P15.5) WILD-TYPE 341 508

Figure S316.  Get High-res Image Gene #58: 'del_11p15.5' versus Clinical Feature #4: 'GENDER'

'del_11p15.5' versus 'RADIATION_THERAPY'

P value = 0.0146 (Fisher's exact test), Q value = 0.034

Table S317.  Gene #58: 'del_11p15.5' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 26(11P15.5) MUTATED 42 180
DEL PEAK 26(11P15.5) WILD-TYPE 216 587

Figure S317.  Get High-res Image Gene #58: 'del_11p15.5' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_11p15.5' versus 'HISTOLOGICAL_TYPE'

P value = 3e-05 (Fisher's exact test), Q value = 0.00011

Table S318.  Gene #58: 'del_11p15.5' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 26(11P15.5) MUTATED 58 6 29 18 6 117
DEL PEAK 26(11P15.5) WILD-TYPE 136 22 100 171 12 408

Figure S318.  Get High-res Image Gene #58: 'del_11p15.5' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_11p15.1' versus 'Time to Death'

P value = 0.0903 (logrank test), Q value = 0.16

Table S319.  Gene #59: 'del_11p15.1' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 27(11P15.1) MUTATED 175 112 0.2 - 156.2 (16.5)
DEL PEAK 27(11P15.1) WILD-TYPE 904 479 0.0 - 211.2 (15.4)

Figure S319.  Get High-res Image Gene #59: 'del_11p15.1' versus Clinical Feature #1: 'Time to Death'

'del_11p15.1' versus 'TUMOR_TISSUE_SITE'

P value = 0.0697 (Fisher's exact test), Q value = 0.13

Table S320.  Gene #59: 'del_11p15.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 27(11P15.1) MUTATED 104 72
DEL PEAK 27(11P15.1) WILD-TYPE 467 440

Figure S320.  Get High-res Image Gene #59: 'del_11p15.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_11p15.1' versus 'GENDER'

P value = 0.0372 (Fisher's exact test), Q value = 0.077

Table S321.  Gene #59: 'del_11p15.1' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 452 631
DEL PEAK 27(11P15.1) MUTATED 86 90
DEL PEAK 27(11P15.1) WILD-TYPE 366 541

Figure S321.  Get High-res Image Gene #59: 'del_11p15.1' versus Clinical Feature #4: 'GENDER'

'del_11p15.1' versus 'RADIATION_THERAPY'

P value = 0.0243 (Fisher's exact test), Q value = 0.054

Table S322.  Gene #59: 'del_11p15.1' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 27(11P15.1) MUTATED 30 136
DEL PEAK 27(11P15.1) WILD-TYPE 228 631

Figure S322.  Get High-res Image Gene #59: 'del_11p15.1' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_11p15.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.00023 (Fisher's exact test), Q value = 0.00076

Table S323.  Gene #59: 'del_11p15.1' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 27(11P15.1) MUTATED 43 5 15 14 5 94
DEL PEAK 27(11P15.1) WILD-TYPE 151 23 114 175 13 431

Figure S323.  Get High-res Image Gene #59: 'del_11p15.1' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_11p11.2' versus 'Time to Death'

P value = 0.00283 (logrank test), Q value = 0.0081

Table S324.  Gene #60: 'del_11p11.2' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 28(11P11.2) MUTATED 159 111 0.2 - 117.4 (15.9)
DEL PEAK 28(11P11.2) WILD-TYPE 920 480 0.0 - 211.2 (15.5)

Figure S324.  Get High-res Image Gene #60: 'del_11p11.2' versus Clinical Feature #1: 'Time to Death'

'del_11p11.2' versus 'TUMOR_TISSUE_SITE'

P value = 0.000289 (Fisher's exact test), Q value = 0.00095

Table S325.  Gene #60: 'del_11p11.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 28(11P11.2) MUTATED 105 54
DEL PEAK 28(11P11.2) WILD-TYPE 466 458

Figure S325.  Get High-res Image Gene #60: 'del_11p11.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_11p11.2' versus 'RADIATION_THERAPY'

P value = 0.00293 (Fisher's exact test), Q value = 0.0083

Table S326.  Gene #60: 'del_11p11.2' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 28(11P11.2) MUTATED 23 126
DEL PEAK 28(11P11.2) WILD-TYPE 235 641

Figure S326.  Get High-res Image Gene #60: 'del_11p11.2' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_11p11.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.00012 (Fisher's exact test), Q value = 0.00041

Table S327.  Gene #60: 'del_11p11.2' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 28(11P11.2) MUTATED 30 5 13 11 6 94
DEL PEAK 28(11P11.2) WILD-TYPE 164 23 116 178 12 431

Figure S327.  Get High-res Image Gene #60: 'del_11p11.2' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_12p13.1' versus 'Time to Death'

P value = 0.0581 (logrank test), Q value = 0.11

Table S328.  Gene #61: 'del_12p13.1' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 29(12P13.1) MUTATED 108 68 0.1 - 95.1 (15.5)
DEL PEAK 29(12P13.1) WILD-TYPE 971 523 0.0 - 211.2 (15.7)

Figure S328.  Get High-res Image Gene #61: 'del_12p13.1' versus Clinical Feature #1: 'Time to Death'

'del_12p13.1' versus 'TUMOR_TISSUE_SITE'

P value = 0.00631 (Fisher's exact test), Q value = 0.016

Table S329.  Gene #61: 'del_12p13.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 29(12P13.1) MUTATED 71 38
DEL PEAK 29(12P13.1) WILD-TYPE 500 474

Figure S329.  Get High-res Image Gene #61: 'del_12p13.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_12p13.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0114 (Fisher's exact test), Q value = 0.027

