Correlation between copy number variation genes (focal events) and selected clinical features
Glioma (Primary solid tumor)
02 April 2015  |  analyses__2015_04_02
Maintainer Information
Citation Information
doi:10.7908/C1VD6XGP
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/C1VD6XGP
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 1042 patients, 416 significant findings detected with Q value < 0.25.

  • amp_1p36.21 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PRIMARY_SITE_OF_DISEASE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RADIATIONS_RADIATION_REGIMENINDICATION'.

  • amp_1q22 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PRIMARY_SITE_OF_DISEASE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RADIATIONS_RADIATION_REGIMENINDICATION'.

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

  • amp_1q44 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PRIMARY_SITE_OF_DISEASE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RADIATIONS_RADIATION_REGIMENINDICATION'.

  • amp_2p24.3 cnv correlated to 'PRIMARY_SITE_OF_DISEASE' and 'HISTOLOGICAL_TYPE'.

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

  • amp_3q26.33 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PRIMARY_SITE_OF_DISEASE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RADIATIONS_RADIATION_REGIMENINDICATION'.

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

  • amp_4q12 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PRIMARY_SITE_OF_DISEASE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RADIATIONS_RADIATION_REGIMENINDICATION'.

  • amp_5p15.33 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PRIMARY_SITE_OF_DISEASE',  'HISTOLOGICAL_TYPE', and 'RADIATIONS_RADIATION_REGIMENINDICATION'.

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

  • amp_7q11.21 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PRIMARY_SITE_OF_DISEASE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE',  'RADIATIONS_RADIATION_REGIMENINDICATION', and 'RACE'.

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

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

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

  • amp_8q24.21 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PRIMARY_SITE_OF_DISEASE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RADIATIONS_RADIATION_REGIMENINDICATION'.

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

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

  • amp_11q24.1 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PRIMARY_SITE_OF_DISEASE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RADIATIONS_RADIATION_REGIMENINDICATION'.

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

  • amp_12q14.1 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PRIMARY_SITE_OF_DISEASE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RADIATIONS_RADIATION_REGIMENINDICATION'.

  • amp_12q15 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PRIMARY_SITE_OF_DISEASE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE',  'RADIATIONS_RADIATION_REGIMENINDICATION', and 'ETHNICITY'.

  • amp_13q34 cnv correlated to 'KARNOFSKY_PERFORMANCE_SCORE'.

  • amp_14q32.33 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PRIMARY_SITE_OF_DISEASE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RADIATIONS_RADIATION_REGIMENINDICATION'.

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

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

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

  • amp_19p13.2 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PRIMARY_SITE_OF_DISEASE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RADIATIONS_RADIATION_REGIMENINDICATION'.

  • amp_19q12 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PRIMARY_SITE_OF_DISEASE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE',  'RADIATIONS_RADIATION_REGIMENINDICATION', and 'RACE'.

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

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

  • del_1p36.32 cnv correlated to 'Time to Death',  'PRIMARY_SITE_OF_DISEASE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE',  'RADIATIONS_RADIATION_REGIMENINDICATION', and 'RACE'.

  • del_1p36.23 cnv correlated to 'Time to Death',  'PRIMARY_SITE_OF_DISEASE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE',  'RADIATIONS_RADIATION_REGIMENINDICATION', and 'RACE'.

  • del_1p32.3 cnv correlated to 'Time to Death',  'PRIMARY_SITE_OF_DISEASE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE',  'RADIATIONS_RADIATION_REGIMENINDICATION', and 'RACE'.

  • del_1p22.1 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PRIMARY_SITE_OF_DISEASE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RADIATIONS_RADIATION_REGIMENINDICATION'.

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

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

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

  • del_3p21.31 cnv correlated to 'KARNOFSKY_PERFORMANCE_SCORE',  'RADIATIONS_RADIATION_REGIMENINDICATION', and 'ETHNICITY'.

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

  • del_3q29 cnv correlated to 'PRIMARY_SITE_OF_DISEASE' and 'RADIATIONS_RADIATION_REGIMENINDICATION'.

  • del_4q34.3 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PRIMARY_SITE_OF_DISEASE',  'KARNOFSKY_PERFORMANCE_SCORE', and 'HISTOLOGICAL_TYPE'.

  • del_5p15.33 cnv correlated to 'Time to Death',  'HISTOLOGICAL_TYPE', and 'RADIATIONS_RADIATION_REGIMENINDICATION'.

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

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

  • del_6q22.31 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PRIMARY_SITE_OF_DISEASE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE',  'RADIATIONS_RADIATION_REGIMENINDICATION', and 'RACE'.

  • del_6q26 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PRIMARY_SITE_OF_DISEASE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RADIATIONS_RADIATION_REGIMENINDICATION'.

  • del_8p23.2 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PRIMARY_SITE_OF_DISEASE',  'HISTOLOGICAL_TYPE',  'RADIATIONS_RADIATION_REGIMENINDICATION', and 'RACE'.

  • del_8q24.3 cnv correlated to 'Time to Death',  'PRIMARY_SITE_OF_DISEASE',  'HISTOLOGICAL_TYPE', and 'RADIATIONS_RADIATION_REGIMENINDICATION'.

  • del_9p21.3 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PRIMARY_SITE_OF_DISEASE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE',  'RADIATIONS_RADIATION_REGIMENINDICATION', and 'RACE'.

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

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

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

  • del_10q23.31 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PRIMARY_SITE_OF_DISEASE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE',  'RADIATIONS_RADIATION_REGIMENINDICATION', and 'RACE'.

  • del_10q26.3 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PRIMARY_SITE_OF_DISEASE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE',  'RADIATIONS_RADIATION_REGIMENINDICATION', and 'RACE'.

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

  • del_11p15.1 cnv correlated to 'PRIMARY_SITE_OF_DISEASE',  'GENDER', and 'HISTOLOGICAL_TYPE'.

  • del_11p11.2 cnv correlated to 'Time to Death',  'PRIMARY_SITE_OF_DISEASE',  'HISTOLOGICAL_TYPE', and 'RADIATIONS_RADIATION_REGIMENINDICATION'.

  • del_12p13.1 cnv correlated to 'Time to Death',  'PRIMARY_SITE_OF_DISEASE',  'HISTOLOGICAL_TYPE', and 'RADIATIONS_RADIATION_REGIMENINDICATION'.

  • 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',  'PRIMARY_SITE_OF_DISEASE',  'GENDER',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RADIATIONS_RADIATION_REGIMENINDICATION'.

  • del_13q22.1 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PRIMARY_SITE_OF_DISEASE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RADIATIONS_RADIATION_REGIMENINDICATION'.

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

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

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

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

  • del_16p12.2 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PRIMARY_SITE_OF_DISEASE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RADIATIONS_RADIATION_REGIMENINDICATION'.

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

  • del_17p13.1 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PRIMARY_SITE_OF_DISEASE',  'GENDER',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RADIATIONS_RADIATION_REGIMENINDICATION'.

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

  • del_18q23 cnv correlated to 'YEARS_TO_BIRTH' and 'ETHNICITY'.

  • del_19q13.41 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PRIMARY_SITE_OF_DISEASE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RADIATIONS_RADIATION_REGIMENINDICATION'.

  • del_19q13.43 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PRIMARY_SITE_OF_DISEASE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE',  'RADIATIONS_RADIATION_REGIMENINDICATION', and 'RACE'.

  • del_22q13.32 cnv correlated to 'Time to Death',  'YEARS_TO_BIRTH',  'PRIMARY_SITE_OF_DISEASE',  'KARNOFSKY_PERFORMANCE_SCORE',  'HISTOLOGICAL_TYPE', and 'RADIATIONS_RADIATION_REGIMENINDICATION'.

  • del_xq21.1 cnv correlated to 'YEARS_TO_BIRTH',  'PRIMARY_SITE_OF_DISEASE', 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, 416 significant findings detected.