Table S330.  Gene #61: 'del_12p13.1' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 29(12P13.1) MUTATED 20 1 9 9 1 69
DEL PEAK 29(12P13.1) WILD-TYPE 174 27 120 180 17 456

Figure S330.  Get High-res Image Gene #61: 'del_12p13.1' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_12p13.1' versus 'ETHNICITY'

P value = 0.115 (Fisher's exact test), Q value = 0.2

Table S331.  Gene #61: 'del_12p13.1' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 44 919
DEL PEAK 29(12P13.1) MUTATED 1 94
DEL PEAK 29(12P13.1) WILD-TYPE 43 825

Figure S331.  Get High-res Image Gene #61: 'del_12p13.1' versus Clinical Feature #9: 'ETHNICITY'

'del_12q12' versus 'HISTOLOGICAL_TYPE'

P value = 0.00116 (Fisher's exact test), Q value = 0.0036

Table S332.  Gene #62: 'del_12q12' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 30(12Q12) MUTATED 42 3 16 12 2 71
DEL PEAK 30(12Q12) WILD-TYPE 152 25 113 177 16 454

Figure S332.  Get High-res Image Gene #62: 'del_12q12' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_12q15' versus 'HISTOLOGICAL_TYPE'

P value = 0.00702 (Fisher's exact test), Q value = 0.018

Table S333.  Gene #63: 'del_12q15' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 31(12Q15) MUTATED 37 4 14 12 3 71
DEL PEAK 31(12Q15) WILD-TYPE 157 24 115 177 15 454

Figure S333.  Get High-res Image Gene #63: 'del_12q15' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_13q14.2' versus 'Time to Death'

P value = 3.31e-05 (logrank test), Q value = 0.00012

Table S334.  Gene #64: 'del_13q14.2' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 32(13Q14.2) MUTATED 380 247 0.1 - 211.2 (15.0)
DEL PEAK 32(13Q14.2) WILD-TYPE 699 344 0.0 - 182.3 (16.2)

Figure S334.  Get High-res Image Gene #64: 'del_13q14.2' versus Clinical Feature #1: 'Time to Death'

'del_13q14.2' versus 'YEARS_TO_BIRTH'

P value = 0.0605 (Wilcoxon-test), Q value = 0.12

Table S335.  Gene #64: 'del_13q14.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 32(13Q14.2) MUTATED 381 52.0 (16.2)
DEL PEAK 32(13Q14.2) WILD-TYPE 701 50.1 (15.5)

Figure S335.  Get High-res Image Gene #64: 'del_13q14.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_13q14.2' versus 'TUMOR_TISSUE_SITE'

P value = 1.23e-06 (Fisher's exact test), Q value = 6.7e-06

Table S336.  Gene #64: 'del_13q14.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 32(13Q14.2) MUTATED 239 142
DEL PEAK 32(13Q14.2) WILD-TYPE 332 370

Figure S336.  Get High-res Image Gene #64: 'del_13q14.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_13q14.2' versus 'GENDER'

P value = 0.122 (Fisher's exact test), Q value = 0.21

Table S337.  Gene #64: 'del_13q14.2' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 452 631
DEL PEAK 32(13Q14.2) MUTATED 147 234
DEL PEAK 32(13Q14.2) WILD-TYPE 305 397

Figure S337.  Get High-res Image Gene #64: 'del_13q14.2' versus Clinical Feature #4: 'GENDER'

'del_13q14.2' versus 'RADIATION_THERAPY'

P value = 0.00263 (Fisher's exact test), Q value = 0.0076

Table S338.  Gene #64: 'del_13q14.2' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 32(13Q14.2) MUTATED 72 294
DEL PEAK 32(13Q14.2) WILD-TYPE 186 473

Figure S338.  Get High-res Image Gene #64: 'del_13q14.2' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_13q14.2' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00468 (Wilcoxon-test), Q value = 0.013

Table S339.  Gene #64: 'del_13q14.2' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
DEL PEAK 32(13Q14.2) MUTATED 269 79.4 (14.7)
DEL PEAK 32(13Q14.2) WILD-TYPE 461 82.4 (14.6)

Figure S339.  Get High-res Image Gene #64: 'del_13q14.2' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_13q14.2' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S340.  Gene #64: 'del_13q14.2' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 32(13Q14.2) MUTATED 63 9 36 43 6 224
DEL PEAK 32(13Q14.2) WILD-TYPE 131 19 93 146 12 301

Figure S340.  Get High-res Image Gene #64: 'del_13q14.2' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_13q22.1' versus 'Time to Death'

P value = 1.74e-05 (logrank test), Q value = 6.6e-05

Table S341.  Gene #65: 'del_13q22.1' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 33(13Q22.1) MUTATED 363 235 0.1 - 211.2 (15.0)
DEL PEAK 33(13Q22.1) WILD-TYPE 716 356 0.0 - 182.3 (16.2)

Figure S341.  Get High-res Image Gene #65: 'del_13q22.1' versus Clinical Feature #1: 'Time to Death'

'del_13q22.1' versus 'YEARS_TO_BIRTH'

P value = 0.013 (Wilcoxon-test), Q value = 0.031

Table S342.  Gene #65: 'del_13q22.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 33(13Q22.1) MUTATED 364 52.4 (15.5)
DEL PEAK 33(13Q22.1) WILD-TYPE 718 49.9 (15.8)

Figure S342.  Get High-res Image Gene #65: 'del_13q22.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_13q22.1' versus 'TUMOR_TISSUE_SITE'

P value = 6.34e-06 (Fisher's exact test), Q value = 3.2e-05

Table S343.  Gene #65: 'del_13q22.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 33(13Q22.1) MUTATED 227 137
DEL PEAK 33(13Q22.1) WILD-TYPE 344 375

Figure S343.  Get High-res Image Gene #65: 'del_13q22.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_13q22.1' versus 'RADIATION_THERAPY'

P value = 0.0151 (Fisher's exact test), Q value = 0.035

Table S344.  Gene #65: 'del_13q22.1' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 33(13Q22.1) MUTATED 72 279
DEL PEAK 33(13Q22.1) WILD-TYPE 186 488

Figure S344.  Get High-res Image Gene #65: 'del_13q22.1' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_13q22.1' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00209 (Wilcoxon-test), Q value = 0.0061

Table S345.  Gene #65: 'del_13q22.1' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
DEL PEAK 33(13Q22.1) MUTATED 255 79.2 (14.6)
DEL PEAK 33(13Q22.1) WILD-TYPE 475 82.4 (14.6)

Figure S345.  Get High-res Image Gene #65: 'del_13q22.1' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_13q22.1' versus 'HISTOLOGICAL_TYPE'

P value = 1e-04 (Fisher's exact test), Q value = 0.00035

Table S346.  Gene #65: 'del_13q22.1' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 33(13Q22.1) MUTATED 59 9 34 44 5 213
DEL PEAK 33(13Q22.1) WILD-TYPE 135 19 95 145 13 312

Figure S346.  Get High-res Image Gene #65: 'del_13q22.1' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_13q22.1' versus 'ETHNICITY'

P value = 0.142 (Fisher's exact test), Q value = 0.24

Table S347.  Gene #65: 'del_13q22.1' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 44 919
DEL PEAK 33(13Q22.1) MUTATED 10 313
DEL PEAK 33(13Q22.1) WILD-TYPE 34 606

Figure S347.  Get High-res Image Gene #65: 'del_13q22.1' versus Clinical Feature #9: 'ETHNICITY'

'del_14q13.1' versus 'Time to Death'

P value = 1.86e-10 (logrank test), Q value = 1.4e-09

Table S348.  Gene #66: 'del_14q13.1' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 34(14Q13.1) MUTATED 244 169 0.1 - 130.8 (13.8)
DEL PEAK 34(14Q13.1) WILD-TYPE 835 422 0.0 - 211.2 (16.5)

Figure S348.  Get High-res Image Gene #66: 'del_14q13.1' versus Clinical Feature #1: 'Time to Death'

'del_14q13.1' versus 'YEARS_TO_BIRTH'

P value = 1.2e-09 (Wilcoxon-test), Q value = 8.5e-09

Table S349.  Gene #66: 'del_14q13.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 34(14Q13.1) MUTATED 244 56.1 (14.3)
DEL PEAK 34(14Q13.1) WILD-TYPE 838 49.2 (15.9)

Figure S349.  Get High-res Image Gene #66: 'del_14q13.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_14q13.1' versus 'TUMOR_TISSUE_SITE'

P value = 2.96e-12 (Fisher's exact test), Q value = 2.7e-11

Table S350.  Gene #66: 'del_14q13.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 34(14Q13.1) MUTATED 176 68
DEL PEAK 34(14Q13.1) WILD-TYPE 395 444

Figure S350.  Get High-res Image Gene #66: 'del_14q13.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_14q13.1' versus 'RADIATION_THERAPY'

P value = 0.0203 (Fisher's exact test), Q value = 0.046

Table S351.  Gene #66: 'del_14q13.1' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 34(14Q13.1) MUTATED 45 188
DEL PEAK 34(14Q13.1) WILD-TYPE 213 579

Figure S351.  Get High-res Image Gene #66: 'del_14q13.1' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_14q13.1' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00597 (Wilcoxon-test), Q value = 0.016

Table S352.  Gene #66: 'del_14q13.1' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
DEL PEAK 34(14Q13.1) MUTATED 178 79.6 (13.1)
DEL PEAK 34(14Q13.1) WILD-TYPE 552 81.8 (15.1)

Figure S352.  Get High-res Image Gene #66: 'del_14q13.1' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_14q13.1' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S353.  Gene #66: 'del_14q13.1' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 34(14Q13.1) MUTATED 31 6 15 22 6 164
DEL PEAK 34(14Q13.1) WILD-TYPE 163 22 114 167 12 361

Figure S353.  Get High-res Image Gene #66: 'del_14q13.1' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_14q13.1' versus 'RACE'

P value = 0.0466 (Fisher's exact test), Q value = 0.094

Table S354.  Gene #66: 'del_14q13.1' versus Clinical Feature #8: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 1 21 71 957
DEL PEAK 34(14Q13.1) MUTATED 1 4 23 205
DEL PEAK 34(14Q13.1) WILD-TYPE 0 17 48 752

Figure S354.  Get High-res Image Gene #66: 'del_14q13.1' versus Clinical Feature #8: 'RACE'

'del_14q13.1' versus 'ETHNICITY'

P value = 0.0569 (Fisher's exact test), Q value = 0.11

Table S355.  Gene #66: 'del_14q13.1' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 44 919
DEL PEAK 34(14Q13.1) MUTATED 4 201
DEL PEAK 34(14Q13.1) WILD-TYPE 40 718

Figure S355.  Get High-res Image Gene #66: 'del_14q13.1' versus Clinical Feature #9: 'ETHNICITY'

'del_14q24.2' versus 'Time to Death'