Clinical
Features 		Time
to
Death 		YEARS
TO
BIRTH 		PRIMARY
SITE
OF
DISEASE 		GENDER KARNOFSKY
PERFORMANCE
SCORE 		HISTOLOGICAL
TYPE 		RADIATIONS
RADIATION
REGIMENINDICATION 		RACE ETHNICITY
nCNV (%) nWild-Type logrank test Wilcoxon-test Fisher's exact test Fisher's exact test Wilcoxon-test Fisher's exact test Fisher's exact test Fisher's exact test Fisher's exact test
del 10p15 3 538 (52%) 504 0
(0) 		1.35e-66
(3.84e-65) 		8.94e-106
(3.53e-104) 		0.131
(0.229) 		1.08e-17
(1.51e-16) 		1e-05
(4.06e-05) 		5.3e-21
(7.85e-20) 		0.00572
(0.0149) 		0.0937
(0.17)
del 10p13 538 (52%) 504 0
(0) 		9.43e-67
(2.8e-65) 		3.83e-107
(1.6e-105) 		0.0593
(0.118) 		4.63e-16
(5.99e-15) 		1e-05
(4.06e-05) 		3.65e-23
(5.91e-22) 		0.0121
(0.0296) 		0.0937
(0.17)
del 10p11 23 542 (52%) 500 0
(0) 		4.73e-70
(1.53e-68) 		4.04e-111
(1.79e-109) 		0.0893
(0.165) 		4.03e-19
(5.85e-18) 		1e-05
(4.06e-05) 		2.76e-22
(4.26e-21) 		0.00101
(0.00314) 		0.0661
(0.128)
amp 7p11 2 617 (59%) 425 0
(0) 		9.95e-64
(2.72e-62) 		1.07e-100
(4e-99) 		0.406
(0.565) 		7.83e-17
(1.05e-15) 		1e-05
(4.06e-05) 		2.11e-21
(3.2e-20) 		0.00463
(0.0122) 		0.132
(0.23)
amp 7q21 2 620 (60%) 422 0
(0) 		3.65e-46
(8.11e-45) 		3.94e-67
(1.22e-65) 		0.949
(0.991) 		1.05e-10
(8.6e-10) 		1e-05
(4.06e-05) 		1.02e-15
(1.25e-14) 		0.00352
(0.00974) 		0.092
(0.169)
amp 7q31 2 629 (60%) 413 0
(0) 		1.71e-36
(3.29e-35) 		8.31e-55
(2.11e-53) 		0.949
(0.991) 		5.29e-08
(3.3e-07) 		1e-05
(4.06e-05) 		5.72e-12
(5.15e-11) 		0.0183
(0.0424) 		0.0867
(0.161)
amp 7q32 3 640 (61%) 402 0
(0) 		3.09e-37
(6.29e-36) 		1.69e-54
(4.13e-53) 		0.651
(0.779) 		8.18e-08
(5.01e-07) 		1e-05
(4.06e-05) 		6.89e-13
(6.72e-12) 		0.012
(0.0294) 		0.0559
(0.113)
amp xp11 21 98 (9%) 944 0.00478
(0.0126) 		1.38e-05
(5.45e-05) 		4.18e-05
(0.000157) 		0.0173
(0.0404) 		0.0065
(0.0167) 		1e-05
(4.06e-05) 		0.111
(0.198) 		0.75
(0.849) 		0.0581
(0.116)
del 14q13 1 232 (22%) 810 1.06e-10
(8.6e-10) 		9.38e-09
(5.95e-08) 		2.32e-13
(2.39e-12) 		0.29
(0.442) 		0.0214
(0.0488) 		1e-05
(4.06e-05) 		0.000566
(0.0018) 		0.0739
(0.141) 		0.0651
(0.127)
amp 1q32 1 199 (19%) 843 1.24e-11
(1.07e-10) 		4.34e-12
(3.95e-11) 		1.48e-15
(1.72e-14) 		0.632
(0.762) 		0.00102
(0.00316) 		1e-05
(4.06e-05) 		8.44e-06
(4.06e-05) 		0.345
(0.496) 		0.0978
(0.177)
amp 7q11 21 566 (54%) 476 0
(0) 		1.18e-50
(2.8e-49) 		8.35e-81
(2.83e-79) 		0.412
(0.569) 		2.33e-12
(2.15e-11) 		1e-05
(4.06e-05) 		2.07e-16
(2.73e-15) 		0.00378
(0.0104) 		0.193
(0.317)
amp 9q34 3 136 (13%) 906 0.023
(0.0516) 		0.0406
(0.0857) 		0.000603
(0.00191) 		0.0757
(0.143) 		0.0351
(0.0754) 		0.001
(0.00312) 		0.0651
(0.127) 		0.217
(0.35) 		1
(1.00)
amp 10p15 1 84 (8%) 958 1.31e-07
(7.87e-07) 		4.45e-15
(5.1e-14) 		7.87e-10
(5.65e-09) 		0.73
(0.835) 		7.07e-05
(0.000256) 		1e-05
(4.06e-05) 		0.0396
(0.084) 		1
(1.00) 		0.031
(0.0676)
amp 12q15 109 (10%) 933 1.31e-09
(9.33e-09) 		0.000145
(0.000502) 		9.61e-12
(8.43e-11) 		0.181
(0.3) 		0.0355
(0.0759) 		1e-05
(4.06e-05) 		0.0417
(0.0872) 		0.456
(0.609) 		0.0638
(0.126)
amp 19q12 240 (23%) 802 0
(0) 		1.04e-14
(1.15e-13) 		3.09e-37
(6.29e-36) 		0.823
(0.893) 		8.99e-05
(0.000323) 		1e-05
(4.06e-05) 		6.95e-10
(5.09e-09) 		0.0568
(0.114) 		1
(1.00)
amp 19q13 2 227 (22%) 815 1.33e-15
(1.58e-14) 		7.64e-14
(8.11e-13) 		1.31e-31
(2.39e-30) 		0.594
(0.736) 		0.00048
(0.00154) 		1e-05
(4.06e-05) 		7.81e-08
(4.83e-07) 		0.0531
(0.109) 		1
(1.00)
del 6q22 31 226 (22%) 816 4.58e-11
(3.83e-10) 		0.000104
(0.000367) 		3.8e-07
(2.22e-06) 		0.147
(0.251) 		0.0473
(0.0977) 		1e-05
(4.06e-05) 		0.00412
(0.0111) 		0.114
(0.203) 		0.367
(0.519)
del 9p21 3 574 (55%) 468 0
(0) 		3.21e-27
(5.57e-26) 		1.68e-36
(3.29e-35) 		0.376
(0.53) 		1.41e-09
(9.94e-09) 		1e-05
(4.06e-05) 		4.39e-11
(3.76e-10) 		0.0621
(0.123) 		0.713
(0.828)
del 10q23 31 609 (58%) 433 0
(0) 		6.52e-60
(1.72e-58) 		7.56e-116
(3.58e-114) 		0.799
(0.879) 		1.4e-18
(1.99e-17) 		1e-05
(4.06e-05) 		3.56e-26
(5.88e-25) 		0.00272
(0.00764) 		0.265
(0.411)
del 10q26 3 642 (62%) 400 0
(0) 		5.03e-48
(1.15e-46) 		1.13e-95
(4.03e-94) 		1
(1.00) 		1.14e-15
(1.37e-14) 		1e-05
(4.06e-05) 		9.66e-23
(1.53e-21) 		0.00208
(0.00604) 		0.256
(0.405)
del 13q14 2 367 (35%) 675 5.68e-05
(0.00021) 		0.0697
(0.134) 		1.35e-06
(7.69e-06) 		0.114
(0.203) 		0.00311
(0.00868) 		2e-05
(7.73e-05) 		0.00421
(0.0113) 		0.515
(0.667) 		0.849
(0.909)
del 17p13 1 112 (11%) 930 6.21e-09
(4.02e-08) 		1.12e-06
(6.46e-06) 		1.82e-12
(1.73e-11) 		0.128
(0.223) 		0.00249
(0.00707) 		1e-05
(4.06e-05) 		0.0275
(0.0607) 		0.67
(0.793) 		0.365
(0.517)
del 19q13 43 332 (32%) 710 0
(0) 		1.07e-12
(1.02e-11) 		1.99e-39
(4.28e-38) 		0.419
(0.575) 		2.91e-05
(0.000112) 		1e-05
(4.06e-05) 		6.92e-10
(5.09e-09) 		0.12
(0.212) 		1
(1.00)
amp 1p36 21 101 (10%) 941 5.67e-13
(5.68e-12) 		1.55e-07
(9.27e-07) 		9.64e-16
(1.2e-14) 		0.524
(0.671) 		0.00456
(0.0121) 		1e-05
(4.06e-05) 		3.39e-05
(0.000128) 		0.334
(0.485) 		0.744
(0.845)
amp 1q22 140 (13%) 902 0.022
(0.0496) 		0.00328
(0.00911) 		6.8e-06
(3.66e-05) 		0.357
(0.507) 		0.0867
(0.161) 		8e-05
(0.000289) 		0.000249
(0.000822) 		0.376
(0.53) 		0.412
(0.569)
amp 1q44 124 (12%) 918 1.21e-06
(6.92e-06) 		9.69e-06
(4.06e-05) 		2.6e-09
(1.78e-08) 		0.382
(0.537) 		0.00483
(0.0127) 		1e-05
(4.06e-05) 		0.000238
(0.00079) 		0.429
(0.585) 		1
(1.00)
amp 3p25 3 82 (8%) 960 0.0169
(0.0396) 		0.0306
(0.0669) 		0.00112
(0.00344) 		0.0356
(0.0759) 		0.56
(0.706) 		0.00626
(0.0161) 		0.0833
(0.156) 		0.943
(0.988) 		0.486
(0.638)
amp 3q26 33 127 (12%) 915 5.78e-13
(5.71e-12) 		3.02e-09
(2.01e-08) 		2.01e-14
(2.2e-13) 		0.564
(0.709) 		0.0018
(0.00529) 		1e-05
(4.06e-05) 		6.02e-05
(0.000221) 		0.283
(0.434) 		0.24
(0.382)
amp 4q12 134 (13%) 908 5.4e-09
(3.55e-08) 		8.67e-06
(4.06e-05) 		1.2e-10
(9.52e-10) 		0.26
(0.406) 		0.132
(0.229) 		1e-05
(4.06e-05) 		0.0638
(0.126) 		0.455
(0.609) 		1
(1.00)
amp 8q24 21 161 (15%) 881 0.00119
(0.00364) 		0.000321
(0.00104) 		0.00139
(0.00421) 		0.728
(0.833) 		0.0858
(0.16) 		0.00064
(0.00202) 		0.122
(0.214) 		0.434
(0.591) 		0.453
(0.608)
amp 11q24 1 107 (10%) 935 1.01e-05
(4.08e-05) 		0.00148
(0.00442) 		6.08e-12
(5.4e-11) 		0.918
(0.971) 		0.00148
(0.00442) 		1e-05
(4.06e-05) 		0.0183
(0.0424) 		0.264
(0.411) 		1
(1.00)
amp 12q14 1 168 (16%) 874 1.71e-13
(1.79e-12) 		2.98e-05
(0.000114) 		2.4e-13
(2.44e-12) 		0.55
(0.696) 		0.0744
(0.142) 		1e-05
(4.06e-05) 		0.00176
(0.00518) 		0.341
(0.492) 		0.207
(0.338)
amp 14q32 33 44 (4%) 998 0.00142
(0.00429) 		1.52e-05
(5.98e-05) 		0.00016
(0.000547) 		0.213
(0.346) 		0.0895
(0.165) 		0.00447
(0.0119) 		0.0194
(0.0443) 		0.824
(0.893) 		0.393
(0.55)
amp 19p13 2 358 (34%) 684 0.000502
(0.00161) 		2.01e-06
(1.12e-05) 		1.11e-10
(8.85e-10) 		0.321
(0.474) 		0.0963
(0.175) 		1e-05
(4.06e-05) 		0.00396
(0.0108) 		0.624
(0.756) 		0.845
(0.908)
del 1p36 32 299 (29%) 743 2.22e-08
(1.4e-07) 		0.609
(0.745) 		2.38e-14
(2.56e-13) 		0.677
(0.799) 		0.00976
(0.0243) 		1e-05
(4.06e-05) 		2.79e-06
(1.54e-05) 		0.019
(0.0435) 		0.682
(0.803)
del 1p36 23 328 (31%) 714 1.34e-05
(5.36e-05) 		0.17
(0.283) 		2.51e-10
(1.96e-09) 		0.498
(0.65) 		0.000691
(0.00216) 		1e-05
(4.06e-05) 		0.000173
(0.000586) 		0.0445
(0.0923) 		0.426
(0.582)
del 1p32 3 241 (23%) 801 2.01e-12
(1.88e-11) 		0.317
(0.471) 		1.33e-26
(2.25e-25) 		0.941
(0.988) 		0.000676
(0.00213) 		1e-05
(4.06e-05) 		8.42e-15
(9.5e-14) 		0.0256
(0.0566) 		1
(1.00)
del 1p22 1 220 (21%) 822 5.55e-16
(7.05e-15) 		0.00824
(0.0208) 		8.57e-30
(1.52e-28) 		0.538
(0.683) 		4.35e-05
(0.000163) 		1e-05
(4.06e-05) 		2.78e-10
(2.15e-09) 		0.338
(0.489) 		0.823
(0.893)
del 6q26 248 (24%) 794 4.58e-11
(3.83e-10) 		0.000269
(0.000877) 		4.05e-10
(3.06e-09) 		0.21
(0.341) 		0.00393
(0.0107) 		1e-05
(4.06e-05) 		0.000257
(0.000846) 		0.23
(0.368) 		0.827
(0.895)
del 8p23 2 86 (8%) 956 0.0001
(0.000356) 		9.73e-05
(0.000348) 		1.36e-05
(5.38e-05) 		0.733
(0.835) 		0.267
(0.414) 		6e-05
(0.000221) 		0.00214
(0.00614) 		0.0189
(0.0435) 		0.504
(0.654)
del 13q22 1 351 (34%) 691 5.36e-05
(0.000199) 		0.0188
(0.0434) 		7.44e-06
(3.98e-05) 		0.206
(0.337) 		0.00104
(0.00321) 		0.00018
(0.000604) 		0.0124
(0.03) 		0.617
(0.749) 		0.441
(0.598)
del 14q24 2 277 (27%) 765 0.00284
(0.00794) 		0.108
(0.195) 		0.00608
(0.0157) 		0.0752
(0.143) 		0.357
(0.507) 		0.0165
(0.0388) 		0.041
(0.0863) 		0.15
(0.255) 		0.531
(0.675)
del 14q31 3 261 (25%) 781 0.00403
(0.0109) 		0.111
(0.198) 		0.0215
(0.0489) 		0.0814
(0.153) 		0.577
(0.72) 		0.0249
(0.0553) 		0.196
(0.322) 		0.0788
(0.149) 		1
(1.00)
del 15q14 204 (20%) 838 4.68e-06
(2.56e-05) 		5.98e-06
(3.25e-05) 		2.99e-09
(2e-08) 		0.527
(0.673) 		0.0221
(0.0498) 		2e-05
(7.73e-05) 		0.0416
(0.0872) 		0.579
(0.72) 		1
(1.00)
del 16p12 2 111 (11%) 931 2.64e-09
(1.79e-08) 		1.78e-07
(1.06e-06) 		6.94e-11
(5.73e-10) 		0.262
(0.409) 		0.136
(0.234) 		1e-05
(4.06e-05) 		0.00237
(0.00676) 		0.608
(0.745) 		1
(1.00)
del 17q11 2 90 (9%) 952 1.07e-07
(6.5e-07) 		0.000229
(0.000764) 		2.52e-06
(1.4e-05) 		0.824
(0.893) 		0.00129
(0.00391) 		0.00016
(0.000547) 		0.659
(0.783) 		0.0631
(0.125) 		0.312
(0.471)
del 19q13 41 346 (33%) 696 0
(0) 		2.49e-07
(1.46e-06) 		4.41e-33
(8.25e-32) 		0.285
(0.437) 		0.000119
(0.000418) 		1e-05
(4.06e-05) 		7.21e-10
(5.23e-09) 		0.721
(0.832) 		0.845
(0.908)
del 22q13 32 280 (27%) 762 2.27e-09
(1.59e-08) 		6.74e-10
(5.04e-09) 		5.15e-17
(7.04e-16) 		0.524
(0.671) 		0.00388
(0.0106) 		1e-05
(4.06e-05) 		0.000113
(0.000398) 		0.35
(0.503) 		0.53
(0.675)
amp 5p15 33 74 (7%) 968 0.00202
(0.00589) 		0.0681
(0.132) 		1.37e-06
(7.72e-06) 		0.395
(0.55) 		0.602
(0.741) 		1e-05
(4.06e-05) 		0.0896
(0.165) 		0.316
(0.471) 		0.469
(0.619)
amp 17p13 2 72 (7%) 970 0.00735
(0.0187) 		0.0278
(0.0611) 		0.0046
(0.0122) 		0.107
(0.193) 		0.779
(0.871) 		0.0072
(0.0183) 		0.463
(0.613) 		0.503
(0.654) 		1
(1.00)
amp 17q25 1 122 (12%) 920 1.12e-05
(4.48e-05) 		1.66e-05
(6.49e-05) 		0.00187
(0.00547) 		0.117
(0.207) 		0.726
(0.833) 		0.0161
(0.0381) 		0.5
(0.651) 		0.562
(0.707) 		0.769
(0.865)
amp 19p13 3 362 (35%) 680 0.0168
(0.0394) 		0.000172
(0.000585) 		8.13e-09
(5.21e-08) 		0.692
(0.809) 		0.619
(0.751) 		1e-05
(4.06e-05) 		0.00895
(0.0224) 		0.448
(0.603) 		0.846
(0.908)
del 1q42 11 75 (7%) 967 0.0161
(0.0381) 		0.0279
(0.0612) 		0.0703
(0.135) 		0.628
(0.759) 		0.024
(0.0535) 		0.473
(0.622) 		1
(1.00) 		0.142
(0.243) 		1
(1.00)
del 2q22 1 63 (6%) 979 0.00707
(0.0181) 		0.0219
(0.0496) 		0.00255
(0.00722) 		0.6
(0.741) 		0.143
(0.245) 		0.0161
(0.0381) 		0.794
(0.878) 		0.385
(0.54) 		0.251
(0.398)
del 4q34 3 216 (21%) 826 0.00026
(0.000851) 		0.0131
(0.0317) 		3.31e-05
(0.000126) 		0.163
(0.274) 		0.136
(0.234) 		0.00264
(0.00745) 		0.878
(0.935) 		0.499
(0.65) 		0.655
(0.779)
del 16q23 1 123 (12%) 919 6.09e-09
(3.98e-08) 		6.99e-05
(0.000255) 		3.07e-10
(2.34e-09) 		0.922
(0.975) 		0.00213
(0.00614) 		1e-05
(4.06e-05) 		0.178
(0.296) 		0.332
(0.483) 		1
(1.00)
amp 4p16 3 69 (7%) 973 0.00522
(0.0136) 		0.0792
(0.149) 		0.0119
(0.0293) 		0.529
(0.675) 		0.665
(0.787) 		0.0544
(0.111) 		0.17
(0.284) 		0.591
(0.733) 		1
(1.00)
del 6p25 3 132 (13%) 910 2.49e-09
(1.72e-08) 		0.0313
(0.0681) 		0.00362
(0.00997) 		0.925
(0.976) 		0.148
(0.251) 		0.0423
(0.0882) 		0.304
(0.462) 		0.225
(0.362) 		0.573
(0.717)
del 8q24 3 75 (7%) 967 0.034
(0.0732) 		0.235
(0.375) 		0.0163
(0.0385) 		0.332
(0.483) 		0.414
(0.569) 		0.0547
(0.111) 		0.0111
(0.0275) 		0.305
(0.463) 		0.458
(0.611)
del 11p11 2 154 (15%) 888 0.0142
(0.0341) 		0.314
(0.471) 		0.000304
(0.000988) 		0.287
(0.439) 		0.367
(0.519) 		0.00018
(0.000604) 		0.0654
(0.127) 		0.461
(0.611) 		0.791
(0.876)
del 12p13 1 106 (10%) 936 0.11
(0.198) 		0.518
(0.669) 		0.00744
(0.0188) 		0.678
(0.799) 		0.862
(0.918) 		0.00598
(0.0155) 		0.00993
(0.0247) 		0.226
(0.362) 		0.351
(0.503)
del 2q37 1 113 (11%) 929 0.604
(0.742) 		0.0562
(0.113) 		0.133
(0.231) 		0.544
(0.689) 		0.269
(0.416) 		0.0128
(0.0309) 		0.317
(0.471) 		0.332
(0.483) 		1
(1.00)
del 3p21 31 102 (10%) 940 0.782
(0.871) 		0.217
(0.35) 		0.835
(0.899) 		0.916
(0.971) 		0.116
(0.206) 		0.642
(0.77) 		0.0758
(0.143) 		0.955
(0.995) 		0.0236
(0.0527)
del 5p15 33 101 (10%) 941 0.123
(0.216) 		0.572
(0.717) 		1
(1.00) 		0.596
(0.737) 		0.153
(0.258) 		0.0329
(0.0713) 		0.0118
(0.0289) 		0.637
(0.765) 		0.52
(0.67)
del 11p15 5 223 (21%) 819 0.933
(0.981) 		0.00157
(0.00467) 		0.324
(0.476) 		0.055
(0.111) 		0.807
(0.882) 		0.00012
(0.000418) 		0.256
(0.405) 		0.834
(0.899) 		1
(1.00)
del 11p15 1 170 (16%) 872 0.257
(0.405) 		0.718
(0.831) 		0.0646
(0.127) 		0.0331
(0.0716) 		0.157
(0.265) 		0.00159
(0.00471) 		0.355
(0.507) 		0.447
(0.603) 		0.805
(0.882)
del xq21 1 170 (16%) 872 0.258
(0.405) 		0.016
(0.0381) 		0.0646
(0.127) 		0.798
(0.879) 		0.0928
(0.17) 		0.387
(0.541) 		0.355
(0.507) 		0.654
(0.779) 		0.805
(0.882)
amp 2p24 3 70 (7%) 972 0.165
(0.277) 		0.716
(0.83) 		0.00874
(0.022) 		0.316
(0.471) 		0.466
(0.616) 		0.0525
(0.108) 		0.322
(0.474) 		0.635
(0.763) 		1
(1.00)
amp 12p13 32 145 (14%) 897 0.945
(0.99) 		0.0439
(0.0913) 		0.419
(0.575) 		0.318
(0.471) 		0.733
(0.835) 		0.409
(0.568) 		0.0485
(0.1) 		0.752
(0.849) 		0.787
(0.873)
del 3q13 31 91 (9%) 951 0.0399
(0.0844) 		0.699
(0.814) 		0.187
(0.307) 		0.824
(0.893) 		0.689
(0.807) 		0.63
(0.761) 		0.0366
(0.0779) 		0.488
(0.639) 		0.327
(0.479)
del 3q29 98 (9%) 944 0.315
(0.471) 		0.723
(0.832) 		0.135
(0.234) 		0.518
(0.669) 		0.746
(0.846) 		0.431
(0.587) 		0.0547
(0.111) 		0.828
(0.895) 		0.752
(0.849)
del 5q34 127 (12%) 915 0.45
(0.605) 		0.0691
(0.133) 		0.776
(0.871) 		0.212
(0.345) 		0.772
(0.867) 		0.00015
(0.000518) 		0.447
(0.603) 		0.684
(0.803) 		0.78
(0.871)
del 18q23 146 (14%) 896 0.327
(0.479) 		0.0928
(0.17) 		0.654
(0.779) 		0.587
(0.73) 		0.719
(0.831) 		0.442
(0.598) 		0.282
(0.434) 		0.247
(0.393) 		0.0584
(0.117)
amp 13q34 53 (5%) 989 0.604
(0.742) 		0.98
(1.00) 		0.479
(0.63) 		0.317
(0.471) 		0.132
(0.229) 		0.613
(0.746) 		0.322
(0.474) 		0.705
(0.82) 		1
(1.00)
del 12q12 140 (13%) 902 0.808
(0.883) 		0.723
(0.832) 		0.928
(0.977) 		0.461
(0.611) 		0.611
(0.745) 		0.00214
(0.00614) 		0.524
(0.671) 		0.182
(0.301) 		0.412
(0.569)
del 12q15 135 (13%) 907 0.956
(0.995) 		0.726
(0.833) 		0.46
(0.611) 		0.574
(0.718) 		0.257
(0.405) 		0.0117
(0.0289) 		1
(1.00) 		0.166
(0.277) 		0.787
(0.873)
amp 11p13 58 (6%) 984 0.961
(0.998) 		0.897
(0.954) 		0.685
(0.803) 		0.275
(0.424) 		0.558
(0.704) 		0.175
(0.29) 		0.787
(0.873) 		1
(1.00) 		0.413
(0.569)
del 1q44 66 (6%) 976 0.259
(0.406) 		0.309
(0.469) 		0.611
(0.745) 		0.797
(0.879) 		0.317
(0.471) 		0.782
(0.871) 		0.8
(0.879) 		0.859
(0.918) 		0.699
(0.814)
del xp22 2 214 (21%) 828 0.738
(0.84) 		0.337
(0.488) 		1
(1.00) 		0.312
(0.471) 		0.163
(0.274) 		0.857
(0.916) 		0.758
(0.854) 		0.916
(0.971) 		0.655
(0.779)
'amp_1p36.21' versus 'Time to Death'

P value = 5.67e-13 (logrank test), Q value = 5.7e-12

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

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
AMP PEAK 1(1P36.21) MUTATED 101 83 0.1 - 92.7 (12.3)
AMP PEAK 1(1P36.21) WILD-TYPE 938 476 0.0 - 211.2 (15.0)

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 = 1.55e-07 (Wilcoxon-test), Q value = 9.3e-07

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

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
AMP PEAK 1(1P36.21) MUTATED 101 58.6 (13.2)
AMP PEAK 1(1P36.21) WILD-TYPE 940 50.3 (15.9)

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

'amp_1p36.21' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 9.64e-16 (Fisher's exact test), Q value = 1.2e-14

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

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
AMP PEAK 1(1P36.21) MUTATED 91 10
AMP PEAK 1(1P36.21) WILD-TYPE 479 462

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

'amp_1p36.21' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00456 (Wilcoxon-test), Q value = 0.012

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

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
AMP PEAK 1(1P36.21) MUTATED 63 77.3 (13.8)
AMP PEAK 1(1P36.21) WILD-TYPE 626 81.9 (14.6)

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

'amp_1p36.21' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

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

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
AMP PEAK 1(1P36.21) MUTATED 8 0 0 2 1 90
AMP PEAK 1(1P36.21) WILD-TYPE 168 27 118 176 17 435

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

'amp_1p36.21' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 3.39e-05 (Fisher's exact test), Q value = 0.00013

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

nPatients NO YES
ALL 474 568
AMP PEAK 1(1P36.21) MUTATED 66 35
AMP PEAK 1(1P36.21) WILD-TYPE 408 533

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

'amp_1q22' versus 'Time to Death'

P value = 0.022 (logrank test), Q value = 0.05

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

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
AMP PEAK 2(1Q22) MUTATED 140 92 0.1 - 211.2 (14.3)
AMP PEAK 2(1Q22) WILD-TYPE 899 467 0.0 - 182.3 (14.9)

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 = 0.00328 (Wilcoxon-test), Q value = 0.0091

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

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
AMP PEAK 2(1Q22) MUTATED 140 54.5 (15.6)
AMP PEAK 2(1Q22) WILD-TYPE 901 50.6 (15.8)

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

'amp_1q22' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 6.8e-06 (Fisher's exact test), Q value = 3.7e-05

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

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
AMP PEAK 2(1Q22) MUTATED 101 39
AMP PEAK 2(1Q22) WILD-TYPE 469 433

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

'amp_1q22' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0867 (Wilcoxon-test), Q value = 0.16

Table S10.  Gene #2: 'amp_1q22' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
AMP PEAK 2(1Q22) MUTATED 96 79.4 (14.5)
AMP PEAK 2(1Q22) WILD-TYPE 593 81.9 (14.6)

Figure S10.  Get High-res Image Gene #2: 'amp_1q22' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_1q22' versus 'HISTOLOGICAL_TYPE'

P value = 8e-05 (Fisher's exact test), Q value = 0.00029

Table S11.  Gene #2: 'amp_1q22' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
AMP PEAK 2(1Q22) MUTATED 17 1 6 16 3 97
AMP PEAK 2(1Q22) WILD-TYPE 159 26 112 162 15 428

Figure S11.  Get High-res Image Gene #2: 'amp_1q22' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'amp_1q22' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.000249 (Fisher's exact test), Q value = 0.00082

Table S12.  Gene #2: 'amp_1q22' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
AMP PEAK 2(1Q22) MUTATED 84 56
AMP PEAK 2(1Q22) WILD-TYPE 390 512

Figure S12.  Get High-res Image Gene #2: 'amp_1q22' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'amp_1q32.1' versus 'Time to Death'

P value = 1.24e-11 (logrank test), Q value = 1.1e-10

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

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
AMP PEAK 3(1Q32.1) MUTATED 198 146 0.1 - 211.2 (12.4)
AMP PEAK 3(1Q32.1) WILD-TYPE 841 413 0.0 - 182.3 (15.2)

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 = 4.34e-12 (Wilcoxon-test), Q value = 4e-11

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

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
AMP PEAK 3(1Q32.1) MUTATED 199 57.9 (14.1)
AMP PEAK 3(1Q32.1) WILD-TYPE 842 49.5 (15.8)

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

'amp_1q32.1' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 1.48e-15 (Fisher's exact test), Q value = 1.7e-14

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

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
AMP PEAK 3(1Q32.1) MUTATED 158 41
AMP PEAK 3(1Q32.1) WILD-TYPE 412 431

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

'amp_1q32.1' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00102 (Wilcoxon-test), Q value = 0.0032

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

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
AMP PEAK 3(1Q32.1) MUTATED 134 77.9 (15.0)
AMP PEAK 3(1Q32.1) WILD-TYPE 555 82.4 (14.4)

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

'amp_1q32.1' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

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

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
AMP PEAK 3(1Q32.1) MUTATED 20 7 7 14 5 146
AMP PEAK 3(1Q32.1) WILD-TYPE 156 20 111 164 13 379

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

'amp_1q32.1' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 8.44e-06 (Fisher's exact test), Q value = 4.1e-05

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

nPatients NO YES
ALL 474 568
AMP PEAK 3(1Q32.1) MUTATED 119 80
AMP PEAK 3(1Q32.1) WILD-TYPE 355 488

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

'amp_1q32.1' versus 'ETHNICITY'

P value = 0.0978 (Fisher's exact test), Q value = 0.18

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

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 30 891
AMP PEAK 3(1Q32.1) MUTATED 2 169
AMP PEAK 3(1Q32.1) WILD-TYPE 28 722

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

'amp_1q44' versus 'Time to Death'

P value = 1.21e-06 (logrank test), Q value = 6.9e-06

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

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
AMP PEAK 4(1Q44) MUTATED 124 90 0.1 - 211.2 (13.4)
AMP PEAK 4(1Q44) WILD-TYPE 915 469 0.0 - 182.3 (15.0)

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 = 9.69e-06 (Wilcoxon-test), Q value = 4.1e-05

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

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
AMP PEAK 4(1Q44) MUTATED 124 56.7 (14.7)
AMP PEAK 4(1Q44) WILD-TYPE 917 50.3 (15.8)

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

'amp_1q44' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 2.6e-09 (Fisher's exact test), Q value = 1.8e-08

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

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
AMP PEAK 4(1Q44) MUTATED 98 26
AMP PEAK 4(1Q44) WILD-TYPE 472 446

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

'amp_1q44' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00483 (Wilcoxon-test), Q value = 0.013

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

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
AMP PEAK 4(1Q44) MUTATED 81 77.9 (14.2)
AMP PEAK 4(1Q44) WILD-TYPE 608 82.0 (14.6)

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

'amp_1q44' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

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

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
AMP PEAK 4(1Q44) MUTATED 13 1 4 9 3 94
AMP PEAK 4(1Q44) WILD-TYPE 163 26 114 169 15 431

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

'amp_1q44' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.000238 (Fisher's exact test), Q value = 0.00079

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

nPatients NO YES
ALL 474 568
AMP PEAK 4(1Q44) MUTATED 76 48
AMP PEAK 4(1Q44) WILD-TYPE 398 520

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

'amp_2p24.3' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 0.00874 (Fisher's exact test), Q value = 0.022

Table S26.  Gene #5: 'amp_2p24.3' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
AMP PEAK 5(2P24.3) MUTATED 49 21
AMP PEAK 5(2P24.3) WILD-TYPE 521 451

Figure S26.  Get High-res Image Gene #5: 'amp_2p24.3' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'amp_2p24.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.0525 (Fisher's exact test), Q value = 0.11

Table S27.  Gene #5: 'amp_2p24.3' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
AMP PEAK 5(2P24.3) MUTATED 11 2 2 8 1 46
AMP PEAK 5(2P24.3) WILD-TYPE 165 25 116 170 17 479

Figure S27.  Get High-res Image Gene #5: 'amp_2p24.3' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'amp_3p25.3' versus 'Time to Death'

P value = 0.0169 (logrank test), Q value = 0.04

Table S28.  Gene #6: 'amp_3p25.3' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
AMP PEAK 6(3P25.3) MUTATED 82 55 0.2 - 127.6 (10.8)
AMP PEAK 6(3P25.3) WILD-TYPE 957 504 0.0 - 211.2 (14.9)

Figure S28.  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 = 0.0306 (Wilcoxon-test), Q value = 0.067