P value = 0.00176 (logrank test), Q value = 0.0052

Table S356.  Gene #67: 'del_14q24.2' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 35(14Q24.2) MUTATED 289 182 0.1 - 130.8 (15.1)
DEL PEAK 35(14Q24.2) WILD-TYPE 790 409 0.0 - 211.2 (15.9)

Figure S356.  Get High-res Image Gene #67: 'del_14q24.2' versus Clinical Feature #1: 'Time to Death'

'del_14q24.2' versus 'YEARS_TO_BIRTH'

P value = 0.0667 (Wilcoxon-test), Q value = 0.13

Table S357.  Gene #67: 'del_14q24.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 35(14Q24.2) MUTATED 290 52.2 (15.7)
DEL PEAK 35(14Q24.2) WILD-TYPE 792 50.2 (15.8)

Figure S357.  Get High-res Image Gene #67: 'del_14q24.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_14q24.2' versus 'TUMOR_TISSUE_SITE'

P value = 0.0134 (Fisher's exact test), Q value = 0.031

Table S358.  Gene #67: 'del_14q24.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 35(14Q24.2) MUTATED 171 119
DEL PEAK 35(14Q24.2) WILD-TYPE 400 393

Figure S358.  Get High-res Image Gene #67: 'del_14q24.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_14q24.2' versus 'GENDER'

P value = 0.0602 (Fisher's exact test), Q value = 0.12

Table S359.  Gene #67: 'del_14q24.2' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 452 631
DEL PEAK 35(14Q24.2) MUTATED 135 155
DEL PEAK 35(14Q24.2) WILD-TYPE 317 476

Figure S359.  Get High-res Image Gene #67: 'del_14q24.2' versus Clinical Feature #4: 'GENDER'

'del_14q24.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.0504 (Fisher's exact test), Q value = 0.1

Table S360.  Gene #67: 'del_14q24.2' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 35(14Q24.2) MUTATED 52 5 28 39 7 159
DEL PEAK 35(14Q24.2) WILD-TYPE 142 23 101 150 11 366

Figure S360.  Get High-res Image Gene #67: 'del_14q24.2' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_14q31.3' versus 'Time to Death'

P value = 0.00337 (logrank test), Q value = 0.0092

Table S361.  Gene #68: 'del_14q31.3' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 36(14Q31.3) MUTATED 273 170 0.1 - 130.8 (15.3)
DEL PEAK 36(14Q31.3) WILD-TYPE 806 421 0.0 - 211.2 (15.8)

Figure S361.  Get High-res Image Gene #68: 'del_14q31.3' versus Clinical Feature #1: 'Time to Death'

'del_14q31.3' versus 'YEARS_TO_BIRTH'

P value = 0.0713 (Wilcoxon-test), Q value = 0.13

Table S362.  Gene #68: 'del_14q31.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 36(14Q31.3) MUTATED 274 52.2 (15.6)
DEL PEAK 36(14Q31.3) WILD-TYPE 808 50.3 (15.8)

Figure S362.  Get High-res Image Gene #68: 'del_14q31.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_14q31.3' versus 'TUMOR_TISSUE_SITE'

P value = 0.0427 (Fisher's exact test), Q value = 0.087

Table S363.  Gene #68: 'del_14q31.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 36(14Q31.3) MUTATED 159 115
DEL PEAK 36(14Q31.3) WILD-TYPE 412 397

Figure S363.  Get High-res Image Gene #68: 'del_14q31.3' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_14q31.3' versus 'GENDER'

P value = 0.0559 (Fisher's exact test), Q value = 0.11

Table S364.  Gene #68: 'del_14q31.3' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 452 631
DEL PEAK 36(14Q31.3) MUTATED 128 146
DEL PEAK 36(14Q31.3) WILD-TYPE 324 485

Figure S364.  Get High-res Image Gene #68: 'del_14q31.3' versus Clinical Feature #4: 'GENDER'

'del_14q31.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.0872 (Fisher's exact test), Q value = 0.16

Table S365.  Gene #68: 'del_14q31.3' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 36(14Q31.3) MUTATED 50 6 29 36 8 145
DEL PEAK 36(14Q31.3) WILD-TYPE 144 22 100 153 10 380

Figure S365.  Get High-res Image Gene #68: 'del_14q31.3' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_14q31.3' versus 'RACE'

P value = 0.0921 (Fisher's exact test), Q value = 0.17

Table S366.  Gene #68: 'del_14q31.3' versus Clinical Feature #8: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 1 21 71 957
DEL PEAK 36(14Q31.3) MUTATED 1 6 24 234
DEL PEAK 36(14Q31.3) WILD-TYPE 0 15 47 723

Figure S366.  Get High-res Image Gene #68: 'del_14q31.3' versus Clinical Feature #8: 'RACE'

'del_15q14' versus 'Time to Death'

P value = 2.76e-07 (logrank test), Q value = 1.6e-06

Table S367.  Gene #69: 'del_15q14' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 37(15Q14) MUTATED 210 148 0.2 - 134.3 (14.2)
DEL PEAK 37(15Q14) WILD-TYPE 869 443 0.0 - 211.2 (16.2)

Figure S367.  Get High-res Image Gene #69: 'del_15q14' versus Clinical Feature #1: 'Time to Death'

'del_15q14' versus 'YEARS_TO_BIRTH'

P value = 2.63e-06 (Wilcoxon-test), Q value = 1.4e-05

Table S368.  Gene #69: 'del_15q14' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 37(15Q14) MUTATED 211 55.6 (16.0)
DEL PEAK 37(15Q14) WILD-TYPE 871 49.6 (15.5)

Figure S368.  Get High-res Image Gene #69: 'del_15q14' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_15q14' versus 'TUMOR_TISSUE_SITE'

P value = 4.08e-09 (Fisher's exact test), Q value = 2.7e-08

Table S369.  Gene #69: 'del_15q14' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 37(15Q14) MUTATED 150 62
DEL PEAK 37(15Q14) WILD-TYPE 421 450

Figure S369.  Get High-res Image Gene #69: 'del_15q14' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_15q14' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0318 (Wilcoxon-test), Q value = 0.068

Table S370.  Gene #69: 'del_15q14' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
DEL PEAK 37(15Q14) MUTATED 132 79.5 (13.7)
DEL PEAK 37(15Q14) WILD-TYPE 598 81.7 (14.9)

Figure S370.  Get High-res Image Gene #69: 'del_15q14' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_15q14' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S371.  Gene #69: 'del_15q14' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 37(15Q14) MUTATED 26 8 14 22 4 138
DEL PEAK 37(15Q14) WILD-TYPE 168 20 115 167 14 387

Figure S371.  Get High-res Image Gene #69: 'del_15q14' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_16p12.2' versus 'Time to Death'

P value = 1.53e-10 (logrank test), Q value = 1.2e-09

Table S372.  Gene #70: 'del_16p12.2' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 38(16P12.2) MUTATED 114 92 0.4 - 78.3 (14.6)
DEL PEAK 38(16P12.2) WILD-TYPE 965 499 0.0 - 211.2 (15.9)

Figure S372.  Get High-res Image Gene #70: 'del_16p12.2' versus Clinical Feature #1: 'Time to Death'

'del_16p12.2' versus 'YEARS_TO_BIRTH'

P value = 1.07e-07 (Wilcoxon-test), Q value = 6.4e-07

Table S373.  Gene #70: 'del_16p12.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 38(16P12.2) MUTATED 114 58.3 (14.3)
DEL PEAK 38(16P12.2) WILD-TYPE 968 49.9 (15.7)

Figure S373.  Get High-res Image Gene #70: 'del_16p12.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_16p12.2' versus 'TUMOR_TISSUE_SITE'

P value = 8.05e-11 (Fisher's exact test), Q value = 6.4e-10

Table S374.  Gene #70: 'del_16p12.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 38(16P12.2) MUTATED 92 22
DEL PEAK 38(16P12.2) WILD-TYPE 479 490

Figure S374.  Get High-res Image Gene #70: 'del_16p12.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_16p12.2' versus 'RADIATION_THERAPY'

P value = 0.0611 (Fisher's exact test), Q value = 0.12

Table S375.  Gene #70: 'del_16p12.2' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 38(16P12.2) MUTATED 19 90
DEL PEAK 38(16P12.2) WILD-TYPE 239 677

Figure S375.  Get High-res Image Gene #70: 'del_16p12.2' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_16p12.2' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S376.  Gene #70: 'del_16p12.2' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 38(16P12.2) MUTATED 14 3 3 5 1 88
DEL PEAK 38(16P12.2) WILD-TYPE 180 25 126 184 17 437

Figure S376.  Get High-res Image Gene #70: 'del_16p12.2' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_16q23.1' versus 'Time to Death'

P value = 1.29e-09 (logrank test), Q value = 9e-09

Table S377.  Gene #71: 'del_16q23.1' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 39(16Q23.1) MUTATED 127 100 0.1 - 127.6 (13.0)
DEL PEAK 39(16Q23.1) WILD-TYPE 952 491 0.0 - 211.2 (16.2)

Figure S377.  Get High-res Image Gene #71: 'del_16q23.1' versus Clinical Feature #1: 'Time to Death'

'del_16q23.1' versus 'YEARS_TO_BIRTH'

P value = 5.91e-05 (Wilcoxon-test), Q value = 0.00021

Table S378.  Gene #71: 'del_16q23.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 39(16Q23.1) MUTATED 127 55.9 (14.9)
DEL PEAK 39(16Q23.1) WILD-TYPE 955 50.1 (15.8)

Figure S378.  Get High-res Image Gene #71: 'del_16q23.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_16q23.1' versus 'TUMOR_TISSUE_SITE'

P value = 6.77e-10 (Fisher's exact test), Q value = 4.9e-09

Table S379.  Gene #71: 'del_16q23.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 39(16Q23.1) MUTATED 99 28
DEL PEAK 39(16Q23.1) WILD-TYPE 472 484

Figure S379.  Get High-res Image Gene #71: 'del_16q23.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_16q23.1' versus 'RADIATION_THERAPY'

P value = 0.0909 (Fisher's exact test), Q value = 0.16

Table S380.  Gene #71: 'del_16q23.1' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 39(16Q23.1) MUTATED 22 96
DEL PEAK 39(16Q23.1) WILD-TYPE 236 671

Figure S380.  Get High-res Image Gene #71: 'del_16q23.1' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_16q23.1' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0112 (Wilcoxon-test), Q value = 0.027

Table S381.  Gene #71: 'del_16q23.1' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
DEL PEAK 39(16Q23.1) MUTATED 88 77.4 (16.4)
DEL PEAK 39(16Q23.1) WILD-TYPE 642 81.8 (14.4)

Figure S381.  Get High-res Image Gene #71: 'del_16q23.1' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_16q23.1' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S382.  Gene #71: 'del_16q23.1' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 39(16Q23.1) MUTATED 15 3 6 7 2 94
DEL PEAK 39(16Q23.1) WILD-TYPE 179 25 123 182 16 431

Figure S382.  Get High-res Image Gene #71: 'del_16q23.1' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_17p13.1' versus 'Time to Death'