Table S29.  Gene #6: 'amp_3p25.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
AMP PEAK 6(3P25.3) MUTATED 82 54.6 (15.7)
AMP PEAK 6(3P25.3) WILD-TYPE 959 50.8 (15.8)

Figure S29.  Get High-res Image Gene #6: 'amp_3p25.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_3p25.3' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 0.00112 (Fisher's exact test), Q value = 0.0034

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

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
AMP PEAK 6(3P25.3) MUTATED 59 23
AMP PEAK 6(3P25.3) WILD-TYPE 511 449

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

'amp_3p25.3' versus 'GENDER'

P value = 0.0356 (Fisher's exact test), Q value = 0.076

Table S31.  Gene #6: 'amp_3p25.3' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 430 612
AMP PEAK 6(3P25.3) MUTATED 43 39
AMP PEAK 6(3P25.3) WILD-TYPE 387 573

Figure S31.  Get High-res Image Gene #6: 'amp_3p25.3' versus Clinical Feature #4: 'GENDER'

'amp_3p25.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.00626 (Fisher's exact test), Q value = 0.016

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

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
AMP PEAK 6(3P25.3) MUTATED 13 1 3 7 1 57
AMP PEAK 6(3P25.3) WILD-TYPE 163 26 115 171 17 468

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

'amp_3p25.3' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.0833 (Fisher's exact test), Q value = 0.16

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

nPatients NO YES
ALL 474 568
AMP PEAK 6(3P25.3) MUTATED 45 37
AMP PEAK 6(3P25.3) WILD-TYPE 429 531

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

'amp_3q26.33' versus 'Time to Death'

P value = 5.78e-13 (logrank test), Q value = 5.7e-12

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

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
AMP PEAK 7(3Q26.33) MUTATED 126 97 0.1 - 127.6 (10.3)
AMP PEAK 7(3Q26.33) WILD-TYPE 913 462 0.0 - 211.2 (15.2)

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 = 3.02e-09 (Wilcoxon-test), Q value = 2e-08

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

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
AMP PEAK 7(3Q26.33) MUTATED 127 58.7 (13.0)
AMP PEAK 7(3Q26.33) WILD-TYPE 914 50.0 (15.9)

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

'amp_3q26.33' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 2.01e-14 (Fisher's exact test), Q value = 2.2e-13

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

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
AMP PEAK 7(3Q26.33) MUTATED 108 19
AMP PEAK 7(3Q26.33) WILD-TYPE 462 453

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

'amp_3q26.33' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0018 (Wilcoxon-test), Q value = 0.0053

Table S37.  Gene #7: 'amp_3q26.33' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
AMP PEAK 7(3Q26.33) MUTATED 93 78.1 (13.2)
AMP PEAK 7(3Q26.33) WILD-TYPE 596 82.1 (14.7)

Figure S37.  Get High-res Image Gene #7: 'amp_3q26.33' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_3q26.33' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S38.  Gene #7: 'amp_3q26.33' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
AMP PEAK 7(3Q26.33) MUTATED 13 0 1 5 0 108
AMP PEAK 7(3Q26.33) WILD-TYPE 163 27 117 173 18 417

Figure S38.  Get High-res Image Gene #7: 'amp_3q26.33' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'amp_3q26.33' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 6.02e-05 (Fisher's exact test), Q value = 0.00022

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

nPatients NO YES
ALL 474 568
AMP PEAK 7(3Q26.33) MUTATED 79 48
AMP PEAK 7(3Q26.33) WILD-TYPE 395 520

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

'amp_4p16.3' versus 'Time to Death'

P value = 0.00522 (logrank test), Q value = 0.014

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

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
AMP PEAK 8(4P16.3) MUTATED 69 47 0.2 - 94.5 (12.4)
AMP PEAK 8(4P16.3) WILD-TYPE 970 512 0.0 - 211.2 (14.9)

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 = 0.0792 (Wilcoxon-test), Q value = 0.15

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

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
AMP PEAK 8(4P16.3) MUTATED 69 54.1 (14.7)
AMP PEAK 8(4P16.3) WILD-TYPE 972 50.9 (15.9)

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

'amp_4p16.3' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 0.0119 (Fisher's exact test), Q value = 0.029

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

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
AMP PEAK 8(4P16.3) MUTATED 48 21
AMP PEAK 8(4P16.3) WILD-TYPE 522 451

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

'amp_4p16.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.0544 (Fisher's exact test), Q value = 0.11

Table S43.  Gene #8: 'amp_4p16.3' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
AMP PEAK 8(4P16.3) MUTATED 12 1 3 6 1 46
AMP PEAK 8(4P16.3) WILD-TYPE 164 26 115 172 17 479

Figure S43.  Get High-res Image Gene #8: 'amp_4p16.3' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'amp_4q12' versus 'Time to Death'

P value = 5.4e-09 (logrank test), Q value = 3.6e-08

Table S44.  Gene #9: 'amp_4q12' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
AMP PEAK 9(4Q12) MUTATED 134 96 0.1 - 92.7 (11.7)
AMP PEAK 9(4Q12) WILD-TYPE 905 463 0.0 - 211.2 (15.1)

Figure S44.  Get High-res Image Gene #9: 'amp_4q12' versus Clinical Feature #1: 'Time to Death'

'amp_4q12' versus 'YEARS_TO_BIRTH'

P value = 8.67e-06 (Wilcoxon-test), Q value = 4.1e-05

Table S45.  Gene #9: 'amp_4q12' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
AMP PEAK 9(4Q12) MUTATED 134 56.4 (15.2)
AMP PEAK 9(4Q12) WILD-TYPE 907 50.3 (15.8)

Figure S45.  Get High-res Image Gene #9: 'amp_4q12' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_4q12' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 1.2e-10 (Fisher's exact test), Q value = 9.5e-10

Table S46.  Gene #9: 'amp_4q12' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
AMP PEAK 9(4Q12) MUTATED 107 27
AMP PEAK 9(4Q12) WILD-TYPE 463 445

Figure S46.  Get High-res Image Gene #9: 'amp_4q12' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'amp_4q12' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.132 (Wilcoxon-test), Q value = 0.23

Table S47.  Gene #9: 'amp_4q12' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
AMP PEAK 9(4Q12) MUTATED 97 79.4 (15.6)
AMP PEAK 9(4Q12) WILD-TYPE 592 81.9 (14.4)

Figure S47.  Get High-res Image Gene #9: 'amp_4q12' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_4q12' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S48.  Gene #9: 'amp_4q12' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
AMP PEAK 9(4Q12) MUTATED 18 3 2 7 2 102
AMP PEAK 9(4Q12) WILD-TYPE 158 24 116 171 16 423

Figure S48.  Get High-res Image Gene #9: 'amp_4q12' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'amp_4q12' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.0638 (Fisher's exact test), Q value = 0.13

Table S49.  Gene #9: 'amp_4q12' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
AMP PEAK 9(4Q12) MUTATED 71 63
AMP PEAK 9(4Q12) WILD-TYPE 403 505

Figure S49.  Get High-res Image Gene #9: 'amp_4q12' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'amp_5p15.33' versus 'Time to Death'

P value = 0.00202 (logrank test), Q value = 0.0059

Table S50.  Gene #10: 'amp_5p15.33' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
AMP PEAK 10(5P15.33) MUTATED 74 54 0.2 - 92.7 (11.9)
AMP PEAK 10(5P15.33) WILD-TYPE 965 505 0.0 - 211.2 (14.9)

Figure S50.  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 = 0.0681 (Wilcoxon-test), Q value = 0.13

Table S51.  Gene #10: 'amp_5p15.33' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
AMP PEAK 10(5P15.33) MUTATED 74 54.1 (16.7)
AMP PEAK 10(5P15.33) WILD-TYPE 967 50.9 (15.7)

Figure S51.  Get High-res Image Gene #10: 'amp_5p15.33' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_5p15.33' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 1.37e-06 (Fisher's exact test), Q value = 7.7e-06

Table S52.  Gene #10: 'amp_5p15.33' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
AMP PEAK 10(5P15.33) MUTATED 60 14
AMP PEAK 10(5P15.33) WILD-TYPE 510 458

Figure S52.  Get High-res Image Gene #10: 'amp_5p15.33' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'amp_5p15.33' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S53.  Gene #10: 'amp_5p15.33' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
AMP PEAK 10(5P15.33) MUTATED 9 3 4 1 4 53
AMP PEAK 10(5P15.33) WILD-TYPE 167 24 114 177 14 472

Figure S53.  Get High-res Image Gene #10: 'amp_5p15.33' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'amp_5p15.33' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.0896 (Fisher's exact test), Q value = 0.17

Table S54.  Gene #10: 'amp_5p15.33' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
AMP PEAK 10(5P15.33) MUTATED 41 33
AMP PEAK 10(5P15.33) WILD-TYPE 433 535

Figure S54.  Get High-res Image Gene #10: 'amp_5p15.33' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'amp_7p11.2' versus 'Time to Death'

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

Table S55.  Gene #11: 'amp_7p11.2' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
AMP PEAK 11(7P11.2) MUTATED 616 459 0.1 - 211.2 (12.2)
AMP PEAK 11(7P11.2) WILD-TYPE 423 100 0.0 - 182.3 (19.0)

Figure S55.  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 = 9.95e-64 (Wilcoxon-test), Q value = 2.7e-62

Table S56.  Gene #11: 'amp_7p11.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
AMP PEAK 11(7P11.2) MUTATED 617 57.9 (13.3)
AMP PEAK 11(7P11.2) WILD-TYPE 424 41.2 (13.9)

Figure S56.  Get High-res Image Gene #11: 'amp_7p11.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_7p11.2' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 1.07e-100 (Fisher's exact test), Q value = 4e-99

Table S57.  Gene #11: 'amp_7p11.2' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
AMP PEAK 11(7P11.2) MUTATED 500 117
AMP PEAK 11(7P11.2) WILD-TYPE 70 355

Figure S57.  Get High-res Image Gene #11: 'amp_7p11.2' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'amp_7p11.2' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 7.83e-17 (Wilcoxon-test), Q value = 1.1e-15

Table S58.  Gene #11: 'amp_7p11.2' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
AMP PEAK 11(7P11.2) MUTATED 437 78.3 (15.1)
AMP PEAK 11(7P11.2) WILD-TYPE 252 87.1 (11.7)

Figure S58.  Get High-res Image Gene #11: 'amp_7p11.2' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_7p11.2' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S59.  Gene #11: 'amp_7p11.2' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
AMP PEAK 11(7P11.2) MUTATED 52 22 31 34 13 465
AMP PEAK 11(7P11.2) WILD-TYPE 124 5 87 144 5 60

Figure S59.  Get High-res Image Gene #11: 'amp_7p11.2' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'amp_7p11.2' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 2.11e-21 (Fisher's exact test), Q value = 3.2e-20

Table S60.  Gene #11: 'amp_7p11.2' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
AMP PEAK 11(7P11.2) MUTATED 355 262
AMP PEAK 11(7P11.2) WILD-TYPE 119 306

Figure S60.  Get High-res Image Gene #11: 'amp_7p11.2' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'amp_7p11.2' versus 'RACE'

P value = 0.00463 (Fisher's exact test), Q value = 0.012

Table S61.  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 64 922
AMP PEAK 11(7P11.2) MUTATED 1 12 50 531
AMP PEAK 11(7P11.2) WILD-TYPE 0 9 14 391

Figure S61.  Get High-res Image Gene #11: 'amp_7p11.2' versus Clinical Feature #8: 'RACE'

'amp_7p11.2' versus 'ETHNICITY'

P value = 0.132 (Fisher's exact test), Q value = 0.23

Table S62.  Gene #11: 'amp_7p11.2' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 30 891
AMP PEAK 11(7P11.2) MUTATED 13 518
AMP PEAK 11(7P11.2) WILD-TYPE 17 373

Figure S62.  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 S63.  Gene #12: 'amp_7q11.21' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
AMP PEAK 12(7Q11.21) MUTATED 565 416 0.1 - 211.2 (12.2)
AMP PEAK 12(7Q11.21) WILD-TYPE 474 143 0.0 - 182.3 (18.7)

Figure S63.  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 = 1.18e-50 (Wilcoxon-test), Q value = 2.8e-49

Table S64.  Gene #12: 'amp_7q11.21' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
AMP PEAK 12(7Q11.21) MUTATED 566 57.8 (13.3)
AMP PEAK 12(7Q11.21) WILD-TYPE 475 43.1 (14.8)

Figure S64.  Get High-res Image Gene #12: 'amp_7q11.21' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_7q11.21' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 8.35e-81 (Fisher's exact test), Q value = 2.8e-79

Table S65.  Gene #12: 'amp_7q11.21' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
AMP PEAK 12(7Q11.21) MUTATED 458 108
AMP PEAK 12(7Q11.21) WILD-TYPE 112 364

Figure S65.  Get High-res Image Gene #12: 'amp_7q11.21' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'amp_7q11.21' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 2.33e-12 (Wilcoxon-test), Q value = 2.2e-11

Table S66.  Gene #12: 'amp_7q11.21' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
AMP PEAK 12(7Q11.21) MUTATED 398 78.5 (15.1)
AMP PEAK 12(7Q11.21) WILD-TYPE 291 85.7 (12.8)

Figure S66.  Get High-res Image Gene #12: 'amp_7q11.21' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_7q11.21' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S67.  Gene #12: 'amp_7q11.21' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
AMP PEAK 12(7Q11.21) MUTATED 46 19 30 32 10 429
AMP PEAK 12(7Q11.21) WILD-TYPE 130 8 88 146 8 96

Figure S67.  Get High-res Image Gene #12: 'amp_7q11.21' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'amp_7q11.21' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 2.07e-16 (Fisher's exact test), Q value = 2.7e-15

Table S68.  Gene #12: 'amp_7q11.21' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
AMP PEAK 12(7Q11.21) MUTATED 323 243
AMP PEAK 12(7Q11.21) WILD-TYPE 151 325

Figure S68.  Get High-res Image Gene #12: 'amp_7q11.21' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'amp_7q11.21' versus 'RACE'