P value = 1.88e-09 (logrank test), Q value = 1.3e-08

Table S383.  Gene #72: 'del_17p13.1' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 40(17P13.1) MUTATED 114 84 0.1 - 92.7 (11.8)
DEL PEAK 40(17P13.1) WILD-TYPE 965 507 0.0 - 211.2 (16.3)

Figure S383.  Get High-res Image Gene #72: 'del_17p13.1' versus Clinical Feature #1: 'Time to Death'

'del_17p13.1' versus 'YEARS_TO_BIRTH'

P value = 4.99e-07 (Wilcoxon-test), Q value = 2.8e-06

Table S384.  Gene #72: 'del_17p13.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 40(17P13.1) MUTATED 114 57.7 (15.0)
DEL PEAK 40(17P13.1) WILD-TYPE 968 50.0 (15.7)

Figure S384.  Get High-res Image Gene #72: 'del_17p13.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_17p13.1' versus 'TUMOR_TISSUE_SITE'

P value = 1.57e-13 (Fisher's exact test), Q value = 1.5e-12

Table S385.  Gene #72: 'del_17p13.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 40(17P13.1) MUTATED 96 18
DEL PEAK 40(17P13.1) WILD-TYPE 475 494

Figure S385.  Get High-res Image Gene #72: 'del_17p13.1' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_17p13.1' versus 'RADIATION_THERAPY'

P value = 0.0344 (Fisher's exact test), Q value = 0.073

Table S386.  Gene #72: 'del_17p13.1' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 40(17P13.1) MUTATED 18 90
DEL PEAK 40(17P13.1) WILD-TYPE 240 677

Figure S386.  Get High-res Image Gene #72: 'del_17p13.1' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_17p13.1' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0134 (Wilcoxon-test), Q value = 0.031

Table S387.  Gene #72: 'del_17p13.1' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
DEL PEAK 40(17P13.1) MUTATED 79 78.4 (13.2)
DEL PEAK 40(17P13.1) WILD-TYPE 651 81.6 (14.8)

Figure S387.  Get High-res Image Gene #72: 'del_17p13.1' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_17p13.1' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S388.  Gene #72: 'del_17p13.1' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 40(17P13.1) MUTATED 6 4 4 8 3 89
DEL PEAK 40(17P13.1) WILD-TYPE 188 24 125 181 15 436

Figure S388.  Get High-res Image Gene #72: 'del_17p13.1' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_17q11.2' versus 'Time to Death'

P value = 3.78e-08 (logrank test), Q value = 2.3e-07

Table S389.  Gene #73: 'del_17q11.2' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 41(17Q11.2) MUTATED 91 66 0.1 - 92.7 (12.2)
DEL PEAK 41(17Q11.2) WILD-TYPE 988 525 0.0 - 211.2 (16.2)

Figure S389.  Get High-res Image Gene #73: 'del_17q11.2' versus Clinical Feature #1: 'Time to Death'

'del_17q11.2' versus 'YEARS_TO_BIRTH'

P value = 0.000205 (Wilcoxon-test), Q value = 0.00068

Table S390.  Gene #73: 'del_17q11.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 41(17Q11.2) MUTATED 91 56.4 (13.5)
DEL PEAK 41(17Q11.2) WILD-TYPE 991 50.3 (15.9)

Figure S390.  Get High-res Image Gene #73: 'del_17q11.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_17q11.2' versus 'TUMOR_TISSUE_SITE'

P value = 9.35e-07 (Fisher's exact test), Q value = 5.2e-06

Table S391.  Gene #73: 'del_17q11.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 41(17Q11.2) MUTATED 70 21
DEL PEAK 41(17Q11.2) WILD-TYPE 501 491

Figure S391.  Get High-res Image Gene #73: 'del_17q11.2' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_17q11.2' versus 'RADIATION_THERAPY'

P value = 0.116 (Fisher's exact test), Q value = 0.2

Table S392.  Gene #73: 'del_17q11.2' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 41(17Q11.2) MUTATED 15 69
DEL PEAK 41(17Q11.2) WILD-TYPE 243 698

Figure S392.  Get High-res Image Gene #73: 'del_17q11.2' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_17q11.2' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0111 (Wilcoxon-test), Q value = 0.027

Table S393.  Gene #73: 'del_17q11.2' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
DEL PEAK 41(17Q11.2) MUTATED 67 76.3 (17.7)
DEL PEAK 41(17Q11.2) WILD-TYPE 663 81.8 (14.3)

Figure S393.  Get High-res Image Gene #73: 'del_17q11.2' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_17q11.2' versus 'HISTOLOGICAL_TYPE'

P value = 6e-05 (Fisher's exact test), Q value = 0.00021

Table S394.  Gene #73: 'del_17q11.2' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 41(17Q11.2) MUTATED 11 3 4 6 2 65
DEL PEAK 41(17Q11.2) WILD-TYPE 183 25 125 183 16 460

Figure S394.  Get High-res Image Gene #73: 'del_17q11.2' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_17q11.2' versus 'RACE'

P value = 0.0845 (Fisher's exact test), Q value = 0.16

Table S395.  Gene #73: 'del_17q11.2' versus Clinical Feature #8: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 1 21 71 957
DEL PEAK 41(17Q11.2) MUTATED 1 2 8 78
DEL PEAK 41(17Q11.2) WILD-TYPE 0 19 63 879

Figure S395.  Get High-res Image Gene #73: 'del_17q11.2' versus Clinical Feature #8: 'RACE'

'del_18q23' versus 'YEARS_TO_BIRTH'

P value = 0.0625 (Wilcoxon-test), Q value = 0.12

Table S396.  Gene #74: 'del_18q23' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 42(18Q23) MUTATED 151 53.0 (16.1)
DEL PEAK 42(18Q23) WILD-TYPE 931 50.4 (15.7)

Figure S396.  Get High-res Image Gene #74: 'del_18q23' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_19q13.41' versus 'Time to Death'

P value = 0 (logrank test), Q value = 0

Table S397.  Gene #75: 'del_19q13.41' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 43(19Q13.41) MUTATED 363 131 0.0 - 182.3 (18.7)
DEL PEAK 43(19Q13.41) WILD-TYPE 716 460 0.1 - 211.2 (14.3)

Figure S397.  Get High-res Image Gene #75: 'del_19q13.41' versus Clinical Feature #1: 'Time to Death'

'del_19q13.41' versus 'YEARS_TO_BIRTH'

P value = 4.16e-08 (Wilcoxon-test), Q value = 2.5e-07

Table S398.  Gene #75: 'del_19q13.41' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 43(19Q13.41) MUTATED 365 47.3 (14.6)
DEL PEAK 43(19Q13.41) WILD-TYPE 717 52.6 (16.1)

Figure S398.  Get High-res Image Gene #75: 'del_19q13.41' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_19q13.41' versus 'TUMOR_TISSUE_SITE'

P value = 3.95e-34 (Fisher's exact test), Q value = 7e-33

Table S399.  Gene #75: 'del_19q13.41' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 43(19Q13.41) MUTATED 99 267
DEL PEAK 43(19Q13.41) WILD-TYPE 472 245

Figure S399.  Get High-res Image Gene #75: 'del_19q13.41' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_19q13.41' versus 'RADIATION_THERAPY'

P value = 1.35e-08 (Fisher's exact test), Q value = 8.5e-08

Table S400.  Gene #75: 'del_19q13.41' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 43(19Q13.41) MUTATED 124 218
DEL PEAK 43(19Q13.41) WILD-TYPE 134 549

Figure S400.  Get High-res Image Gene #75: 'del_19q13.41' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_19q13.41' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 5.97e-05 (Wilcoxon-test), Q value = 0.00021

Table S401.  Gene #75: 'del_19q13.41' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
DEL PEAK 43(19Q13.41) MUTATED 238 84.3 (13.2)
DEL PEAK 43(19Q13.41) WILD-TYPE 492 79.8 (15.2)

Figure S401.  Get High-res Image Gene #75: 'del_19q13.41' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_19q13.41' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S402.  Gene #75: 'del_19q13.41' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 43(19Q13.41) MUTATED 54 3 60 153 4 92
DEL PEAK 43(19Q13.41) WILD-TYPE 140 25 69 36 14 433

Figure S402.  Get High-res Image Gene #75: 'del_19q13.41' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_19q13.41' versus 'ETHNICITY'

P value = 0.146 (Fisher's exact test), Q value = 0.25

Table S403.  Gene #75: 'del_19q13.41' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 44 919
DEL PEAK 43(19Q13.41) MUTATED 20 316
DEL PEAK 43(19Q13.41) WILD-TYPE 24 603

Figure S403.  Get High-res Image Gene #75: 'del_19q13.41' versus Clinical Feature #9: 'ETHNICITY'

'del_19q13.43' versus 'Time to Death'

P value = 0 (logrank test), Q value = 0

Table S404.  Gene #76: 'del_19q13.43' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 44(19Q13.43) MUTATED 351 116 0.0 - 182.3 (20.0)
DEL PEAK 44(19Q13.43) WILD-TYPE 728 475 0.1 - 211.2 (14.2)

Figure S404.  Get High-res Image Gene #76: 'del_19q13.43' versus Clinical Feature #1: 'Time to Death'

'del_19q13.43' versus 'YEARS_TO_BIRTH'

P value = 4.72e-14 (Wilcoxon-test), Q value = 5e-13

Table S405.  Gene #76: 'del_19q13.43' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 44(19Q13.43) MUTATED 353 45.7 (14.5)
DEL PEAK 44(19Q13.43) WILD-TYPE 729 53.2 (15.8)

Figure S405.  Get High-res Image Gene #76: 'del_19q13.43' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_19q13.43' versus 'TUMOR_TISSUE_SITE'

P value = 2.06e-41 (Fisher's exact test), Q value = 4.2e-40

Table S406.  Gene #76: 'del_19q13.43' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 44(19Q13.43) MUTATED 84 270
DEL PEAK 44(19Q13.43) WILD-TYPE 487 242

Figure S406.  Get High-res Image Gene #76: 'del_19q13.43' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_19q13.43' versus 'RADIATION_THERAPY'

P value = 1.43e-09 (Fisher's exact test), Q value = 9.9e-09

Table S407.  Gene #76: 'del_19q13.43' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 44(19Q13.43) MUTATED 124 208
DEL PEAK 44(19Q13.43) WILD-TYPE 134 559

Figure S407.  Get High-res Image Gene #76: 'del_19q13.43' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_19q13.43' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 4.12e-06 (Wilcoxon-test), Q value = 2.2e-05

Table S408.  Gene #76: 'del_19q13.43' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
DEL PEAK 44(19Q13.43) MUTATED 234 84.7 (13.4)
DEL PEAK 44(19Q13.43) WILD-TYPE 496 79.7 (15.0)

Figure S408.  Get High-res Image Gene #76: 'del_19q13.43' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_19q13.43' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S409.  Gene #76: 'del_19q13.43' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 44(19Q13.43) MUTATED 58 4 62 150 4 76
DEL PEAK 44(19Q13.43) WILD-TYPE 136 24 67 39 14 449

Figure S409.  Get High-res Image Gene #76: 'del_19q13.43' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_22q13.32' versus 'Time to Death'