P value = 0.00378 (Fisher's exact test), Q value = 0.01

Table S69.  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 64 922
AMP PEAK 12(7Q11.21) MUTATED 1 10 47 485
AMP PEAK 12(7Q11.21) WILD-TYPE 0 11 17 437

Figure S69.  Get High-res Image Gene #12: 'amp_7q11.21' versus Clinical Feature #8: 'RACE'

'amp_7q21.2' versus 'Time to Death'

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

Table S70.  Gene #13: 'amp_7q21.2' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
AMP PEAK 13(7Q21.2) MUTATED 619 437 0.1 - 211.2 (12.6)
AMP PEAK 13(7Q21.2) WILD-TYPE 420 122 0.0 - 182.3 (18.7)

Figure S70.  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 = 3.65e-46 (Wilcoxon-test), Q value = 8.1e-45

Table S71.  Gene #13: 'amp_7q21.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
AMP PEAK 13(7Q21.2) MUTATED 620 56.9 (13.5)
AMP PEAK 13(7Q21.2) WILD-TYPE 421 42.6 (15.2)

Figure S71.  Get High-res Image Gene #13: 'amp_7q21.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_7q21.2' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 3.94e-67 (Fisher's exact test), Q value = 1.2e-65

Table S72.  Gene #13: 'amp_7q21.2' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
AMP PEAK 13(7Q21.2) MUTATED 473 147
AMP PEAK 13(7Q21.2) WILD-TYPE 97 325

Figure S72.  Get High-res Image Gene #13: 'amp_7q21.2' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'amp_7q21.2' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 1.05e-10 (Wilcoxon-test), Q value = 8.6e-10

Table S73.  Gene #13: 'amp_7q21.2' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
AMP PEAK 13(7Q21.2) MUTATED 432 78.9 (15.3)
AMP PEAK 13(7Q21.2) WILD-TYPE 257 85.9 (12.2)

Figure S73.  Get High-res Image Gene #13: 'amp_7q21.2' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_7q21.2' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S74.  Gene #13: 'amp_7q21.2' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
AMP PEAK 13(7Q21.2) MUTATED 62 21 39 46 12 440
AMP PEAK 13(7Q21.2) WILD-TYPE 114 6 79 132 6 85

Figure S74.  Get High-res Image Gene #13: 'amp_7q21.2' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'amp_7q21.2' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 1.02e-15 (Fisher's exact test), Q value = 1.2e-14

Table S75.  Gene #13: 'amp_7q21.2' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
AMP PEAK 13(7Q21.2) MUTATED 345 275
AMP PEAK 13(7Q21.2) WILD-TYPE 129 293

Figure S75.  Get High-res Image Gene #13: 'amp_7q21.2' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'amp_7q21.2' versus 'RACE'

P value = 0.00352 (Fisher's exact test), Q value = 0.0097

Table S76.  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 64 922
AMP PEAK 13(7Q21.2) MUTATED 1 10 50 536
AMP PEAK 13(7Q21.2) WILD-TYPE 0 11 14 386

Figure S76.  Get High-res Image Gene #13: 'amp_7q21.2' versus Clinical Feature #8: 'RACE'

'amp_7q21.2' versus 'ETHNICITY'

P value = 0.092 (Fisher's exact test), Q value = 0.17

Table S77.  Gene #13: 'amp_7q21.2' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 30 891
AMP PEAK 13(7Q21.2) MUTATED 13 527
AMP PEAK 13(7Q21.2) WILD-TYPE 17 364

Figure S77.  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 S78.  Gene #14: 'amp_7q31.2' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
AMP PEAK 14(7Q31.2) MUTATED 628 431 0.1 - 211.2 (12.7)
AMP PEAK 14(7Q31.2) WILD-TYPE 411 128 0.0 - 182.3 (18.0)

Figure S78.  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 = 1.71e-36 (Wilcoxon-test), Q value = 3.3e-35

Table S79.  Gene #14: 'amp_7q31.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
AMP PEAK 14(7Q31.2) MUTATED 629 56.1 (13.8)
AMP PEAK 14(7Q31.2) WILD-TYPE 412 43.4 (15.6)

Figure S79.  Get High-res Image Gene #14: 'amp_7q31.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_7q31.2' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 8.31e-55 (Fisher's exact test), Q value = 2.1e-53

Table S80.  Gene #14: 'amp_7q31.2' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
AMP PEAK 14(7Q31.2) MUTATED 465 164
AMP PEAK 14(7Q31.2) WILD-TYPE 105 308

Figure S80.  Get High-res Image Gene #14: 'amp_7q31.2' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'amp_7q31.2' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 5.29e-08 (Wilcoxon-test), Q value = 3.3e-07

Table S81.  Gene #14: 'amp_7q31.2' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
AMP PEAK 14(7Q31.2) MUTATED 434 79.4 (14.9)
AMP PEAK 14(7Q31.2) WILD-TYPE 255 85.1 (13.3)

Figure S81.  Get High-res Image Gene #14: 'amp_7q31.2' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_7q31.2' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S82.  Gene #14: 'amp_7q31.2' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
AMP PEAK 14(7Q31.2) MUTATED 69 20 45 50 13 432
AMP PEAK 14(7Q31.2) WILD-TYPE 107 7 73 128 5 93

Figure S82.  Get High-res Image Gene #14: 'amp_7q31.2' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'amp_7q31.2' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 5.72e-12 (Fisher's exact test), Q value = 5.1e-11

Table S83.  Gene #14: 'amp_7q31.2' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
AMP PEAK 14(7Q31.2) MUTATED 340 289
AMP PEAK 14(7Q31.2) WILD-TYPE 134 279

Figure S83.  Get High-res Image Gene #14: 'amp_7q31.2' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'amp_7q31.2' versus 'RACE'

P value = 0.0183 (Fisher's exact test), Q value = 0.042

Table S84.  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 64 922
AMP PEAK 14(7Q31.2) MUTATED 1 11 49 546
AMP PEAK 14(7Q31.2) WILD-TYPE 0 10 15 376

Figure S84.  Get High-res Image Gene #14: 'amp_7q31.2' versus Clinical Feature #8: 'RACE'

'amp_7q31.2' versus 'ETHNICITY'

P value = 0.0867 (Fisher's exact test), Q value = 0.16

Table S85.  Gene #14: 'amp_7q31.2' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 30 891
AMP PEAK 14(7Q31.2) MUTATED 13 538
AMP PEAK 14(7Q31.2) WILD-TYPE 17 353

Figure S85.  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 S86.  Gene #15: 'amp_7q32.3' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
AMP PEAK 15(7Q32.3) MUTATED 639 435 0.1 - 211.2 (12.7)
AMP PEAK 15(7Q32.3) WILD-TYPE 400 124 0.0 - 182.3 (18.1)

Figure S86.  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 = 3.09e-37 (Wilcoxon-test), Q value = 6.3e-36

Table S87.  Gene #15: 'amp_7q32.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
AMP PEAK 15(7Q32.3) MUTATED 640 56.1 (13.8)
AMP PEAK 15(7Q32.3) WILD-TYPE 401 43.1 (15.6)

Figure S87.  Get High-res Image Gene #15: 'amp_7q32.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_7q32.3' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 1.69e-54 (Fisher's exact test), Q value = 4.1e-53

Table S88.  Gene #15: 'amp_7q32.3' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
AMP PEAK 15(7Q32.3) MUTATED 470 170
AMP PEAK 15(7Q32.3) WILD-TYPE 100 302

Figure S88.  Get High-res Image Gene #15: 'amp_7q32.3' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'amp_7q32.3' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 8.18e-08 (Wilcoxon-test), Q value = 5e-07

Table S89.  Gene #15: 'amp_7q32.3' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
AMP PEAK 15(7Q32.3) MUTATED 443 79.5 (15.1)
AMP PEAK 15(7Q32.3) WILD-TYPE 246 85.2 (12.9)

Figure S89.  Get High-res Image Gene #15: 'amp_7q32.3' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_7q32.3' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S90.  Gene #15: 'amp_7q32.3' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
AMP PEAK 15(7Q32.3) MUTATED 71 20 47 52 12 438
AMP PEAK 15(7Q32.3) WILD-TYPE 105 7 71 126 6 87

Figure S90.  Get High-res Image Gene #15: 'amp_7q32.3' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'amp_7q32.3' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 6.89e-13 (Fisher's exact test), Q value = 6.7e-12

Table S91.  Gene #15: 'amp_7q32.3' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
AMP PEAK 15(7Q32.3) MUTATED 347 293
AMP PEAK 15(7Q32.3) WILD-TYPE 127 275

Figure S91.  Get High-res Image Gene #15: 'amp_7q32.3' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'amp_7q32.3' versus 'RACE'

P value = 0.012 (Fisher's exact test), Q value = 0.029

Table S92.  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 64 922
AMP PEAK 15(7Q32.3) MUTATED 1 11 50 556
AMP PEAK 15(7Q32.3) WILD-TYPE 0 10 14 366

Figure S92.  Get High-res Image Gene #15: 'amp_7q32.3' versus Clinical Feature #8: 'RACE'

'amp_7q32.3' versus 'ETHNICITY'

P value = 0.0559 (Fisher's exact test), Q value = 0.11

Table S93.  Gene #15: 'amp_7q32.3' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 30 891
AMP PEAK 15(7Q32.3) MUTATED 13 549
AMP PEAK 15(7Q32.3) WILD-TYPE 17 342

Figure S93.  Get High-res Image Gene #15: 'amp_7q32.3' versus Clinical Feature #9: 'ETHNICITY'

'amp_8q24.21' versus 'Time to Death'

P value = 0.00119 (logrank test), Q value = 0.0036

Table S94.  Gene #16: 'amp_8q24.21' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
AMP PEAK 16(8Q24.21) MUTATED 161 74 0.1 - 124.5 (16.5)
AMP PEAK 16(8Q24.21) WILD-TYPE 878 485 0.0 - 211.2 (14.3)

Figure S94.  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 = 0.000321 (Wilcoxon-test), Q value = 0.001

Table S95.  Gene #16: 'amp_8q24.21' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
AMP PEAK 16(8Q24.21) MUTATED 161 46.7 (16.3)
AMP PEAK 16(8Q24.21) WILD-TYPE 880 51.9 (15.6)

Figure S95.  Get High-res Image Gene #16: 'amp_8q24.21' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_8q24.21' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 0.00139 (Fisher's exact test), Q value = 0.0042

Table S96.  Gene #16: 'amp_8q24.21' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
AMP PEAK 16(8Q24.21) MUTATED 69 92
AMP PEAK 16(8Q24.21) WILD-TYPE 501 380

Figure S96.  Get High-res Image Gene #16: 'amp_8q24.21' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'amp_8q24.21' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0858 (Wilcoxon-test), Q value = 0.16

Table S97.  Gene #16: 'amp_8q24.21' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
AMP PEAK 16(8Q24.21) MUTATED 107 83.6 (14.4)
AMP PEAK 16(8Q24.21) WILD-TYPE 582 81.2 (14.6)

Figure S97.  Get High-res Image Gene #16: 'amp_8q24.21' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_8q24.21' versus 'HISTOLOGICAL_TYPE'

P value = 0.00064 (Fisher's exact test), Q value = 0.002

Table S98.  Gene #16: 'amp_8q24.21' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
AMP PEAK 16(8Q24.21) MUTATED 43 2 27 22 2 65
AMP PEAK 16(8Q24.21) WILD-TYPE 133 25 91 156 16 460

Figure S98.  Get High-res Image Gene #16: 'amp_8q24.21' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'amp_8q24.21' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.122 (Fisher's exact test), Q value = 0.21

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

nPatients NO YES
ALL 474 568
AMP PEAK 16(8Q24.21) MUTATED 64 97
AMP PEAK 16(8Q24.21) WILD-TYPE 410 471

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

'amp_9q34.3' versus 'Time to Death'

P value = 0.023 (logrank test), Q value = 0.052

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

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
AMP PEAK 17(9Q34.3) MUTATED 136 85 0.1 - 172.8 (13.1)
AMP PEAK 17(9Q34.3) WILD-TYPE 903 474 0.0 - 211.2 (14.9)

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 = 0.0406 (Wilcoxon-test), Q value = 0.086

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

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
AMP PEAK 17(9Q34.3) MUTATED 136 53.3 (16.6)
AMP PEAK 17(9Q34.3) WILD-TYPE 905 50.8 (15.7)

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

'amp_9q34.3' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 0.000603 (Fisher's exact test), Q value = 0.0019

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

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
AMP PEAK 17(9Q34.3) MUTATED 93 43
AMP PEAK 17(9Q34.3) WILD-TYPE 477 429

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

'amp_9q34.3' versus 'GENDER'

P value = 0.0757 (Fisher's exact test), Q value = 0.14

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

nPatients FEMALE MALE
ALL 430 612
AMP PEAK 17(9Q34.3) MUTATED 66 70
AMP PEAK 17(9Q34.3) WILD-TYPE 364 542

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

'amp_9q34.3' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0351 (Wilcoxon-test), Q value = 0.075

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

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
AMP PEAK 17(9Q34.3) MUTATED 99 78.8 (14.7)
AMP PEAK 17(9Q34.3) WILD-TYPE 590 82.0 (14.5)

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

'amp_9q34.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.001 (Fisher's exact test), Q value = 0.0031

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

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
AMP PEAK 17(9Q34.3) MUTATED 23 3 11 9 2 88
AMP PEAK 17(9Q34.3) WILD-TYPE 153 24 107 169 16 437

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

'amp_9q34.3' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.0651 (Fisher's exact test), Q value = 0.13

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

nPatients NO YES
ALL 474 568
AMP PEAK 17(9Q34.3) MUTATED 72 64
AMP PEAK 17(9Q34.3) WILD-TYPE 402 504

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

'amp_10p15.1' versus 'Time to Death'

P value = 1.31e-07 (logrank test), Q value = 7.9e-07

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

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
AMP PEAK 18(10P15.1) MUTATED 84 25 0.1 - 172.8 (20.8)
AMP PEAK 18(10P15.1) WILD-TYPE 955 534 0.0 - 211.2 (14.5)