P value = 1.61e-11 (logrank test), Q value = 1.4e-10

Table S410.  Gene #77: 'del_22q13.32' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1079 591 0.0 - 211.2 (15.7)
DEL PEAK 45(22Q13.32) MUTATED 289 213 0.1 - 156.2 (15.1)
DEL PEAK 45(22Q13.32) WILD-TYPE 790 378 0.0 - 211.2 (16.0)

Figure S410.  Get High-res Image Gene #77: 'del_22q13.32' versus Clinical Feature #1: 'Time to Death'

'del_22q13.32' versus 'YEARS_TO_BIRTH'

P value = 1.31e-10 (Wilcoxon-test), Q value = 1e-09

Table S411.  Gene #77: 'del_22q13.32' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 45(22Q13.32) MUTATED 289 55.7 (15.6)
DEL PEAK 45(22Q13.32) WILD-TYPE 793 49.0 (15.5)

Figure S411.  Get High-res Image Gene #77: 'del_22q13.32' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_22q13.32' versus 'TUMOR_TISSUE_SITE'

P value = 1.22e-16 (Fisher's exact test), Q value = 1.7e-15

Table S412.  Gene #77: 'del_22q13.32' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 571 512
DEL PEAK 45(22Q13.32) MUTATED 212 77
DEL PEAK 45(22Q13.32) WILD-TYPE 359 435

Figure S412.  Get High-res Image Gene #77: 'del_22q13.32' versus Clinical Feature #3: 'TUMOR_TISSUE_SITE'

'del_22q13.32' versus 'RADIATION_THERAPY'

P value = 0.000173 (Fisher's exact test), Q value = 0.00058

Table S413.  Gene #77: 'del_22q13.32' versus Clinical Feature #5: 'RADIATION_THERAPY'

nPatients NO YES
ALL 258 767
DEL PEAK 45(22Q13.32) MUTATED 46 228
DEL PEAK 45(22Q13.32) WILD-TYPE 212 539

Figure S413.  Get High-res Image Gene #77: 'del_22q13.32' versus Clinical Feature #5: 'RADIATION_THERAPY'

'del_22q13.32' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00307 (Wilcoxon-test), Q value = 0.0086

Table S414.  Gene #77: 'del_22q13.32' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
DEL PEAK 45(22Q13.32) MUTATED 205 79.2 (14.9)
DEL PEAK 45(22Q13.32) WILD-TYPE 525 82.1 (14.5)

Figure S414.  Get High-res Image Gene #77: 'del_22q13.32' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_22q13.32' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 3.9e-05

Table S415.  Gene #77: 'del_22q13.32' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 194 28 129 189 18 525
DEL PEAK 45(22Q13.32) MUTATED 43 10 16 18 6 196
DEL PEAK 45(22Q13.32) WILD-TYPE 151 18 113 171 12 329

Figure S415.  Get High-res Image Gene #77: 'del_22q13.32' versus Clinical Feature #7: 'HISTOLOGICAL_TYPE'

'del_22q13.32' versus 'ETHNICITY'

P value = 0.117 (Fisher's exact test), Q value = 0.2

Table S416.  Gene #77: 'del_22q13.32' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 44 919
DEL PEAK 45(22Q13.32) MUTATED 7 247
DEL PEAK 45(22Q13.32) WILD-TYPE 37 672

Figure S416.  Get High-res Image Gene #77: 'del_22q13.32' versus Clinical Feature #9: 'ETHNICITY'

'del_xq21.1' versus 'YEARS_TO_BIRTH'

P value = 0.0388 (Wilcoxon-test), Q value = 0.08

Table S417.  Gene #79: 'del_xq21.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1082 50.8 (15.8)
DEL PEAK 47(XQ21.1) MUTATED 183 52.8 (15.9)
DEL PEAK 47(XQ21.1) WILD-TYPE 899 50.4 (15.7)

Figure S417.  Get High-res Image Gene #79: 'del_xq21.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_xq21.1' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0989 (Wilcoxon-test), Q value = 0.18

Table S418.  Gene #79: 'del_xq21.1' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 730 81.3 (14.7)
DEL PEAK 47(XQ21.1) MUTATED 128 78.9 (16.1)
DEL PEAK 47(XQ21.1) WILD-TYPE 602 81.8 (14.3)

Figure S418.  Get High-res Image Gene #79: 'del_xq21.1' versus Clinical Feature #6: 'KARNOFSKY_PERFORMANCE_SCORE'

Methods & Data
Input

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

  • Processed Copy number data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/GBMLGG-TP/19791525/transformed.cor.cli.txt

  • Clinical data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/GBMLGG-TP/19775190/GBMLGG-TP.merged_data.txt

  • Number of patients = 1083

  • Number of significantly focal cnvs = 79

  • Number of selected clinical features = 9

  • Exclude genes that fewer than K tumors have mutations, K = 3

Survival analysis

For survival clinical features, the Kaplan-Meier survival curves of tumors with and without gene mutations were plotted and the statistical significance P values were estimated by logrank test (Bland and Altman 2004) using the 'survdiff' function in R

Fisher's exact test

For binary or multi-class clinical features (nominal or ordinal), two-tailed Fisher's exact tests (Fisher 1922) were used to estimate the P values using the 'fisher.test' function in R

Q value calculation

For multiple hypothesis correction, Q value is the False Discovery Rate (FDR) analogue of the P value (Benjamini and Hochberg 1995), defined as the minimum FDR at which the test may be called significant. We used the 'Benjamini and Hochberg' method of 'p.adjust' function in R to convert P values into Q values.

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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