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 1041 51.1 (15.8)
AMP PEAK 18(10P15.1) MUTATED 84 38.2 (12.5)
AMP PEAK 18(10P15.1) WILD-TYPE 957 52.2 (15.6)

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

'amp_10p15.1' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 7.87e-10 (Fisher's exact test), Q value = 5.7e-09

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

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
AMP PEAK 18(10P15.1) MUTATED 19 65
AMP PEAK 18(10P15.1) WILD-TYPE 551 407

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

'amp_10p15.1' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 7.07e-05 (Wilcoxon-test), Q value = 0.00026

Table S110.  Gene #18: 'amp_10p15.1' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
AMP PEAK 18(10P15.1) MUTATED 54 88.3 (11.3)
AMP PEAK 18(10P15.1) WILD-TYPE 635 80.9 (14.7)

Figure S110.  Get High-res Image Gene #18: 'amp_10p15.1' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_10p15.1' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S111.  Gene #18: 'amp_10p15.1' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
AMP PEAK 18(10P15.1) MUTATED 33 1 23 9 1 17
AMP PEAK 18(10P15.1) WILD-TYPE 143 26 95 169 17 508

Figure S111.  Get High-res Image Gene #18: 'amp_10p15.1' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'amp_10p15.1' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.0396 (Fisher's exact test), Q value = 0.084

Table S112.  Gene #18: 'amp_10p15.1' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
AMP PEAK 18(10P15.1) MUTATED 29 55
AMP PEAK 18(10P15.1) WILD-TYPE 445 513

Figure S112.  Get High-res Image Gene #18: 'amp_10p15.1' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'amp_10p15.1' versus 'ETHNICITY'

P value = 0.031 (Fisher's exact test), Q value = 0.068

Table S113.  Gene #18: 'amp_10p15.1' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 30 891
AMP PEAK 18(10P15.1) MUTATED 6 70
AMP PEAK 18(10P15.1) WILD-TYPE 24 821

Figure S113.  Get High-res Image Gene #18: 'amp_10p15.1' versus Clinical Feature #9: 'ETHNICITY'

'amp_11q24.1' versus 'Time to Death'

P value = 1.01e-05 (logrank test), Q value = 4.1e-05

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

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
AMP PEAK 20(11Q24.1) MUTATED 107 36 0.2 - 211.2 (18.9)
AMP PEAK 20(11Q24.1) WILD-TYPE 932 523 0.0 - 172.8 (14.5)

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 = 0.00148 (Wilcoxon-test), Q value = 0.0044

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

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
AMP PEAK 20(11Q24.1) MUTATED 107 46.7 (13.9)
AMP PEAK 20(11Q24.1) WILD-TYPE 934 51.6 (16.0)

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

'amp_11q24.1' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 6.08e-12 (Fisher's exact test), Q value = 5.4e-11

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

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
AMP PEAK 20(11Q24.1) MUTATED 25 82
AMP PEAK 20(11Q24.1) WILD-TYPE 545 390

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

'amp_11q24.1' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00148 (Wilcoxon-test), Q value = 0.0044

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

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
AMP PEAK 20(11Q24.1) MUTATED 71 86.3 (12.1)
AMP PEAK 20(11Q24.1) WILD-TYPE 618 81.0 (14.7)

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

'amp_11q24.1' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

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

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
AMP PEAK 20(11Q24.1) MUTATED 30 0 17 35 1 24
AMP PEAK 20(11Q24.1) WILD-TYPE 146 27 101 143 17 501

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

'amp_11q24.1' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.0183 (Fisher's exact test), Q value = 0.042

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

nPatients NO YES
ALL 474 568
AMP PEAK 20(11Q24.1) MUTATED 37 70
AMP PEAK 20(11Q24.1) WILD-TYPE 437 498

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

'amp_12p13.32' versus 'YEARS_TO_BIRTH'

P value = 0.0439 (Wilcoxon-test), Q value = 0.091

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

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
AMP PEAK 21(12P13.32) MUTATED 145 48.5 (16.7)
AMP PEAK 21(12P13.32) WILD-TYPE 896 51.5 (15.6)

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

'amp_12p13.32' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.0485 (Fisher's exact test), Q value = 0.1

Table S121.  Gene #21: 'amp_12p13.32' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
AMP PEAK 21(12P13.32) MUTATED 77 68
AMP PEAK 21(12P13.32) WILD-TYPE 397 500

Figure S121.  Get High-res Image Gene #21: 'amp_12p13.32' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'amp_12q14.1' versus 'Time to Death'

P value = 1.71e-13 (logrank test), Q value = 1.8e-12

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

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
AMP PEAK 22(12Q14.1) MUTATED 167 127 0.1 - 80.0 (12.6)
AMP PEAK 22(12Q14.1) WILD-TYPE 872 432 0.0 - 211.2 (15.0)

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 = 2.98e-05 (Wilcoxon-test), Q value = 0.00011

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

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
AMP PEAK 22(12Q14.1) MUTATED 168 55.7 (15.4)
AMP PEAK 22(12Q14.1) WILD-TYPE 873 50.2 (15.7)

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

'amp_12q14.1' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 2.4e-13 (Fisher's exact test), Q value = 2.4e-12

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

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
AMP PEAK 22(12Q14.1) MUTATED 134 34
AMP PEAK 22(12Q14.1) WILD-TYPE 436 438

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

'amp_12q14.1' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0744 (Wilcoxon-test), Q value = 0.14

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

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
AMP PEAK 22(12Q14.1) MUTATED 116 79.2 (15.7)
AMP PEAK 22(12Q14.1) WILD-TYPE 573 82.0 (14.3)

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

'amp_12q14.1' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

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

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
AMP PEAK 22(12Q14.1) MUTATED 20 5 5 9 3 126
AMP PEAK 22(12Q14.1) WILD-TYPE 156 22 113 169 15 399

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

'amp_12q14.1' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.00176 (Fisher's exact test), Q value = 0.0052

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

nPatients NO YES
ALL 474 568
AMP PEAK 22(12Q14.1) MUTATED 95 73
AMP PEAK 22(12Q14.1) WILD-TYPE 379 495

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

'amp_12q15' versus 'Time to Death'

P value = 1.31e-09 (logrank test), Q value = 9.3e-09

Table S128.  Gene #23: 'amp_12q15' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
AMP PEAK 23(12Q15) MUTATED 109 86 0.2 - 80.0 (12.6)
AMP PEAK 23(12Q15) WILD-TYPE 930 473 0.0 - 211.2 (14.9)

Figure S128.  Get High-res Image Gene #23: 'amp_12q15' versus Clinical Feature #1: 'Time to Death'

'amp_12q15' versus 'YEARS_TO_BIRTH'

P value = 0.000145 (Wilcoxon-test), Q value = 5e-04

Table S129.  Gene #23: 'amp_12q15' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
AMP PEAK 23(12Q15) MUTATED 109 56.6 (14.4)
AMP PEAK 23(12Q15) WILD-TYPE 932 50.5 (15.9)

Figure S129.  Get High-res Image Gene #23: 'amp_12q15' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_12q15' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 9.61e-12 (Fisher's exact test), Q value = 8.4e-11

Table S130.  Gene #23: 'amp_12q15' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
AMP PEAK 23(12Q15) MUTATED 92 17
AMP PEAK 23(12Q15) WILD-TYPE 478 455

Figure S130.  Get High-res Image Gene #23: 'amp_12q15' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'amp_12q15' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0355 (Wilcoxon-test), Q value = 0.076

Table S131.  Gene #23: 'amp_12q15' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
AMP PEAK 23(12Q15) MUTATED 84 78.8 (14.8)
AMP PEAK 23(12Q15) WILD-TYPE 605 81.9 (14.5)

Figure S131.  Get High-res Image Gene #23: 'amp_12q15' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_12q15' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S132.  Gene #23: 'amp_12q15' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
AMP PEAK 23(12Q15) MUTATED 8 3 2 7 2 87
AMP PEAK 23(12Q15) WILD-TYPE 168 24 116 171 16 438

Figure S132.  Get High-res Image Gene #23: 'amp_12q15' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'amp_12q15' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.0417 (Fisher's exact test), Q value = 0.087

Table S133.  Gene #23: 'amp_12q15' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
AMP PEAK 23(12Q15) MUTATED 60 49
AMP PEAK 23(12Q15) WILD-TYPE 414 519

Figure S133.  Get High-res Image Gene #23: 'amp_12q15' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'amp_12q15' versus 'ETHNICITY'

P value = 0.0638 (Fisher's exact test), Q value = 0.13

Table S134.  Gene #23: 'amp_12q15' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 30 891
AMP PEAK 23(12Q15) MUTATED 0 95
AMP PEAK 23(12Q15) WILD-TYPE 30 796

Figure S134.  Get High-res Image Gene #23: 'amp_12q15' versus Clinical Feature #9: 'ETHNICITY'

'amp_13q34' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.132 (Wilcoxon-test), Q value = 0.23

Table S135.  Gene #24: 'amp_13q34' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
AMP PEAK 24(13Q34) MUTATED 35 77.7 (16.1)
AMP PEAK 24(13Q34) WILD-TYPE 654 81.7 (14.5)

Figure S135.  Get High-res Image Gene #24: 'amp_13q34' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_14q32.33' versus 'Time to Death'

P value = 0.00142 (logrank test), Q value = 0.0043

Table S136.  Gene #25: 'amp_14q32.33' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
AMP PEAK 25(14Q32.33) MUTATED 44 34 0.4 - 72.9 (13.0)
AMP PEAK 25(14Q32.33) WILD-TYPE 995 525 0.0 - 211.2 (14.9)

Figure S136.  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 = 1.52e-05 (Wilcoxon-test), Q value = 6e-05

Table S137.  Gene #25: 'amp_14q32.33' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
AMP PEAK 25(14Q32.33) MUTATED 44 61.0 (14.9)
AMP PEAK 25(14Q32.33) WILD-TYPE 997 50.7 (15.7)

Figure S137.  Get High-res Image Gene #25: 'amp_14q32.33' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_14q32.33' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 0.00016 (Fisher's exact test), Q value = 0.00055

Table S138.  Gene #25: 'amp_14q32.33' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
AMP PEAK 25(14Q32.33) MUTATED 36 8
AMP PEAK 25(14Q32.33) WILD-TYPE 534 464

Figure S138.  Get High-res Image Gene #25: 'amp_14q32.33' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'amp_14q32.33' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0895 (Wilcoxon-test), Q value = 0.17

Table S139.  Gene #25: 'amp_14q32.33' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
AMP PEAK 25(14Q32.33) MUTATED 33 77.0 (16.7)
AMP PEAK 25(14Q32.33) WILD-TYPE 656 81.8 (14.4)

Figure S139.  Get High-res Image Gene #25: 'amp_14q32.33' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_14q32.33' versus 'HISTOLOGICAL_TYPE'

P value = 0.00447 (Fisher's exact test), Q value = 0.012

Table S140.  Gene #25: 'amp_14q32.33' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
AMP PEAK 25(14Q32.33) MUTATED 2 2 3 3 2 32
AMP PEAK 25(14Q32.33) WILD-TYPE 174 25 115 175 16 493

Figure S140.  Get High-res Image Gene #25: 'amp_14q32.33' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'amp_14q32.33' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.0194 (Fisher's exact test), Q value = 0.044

Table S141.  Gene #25: 'amp_14q32.33' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
AMP PEAK 25(14Q32.33) MUTATED 28 16
AMP PEAK 25(14Q32.33) WILD-TYPE 446 552

Figure S141.  Get High-res Image Gene #25: 'amp_14q32.33' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'amp_17p13.2' versus 'Time to Death'

P value = 0.00735 (logrank test), Q value = 0.019

Table S142.  Gene #26: 'amp_17p13.2' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
AMP PEAK 26(17P13.2) MUTATED 72 50 0.2 - 72.4 (13.9)
AMP PEAK 26(17P13.2) WILD-TYPE 967 509 0.0 - 211.2 (14.9)

Figure S142.  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 = 0.0278 (Wilcoxon-test), Q value = 0.061

Table S143.  Gene #26: 'amp_17p13.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
AMP PEAK 26(17P13.2) MUTATED 72 54.8 (16.2)
AMP PEAK 26(17P13.2) WILD-TYPE 969 50.8 (15.8)

Figure S143.  Get High-res Image Gene #26: 'amp_17p13.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_17p13.2' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 0.0046 (Fisher's exact test), Q value = 0.012

Table S144.  Gene #26: 'amp_17p13.2' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
AMP PEAK 26(17P13.2) MUTATED 51 21
AMP PEAK 26(17P13.2) WILD-TYPE 519 451

Figure S144.  Get High-res Image Gene #26: 'amp_17p13.2' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'amp_17p13.2' versus 'GENDER'

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

Table S145.  Gene #26: 'amp_17p13.2' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 430 612
AMP PEAK 26(17P13.2) MUTATED 23 49
AMP PEAK 26(17P13.2) WILD-TYPE 407 563

Figure S145.  Get High-res Image Gene #26: 'amp_17p13.2' versus Clinical Feature #4: 'GENDER'

'amp_17p13.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.0072 (Fisher's exact test), Q value = 0.018

Table S146.  Gene #26: 'amp_17p13.2' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
AMP PEAK 26(17P13.2) MUTATED 9 4 1 11 1 46
AMP PEAK 26(17P13.2) WILD-TYPE 167 23 117 167 17 479

Figure S146.  Get High-res Image Gene #26: 'amp_17p13.2' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'amp_17q25.1' versus 'Time to Death'

P value = 1.12e-05 (logrank test), Q value = 4.5e-05

Table S147.  Gene #27: 'amp_17q25.1' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
AMP PEAK 27(17Q25.1) MUTATED 122 88 0.1 - 91.8 (13.1)
AMP PEAK 27(17Q25.1) WILD-TYPE 917 471 0.0 - 211.2 (14.9)

Figure S147.  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 = 1.66e-05 (Wilcoxon-test), Q value = 6.5e-05

Table S148.  Gene #27: 'amp_17q25.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
AMP PEAK 27(17Q25.1) MUTATED 122 56.7 (14.8)
AMP PEAK 27(17Q25.1) WILD-TYPE 919 50.4 (15.8)

Figure S148.  Get High-res Image Gene #27: 'amp_17q25.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_17q25.1' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 0.00187 (Fisher's exact test), Q value = 0.0055

Table S149.  Gene #27: 'amp_17q25.1' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
AMP PEAK 27(17Q25.1) MUTATED 83 39
AMP PEAK 27(17Q25.1) WILD-TYPE 487 433

Figure S149.  Get High-res Image Gene #27: 'amp_17q25.1' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'amp_17q25.1' versus 'GENDER'

P value = 0.117 (Fisher's exact test), Q value = 0.21

Table S150.  Gene #27: 'amp_17q25.1' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 430 612
AMP PEAK 27(17Q25.1) MUTATED 42 80
AMP PEAK 27(17Q25.1) WILD-TYPE 388 532

Figure S150.  Get High-res Image Gene #27: 'amp_17q25.1' versus Clinical Feature #4: 'GENDER'

'amp_17q25.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0161 (Fisher's exact test), Q value = 0.038

Table S151.  Gene #27: 'amp_17q25.1' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
AMP PEAK 27(17Q25.1) MUTATED 19 5 6 14 2 76
AMP PEAK 27(17Q25.1) WILD-TYPE 157 22 112 164 16 449

Figure S151.  Get High-res Image Gene #27: 'amp_17q25.1' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'amp_19p13.3' versus 'Time to Death'

P value = 0.0168 (logrank test), Q value = 0.039

Table S152.  Gene #28: 'amp_19p13.3' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
AMP PEAK 28(19P13.3) MUTATED 361 222 0.0 - 172.8 (15.2)
AMP PEAK 28(19P13.3) WILD-TYPE 678 337 0.1 - 211.2 (14.4)

Figure S152.  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 = 0.000172 (Wilcoxon-test), Q value = 0.00059

Table S153.  Gene #28: 'amp_19p13.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
AMP PEAK 28(19P13.3) MUTATED 361 53.6 (14.6)
AMP PEAK 28(19P13.3) WILD-TYPE 680 49.8 (16.3)

Figure S153.  Get High-res Image Gene #28: 'amp_19p13.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_19p13.3' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 8.13e-09 (Fisher's exact test), Q value = 5.2e-08

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

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
AMP PEAK 28(19P13.3) MUTATED 242 120
AMP PEAK 28(19P13.3) WILD-TYPE 328 352

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

'amp_19p13.3' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S155.  Gene #28: 'amp_19p13.3' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
AMP PEAK 28(19P13.3) MUTATED 24 11 27 69 10 221
AMP PEAK 28(19P13.3) WILD-TYPE 152 16 91 109 8 304

Figure S155.  Get High-res Image Gene #28: 'amp_19p13.3' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'amp_19p13.3' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.00895 (Fisher's exact test), Q value = 0.022

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

nPatients NO YES
ALL 474 568
AMP PEAK 28(19P13.3) MUTATED 185 177
AMP PEAK 28(19P13.3) WILD-TYPE 289 391

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

'amp_19p13.2' versus 'Time to Death'

P value = 0.000502 (logrank test), Q value = 0.0016

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

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
AMP PEAK 29(19P13.2) MUTATED 356 223 0.1 - 169.8 (14.9)
AMP PEAK 29(19P13.2) WILD-TYPE 683 336 0.0 - 211.2 (14.6)

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 = 2.01e-06 (Wilcoxon-test), Q value = 1.1e-05

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

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
AMP PEAK 29(19P13.2) MUTATED 357 54.4 (14.3)
AMP PEAK 29(19P13.2) WILD-TYPE 684 49.4 (16.3)

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

'amp_19p13.2' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 1.11e-10 (Fisher's exact test), Q value = 8.9e-10

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

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
AMP PEAK 29(19P13.2) MUTATED 245 113
AMP PEAK 29(19P13.2) WILD-TYPE 325 359

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

'amp_19p13.2' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0963 (Wilcoxon-test), Q value = 0.17

Table S160.  Gene #29: 'amp_19p13.2' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
AMP PEAK 29(19P13.2) MUTATED 235 80.5 (14.8)
AMP PEAK 29(19P13.2) WILD-TYPE 454 82.1 (14.5)

Figure S160.  Get High-res Image Gene #29: 'amp_19p13.2' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_19p13.2' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S161.  Gene #29: 'amp_19p13.2' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
AMP PEAK 29(19P13.2) MUTATED 22 10 23 68 10 225
AMP PEAK 29(19P13.2) WILD-TYPE 154 17 95 110 8 300

Figure S161.  Get High-res Image Gene #29: 'amp_19p13.2' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'amp_19p13.2' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.00396 (Fisher's exact test), Q value = 0.011

Table S162.  Gene #29: 'amp_19p13.2' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
AMP PEAK 29(19P13.2) MUTATED 185 173
AMP PEAK 29(19P13.2) WILD-TYPE 289 395

Figure S162.  Get High-res Image Gene #29: 'amp_19p13.2' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'amp_19q12' versus 'Time to Death'

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

Table S163.  Gene #30: 'amp_19q12' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
AMP PEAK 30(19Q12) MUTATED 239 183 0.0 - 92.7 (13.6)
AMP PEAK 30(19Q12) WILD-TYPE 800 376 0.1 - 211.2 (15.0)

Figure S163.  Get High-res Image Gene #30: 'amp_19q12' versus Clinical Feature #1: 'Time to Death'

'amp_19q12' versus 'YEARS_TO_BIRTH'

P value = 1.04e-14 (Wilcoxon-test), Q value = 1.2e-13

Table S164.  Gene #30: 'amp_19q12' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
AMP PEAK 30(19Q12) MUTATED 240 58.0 (12.9)
AMP PEAK 30(19Q12) WILD-TYPE 801 49.0 (16.0)

Figure S164.  Get High-res Image Gene #30: 'amp_19q12' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_19q12' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 3.09e-37 (Fisher's exact test), Q value = 6.3e-36

Table S165.  Gene #30: 'amp_19q12' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
AMP PEAK 30(19Q12) MUTATED 213 27
AMP PEAK 30(19Q12) WILD-TYPE 357 445

Figure S165.  Get High-res Image Gene #30: 'amp_19q12' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'amp_19q12' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 8.99e-05 (Wilcoxon-test), Q value = 0.00032

Table S166.  Gene #30: 'amp_19q12' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
AMP PEAK 30(19Q12) MUTATED 162 78.1 (14.8)
AMP PEAK 30(19Q12) WILD-TYPE 527 82.6 (14.4)

Figure S166.  Get High-res Image Gene #30: 'amp_19q12' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_19q12' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S167.  Gene #30: 'amp_19q12' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
AMP PEAK 30(19Q12) MUTATED 14 12 7 6 8 193
AMP PEAK 30(19Q12) WILD-TYPE 162 15 111 172 10 332

Figure S167.  Get High-res Image Gene #30: 'amp_19q12' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'amp_19q12' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 6.95e-10 (Fisher's exact test), Q value = 5.1e-09

Table S168.  Gene #30: 'amp_19q12' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
AMP PEAK 30(19Q12) MUTATED 151 89
AMP PEAK 30(19Q12) WILD-TYPE 323 479

Figure S168.  Get High-res Image Gene #30: 'amp_19q12' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'amp_19q12' versus 'RACE'

P value = 0.0568 (Fisher's exact test), Q value = 0.11

Table S169.  Gene #30: 'amp_19q12' versus Clinical Feature #8: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 1 21 64 922
AMP PEAK 30(19Q12) MUTATED 0 8 21 203
AMP PEAK 30(19Q12) WILD-TYPE 1 13 43 719

Figure S169.  Get High-res Image Gene #30: 'amp_19q12' versus Clinical Feature #8: 'RACE'

'amp_19q13.2' versus 'Time to Death'

P value = 1.33e-15 (logrank test), Q value = 1.6e-14

Table S170.  Gene #31: 'amp_19q13.2' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
AMP PEAK 31(19Q13.2) MUTATED 226 171 0.1 - 92.7 (13.8)
AMP PEAK 31(19Q13.2) WILD-TYPE 813 388 0.0 - 211.2 (15.0)

Figure S170.  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 = 7.64e-14 (Wilcoxon-test), Q value = 8.1e-13

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

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
AMP PEAK 31(19Q13.2) MUTATED 227 58.0 (12.4)
AMP PEAK 31(19Q13.2) WILD-TYPE 814 49.2 (16.1)

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

'amp_19q13.2' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 1.31e-31 (Fisher's exact test), Q value = 2.4e-30

Table S172.  Gene #31: 'amp_19q13.2' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
AMP PEAK 31(19Q13.2) MUTATED 198 29
AMP PEAK 31(19Q13.2) WILD-TYPE 372 443

Figure S172.  Get High-res Image Gene #31: 'amp_19q13.2' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'amp_19q13.2' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00048 (Wilcoxon-test), Q value = 0.0015

Table S173.  Gene #31: 'amp_19q13.2' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
AMP PEAK 31(19Q13.2) MUTATED 157 78.5 (14.7)
AMP PEAK 31(19Q13.2) WILD-TYPE 532 82.4 (14.4)

Figure S173.  Get High-res Image Gene #31: 'amp_19q13.2' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_19q13.2' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S174.  Gene #31: 'amp_19q13.2' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
AMP PEAK 31(19Q13.2) MUTATED 17 11 6 6 6 181
AMP PEAK 31(19Q13.2) WILD-TYPE 159 16 112 172 12 344

Figure S174.  Get High-res Image Gene #31: 'amp_19q13.2' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'amp_19q13.2' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 7.81e-08 (Fisher's exact test), Q value = 4.8e-07

Table S175.  Gene #31: 'amp_19q13.2' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
AMP PEAK 31(19Q13.2) MUTATED 139 88
AMP PEAK 31(19Q13.2) WILD-TYPE 335 480

Figure S175.  Get High-res Image Gene #31: 'amp_19q13.2' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'amp_19q13.2' versus 'RACE'

P value = 0.0531 (Fisher's exact test), Q value = 0.11

Table S176.  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 64 922
AMP PEAK 31(19Q13.2) MUTATED 0 7 21 192
AMP PEAK 31(19Q13.2) WILD-TYPE 1 14 43 730

Figure S176.  Get High-res Image Gene #31: 'amp_19q13.2' versus Clinical Feature #8: 'RACE'

'amp_xp11.21' versus 'Time to Death'

P value = 0.00478 (logrank test), Q value = 0.013

Table S177.  Gene #32: 'amp_xp11.21' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
AMP PEAK 32(XP11.21) MUTATED 98 39 0.1 - 130.8 (15.4)
AMP PEAK 32(XP11.21) WILD-TYPE 941 520 0.0 - 211.2 (14.6)

Figure S177.  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 = 1.38e-05 (Wilcoxon-test), Q value = 5.5e-05

Table S178.  Gene #32: 'amp_xp11.21' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
AMP PEAK 32(XP11.21) MUTATED 98 44.4 (15.9)
AMP PEAK 32(XP11.21) WILD-TYPE 943 51.8 (15.7)

Figure S178.  Get High-res Image Gene #32: 'amp_xp11.21' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'amp_xp11.21' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 4.18e-05 (Fisher's exact test), Q value = 0.00016

Table S179.  Gene #32: 'amp_xp11.21' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
AMP PEAK 32(XP11.21) MUTATED 34 64
AMP PEAK 32(XP11.21) WILD-TYPE 536 408

Figure S179.  Get High-res Image Gene #32: 'amp_xp11.21' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'amp_xp11.21' versus 'GENDER'

P value = 0.0173 (Fisher's exact test), Q value = 0.04

Table S180.  Gene #32: 'amp_xp11.21' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 430 612
AMP PEAK 32(XP11.21) MUTATED 52 46
AMP PEAK 32(XP11.21) WILD-TYPE 378 566

Figure S180.  Get High-res Image Gene #32: 'amp_xp11.21' versus Clinical Feature #4: 'GENDER'

'amp_xp11.21' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0065 (Wilcoxon-test), Q value = 0.017

Table S181.  Gene #32: 'amp_xp11.21' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
AMP PEAK 32(XP11.21) MUTATED 59 85.4 (15.0)
AMP PEAK 32(XP11.21) WILD-TYPE 630 81.2 (14.5)

Figure S181.  Get High-res Image Gene #32: 'amp_xp11.21' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'amp_xp11.21' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S182.  Gene #32: 'amp_xp11.21' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
AMP PEAK 32(XP11.21) MUTATED 40 3 15 9 2 29
AMP PEAK 32(XP11.21) WILD-TYPE 136 24 103 169 16 496

Figure S182.  Get High-res Image Gene #32: 'amp_xp11.21' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'amp_xp11.21' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.111 (Fisher's exact test), Q value = 0.2

Table S183.  Gene #32: 'amp_xp11.21' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
AMP PEAK 32(XP11.21) MUTATED 37 61
AMP PEAK 32(XP11.21) WILD-TYPE 437 507

Figure S183.  Get High-res Image Gene #32: 'amp_xp11.21' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'amp_xp11.21' versus 'ETHNICITY'

P value = 0.0581 (Fisher's exact test), Q value = 0.12

Table S184.  Gene #32: 'amp_xp11.21' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 30 891
AMP PEAK 32(XP11.21) MUTATED 6 82
AMP PEAK 32(XP11.21) WILD-TYPE 24 809

Figure S184.  Get High-res Image Gene #32: 'amp_xp11.21' versus Clinical Feature #9: 'ETHNICITY'

'del_1p36.32' versus 'Time to Death'

P value = 2.22e-08 (logrank test), Q value = 1.4e-07

Table S185.  Gene #33: 'del_1p36.32' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 1(1P36.32) MUTATED 298 121 0.1 - 182.3 (16.1)
DEL PEAK 1(1P36.32) WILD-TYPE 741 438 0.0 - 211.2 (13.9)

Figure S185.  Get High-res Image Gene #33: 'del_1p36.32' versus Clinical Feature #1: 'Time to Death'

'del_1p36.32' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 2.38e-14 (Fisher's exact test), Q value = 2.6e-13

Table S186.  Gene #33: 'del_1p36.32' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 1(1P36.32) MUTATED 108 191
DEL PEAK 1(1P36.32) WILD-TYPE 462 281

Figure S186.  Get High-res Image Gene #33: 'del_1p36.32' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_1p36.32' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00976 (Wilcoxon-test), Q value = 0.024

Table S187.  Gene #33: 'del_1p36.32' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
DEL PEAK 1(1P36.32) MUTATED 200 83.2 (15.4)
DEL PEAK 1(1P36.32) WILD-TYPE 489 80.8 (14.2)

Figure S187.  Get High-res Image Gene #33: 'del_1p36.32' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_1p36.32' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S188.  Gene #33: 'del_1p36.32' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 1(1P36.32) MUTATED 19 1 41 131 4 103
DEL PEAK 1(1P36.32) WILD-TYPE 157 26 77 47 14 422

Figure S188.  Get High-res Image Gene #33: 'del_1p36.32' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_1p36.32' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 2.79e-06 (Fisher's exact test), Q value = 1.5e-05

Table S189.  Gene #33: 'del_1p36.32' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 1(1P36.32) MUTATED 102 197
DEL PEAK 1(1P36.32) WILD-TYPE 372 371

Figure S189.  Get High-res Image Gene #33: 'del_1p36.32' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_1p36.32' versus 'RACE'

P value = 0.019 (Fisher's exact test), Q value = 0.044

Table S190.  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 64 922
DEL PEAK 1(1P36.32) MUTATED 1 10 12 268
DEL PEAK 1(1P36.32) WILD-TYPE 0 11 52 654

Figure S190.  Get High-res Image Gene #33: 'del_1p36.32' versus Clinical Feature #8: 'RACE'

'del_1p36.23' versus 'Time to Death'

P value = 1.34e-05 (logrank test), Q value = 5.4e-05

Table S191.  Gene #34: 'del_1p36.23' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 2(1P36.23) MUTATED 327 145 0.1 - 182.3 (15.8)
DEL PEAK 2(1P36.23) WILD-TYPE 712 414 0.0 - 211.2 (14.1)

Figure S191.  Get High-res Image Gene #34: 'del_1p36.23' versus Clinical Feature #1: 'Time to Death'

'del_1p36.23' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 2.51e-10 (Fisher's exact test), Q value = 2e-09

Table S192.  Gene #34: 'del_1p36.23' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 2(1P36.23) MUTATED 132 196
DEL PEAK 2(1P36.23) WILD-TYPE 438 276

Figure S192.  Get High-res Image Gene #34: 'del_1p36.23' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_1p36.23' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.000691 (Wilcoxon-test), Q value = 0.0022

Table S193.  Gene #34: 'del_1p36.23' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
DEL PEAK 2(1P36.23) MUTATED 217 83.6 (15.7)
DEL PEAK 2(1P36.23) WILD-TYPE 472 80.6 (13.9)

Figure S193.  Get High-res Image Gene #34: 'del_1p36.23' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_1p36.23' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S194.  Gene #34: 'del_1p36.23' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 2(1P36.23) MUTATED 21 4 43 132 3 125
DEL PEAK 2(1P36.23) WILD-TYPE 155 23 75 46 15 400

Figure S194.  Get High-res Image Gene #34: 'del_1p36.23' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_1p36.23' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.000173 (Fisher's exact test), Q value = 0.00059

Table S195.  Gene #34: 'del_1p36.23' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 2(1P36.23) MUTATED 121 207
DEL PEAK 2(1P36.23) WILD-TYPE 353 361

Figure S195.  Get High-res Image Gene #34: 'del_1p36.23' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_1p36.23' versus 'RACE'

P value = 0.0445 (Fisher's exact test), Q value = 0.092

Table S196.  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 64 922
DEL PEAK 2(1P36.23) MUTATED 1 11 16 290
DEL PEAK 2(1P36.23) WILD-TYPE 0 10 48 632

Figure S196.  Get High-res Image Gene #34: 'del_1p36.23' versus Clinical Feature #8: 'RACE'

'del_1p32.3' versus 'Time to Death'

P value = 2.01e-12 (logrank test), Q value = 1.9e-11

Table S197.  Gene #35: 'del_1p32.3' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 3(1P32.3) MUTATED 240 77 0.1 - 182.3 (16.1)
DEL PEAK 3(1P32.3) WILD-TYPE 799 482 0.0 - 211.2 (14.3)

Figure S197.  Get High-res Image Gene #35: 'del_1p32.3' versus Clinical Feature #1: 'Time to Death'

'del_1p32.3' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 1.33e-26 (Fisher's exact test), Q value = 2.2e-25

Table S198.  Gene #35: 'del_1p32.3' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 3(1P32.3) MUTATED 60 181
DEL PEAK 3(1P32.3) WILD-TYPE 510 291

Figure S198.  Get High-res Image Gene #35: 'del_1p32.3' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_1p32.3' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.000676 (Wilcoxon-test), Q value = 0.0021

Table S199.  Gene #35: 'del_1p32.3' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
DEL PEAK 3(1P32.3) MUTATED 147 85.0 (13.2)
DEL PEAK 3(1P32.3) WILD-TYPE 542 80.6 (14.8)

Figure S199.  Get High-res Image Gene #35: 'del_1p32.3' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_1p32.3' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S200.  Gene #35: 'del_1p32.3' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 3(1P32.3) MUTATED 13 1 37 131 2 57
DEL PEAK 3(1P32.3) WILD-TYPE 163 26 81 47 16 468

Figure S200.  Get High-res Image Gene #35: 'del_1p32.3' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_1p32.3' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 8.42e-15 (Fisher's exact test), Q value = 9.5e-14

Table S201.  Gene #35: 'del_1p32.3' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 3(1P32.3) MUTATED 58 183
DEL PEAK 3(1P32.3) WILD-TYPE 416 385

Figure S201.  Get High-res Image Gene #35: 'del_1p32.3' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_1p32.3' versus 'RACE'

P value = 0.0256 (Fisher's exact test), Q value = 0.057

Table S202.  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 64 922
DEL PEAK 3(1P32.3) MUTATED 1 7 8 217
DEL PEAK 3(1P32.3) WILD-TYPE 0 14 56 705

Figure S202.  Get High-res Image Gene #35: 'del_1p32.3' versus Clinical Feature #8: 'RACE'

'del_1p22.1' versus 'Time to Death'

P value = 5.55e-16 (logrank test), Q value = 7e-15

Table S203.  Gene #36: 'del_1p22.1' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 4(1P22.1) MUTATED 219 63 0.1 - 182.3 (17.6)
DEL PEAK 4(1P22.1) WILD-TYPE 820 496 0.0 - 211.2 (14.0)

Figure S203.  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 = 0.00824 (Wilcoxon-test), Q value = 0.021

Table S204.  Gene #36: 'del_1p22.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 4(1P22.1) MUTATED 219 48.8 (13.8)
DEL PEAK 4(1P22.1) WILD-TYPE 822 51.7 (16.3)

Figure S204.  Get High-res Image Gene #36: 'del_1p22.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_1p22.1' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 8.57e-30 (Fisher's exact test), Q value = 1.5e-28

Table S205.  Gene #36: 'del_1p22.1' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 4(1P22.1) MUTATED 47 173
DEL PEAK 4(1P22.1) WILD-TYPE 523 299

Figure S205.  Get High-res Image Gene #36: 'del_1p22.1' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_1p22.1' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 4.35e-05 (Wilcoxon-test), Q value = 0.00016

Table S206.  Gene #36: 'del_1p22.1' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
DEL PEAK 4(1P22.1) MUTATED 135 85.5 (14.3)
DEL PEAK 4(1P22.1) WILD-TYPE 554 80.6 (14.5)

Figure S206.  Get High-res Image Gene #36: 'del_1p22.1' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_1p22.1' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S207.  Gene #36: 'del_1p22.1' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 4(1P22.1) MUTATED 10 1 34 129 4 42
DEL PEAK 4(1P22.1) WILD-TYPE 166 26 84 49 14 483

Figure S207.  Get High-res Image Gene #36: 'del_1p22.1' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_1p22.1' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 2.78e-10 (Fisher's exact test), Q value = 2.1e-09

Table S208.  Gene #36: 'del_1p22.1' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 4(1P22.1) MUTATED 59 161
DEL PEAK 4(1P22.1) WILD-TYPE 415 407

Figure S208.  Get High-res Image Gene #36: 'del_1p22.1' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_1q42.11' versus 'Time to Death'

P value = 0.0161 (logrank test), Q value = 0.038

Table S209.  Gene #37: 'del_1q42.11' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 5(1Q42.11) MUTATED 75 49 0.1 - 130.8 (12.5)
DEL PEAK 5(1Q42.11) WILD-TYPE 964 510 0.0 - 211.2 (14.9)

Figure S209.  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 = 0.0279 (Wilcoxon-test), Q value = 0.061

Table S210.  Gene #37: 'del_1q42.11' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 5(1Q42.11) MUTATED 75 55.2 (14.8)
DEL PEAK 5(1Q42.11) WILD-TYPE 966 50.8 (15.9)

Figure S210.  Get High-res Image Gene #37: 'del_1q42.11' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_1q42.11' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 0.0703 (Fisher's exact test), Q value = 0.13

Table S211.  Gene #37: 'del_1q42.11' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 5(1Q42.11) MUTATED 49 26
DEL PEAK 5(1Q42.11) WILD-TYPE 521 446

Figure S211.  Get High-res Image Gene #37: 'del_1q42.11' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_1q42.11' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.024 (Wilcoxon-test), Q value = 0.054

Table S212.  Gene #37: 'del_1q42.11' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
DEL PEAK 5(1Q42.11) MUTATED 59 76.3 (18.0)
DEL PEAK 5(1Q42.11) WILD-TYPE 630 82.0 (14.1)

Figure S212.  Get High-res Image Gene #37: 'del_1q42.11' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_1q42.11' versus 'RACE'

P value = 0.142 (Fisher's exact test), Q value = 0.24

Table S213.  Gene #37: 'del_1q42.11' versus Clinical Feature #8: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 1 21 64 922
DEL PEAK 5(1Q42.11) MUTATED 0 1 9 61
DEL PEAK 5(1Q42.11) WILD-TYPE 1 20 55 861

Figure S213.  Get High-res Image Gene #37: 'del_1q42.11' versus Clinical Feature #8: 'RACE'

'del_2q22.1' versus 'Time to Death'

P value = 0.00707 (logrank test), Q value = 0.018

Table S214.  Gene #39: 'del_2q22.1' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 7(2Q22.1) MUTATED 63 47 1.3 - 117.4 (15.1)
DEL PEAK 7(2Q22.1) WILD-TYPE 976 512 0.0 - 211.2 (14.8)

Figure S214.  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 = 0.0219 (Wilcoxon-test), Q value = 0.05

Table S215.  Gene #39: 'del_2q22.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 7(2Q22.1) MUTATED 63 55.2 (17.3)
DEL PEAK 7(2Q22.1) WILD-TYPE 978 50.8 (15.7)

Figure S215.  Get High-res Image Gene #39: 'del_2q22.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_2q22.1' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 0.00255 (Fisher's exact test), Q value = 0.0072

Table S216.  Gene #39: 'del_2q22.1' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 7(2Q22.1) MUTATED 46 17
DEL PEAK 7(2Q22.1) WILD-TYPE 524 455

Figure S216.  Get High-res Image Gene #39: 'del_2q22.1' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_2q22.1' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.143 (Wilcoxon-test), Q value = 0.25

Table S217.  Gene #39: 'del_2q22.1' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
DEL PEAK 7(2Q22.1) MUTATED 44 79.1 (13.3)
DEL PEAK 7(2Q22.1) WILD-TYPE 645 81.7 (14.7)

Figure S217.  Get High-res Image Gene #39: 'del_2q22.1' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_2q22.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0161 (Fisher's exact test), Q value = 0.038

Table S218.  Gene #39: 'del_2q22.1' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 7(2Q22.1) MUTATED 9 4 3 5 2 40
DEL PEAK 7(2Q22.1) WILD-TYPE 167 23 115 173 16 485

Figure S218.  Get High-res Image Gene #39: 'del_2q22.1' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_2q37.1' versus 'YEARS_TO_BIRTH'

P value = 0.0562 (Wilcoxon-test), Q value = 0.11

Table S219.  Gene #40: 'del_2q37.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 8(2Q37.1) MUTATED 113 48.5 (17.2)
DEL PEAK 8(2Q37.1) WILD-TYPE 928 51.4 (15.6)

Figure S219.  Get High-res Image Gene #40: 'del_2q37.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_2q37.1' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 0.133 (Fisher's exact test), Q value = 0.23

Table S220.  Gene #40: 'del_2q37.1' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 8(2Q37.1) MUTATED 54 59
DEL PEAK 8(2Q37.1) WILD-TYPE 516 413

Figure S220.  Get High-res Image Gene #40: 'del_2q37.1' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_2q37.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.0128 (Fisher's exact test), Q value = 0.031

Table S221.  Gene #40: 'del_2q37.1' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 8(2Q37.1) MUTATED 30 2 18 11 1 51
DEL PEAK 8(2Q37.1) WILD-TYPE 146 25 100 167 17 474

Figure S221.  Get High-res Image Gene #40: 'del_2q37.1' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_3p21.31' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.116 (Wilcoxon-test), Q value = 0.21

Table S222.  Gene #41: 'del_3p21.31' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
DEL PEAK 9(3P21.31) MUTATED 69 79.3 (13.9)
DEL PEAK 9(3P21.31) WILD-TYPE 620 81.8 (14.6)

Figure S222.  Get High-res Image Gene #41: 'del_3p21.31' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_3p21.31' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.0758 (Fisher's exact test), Q value = 0.14

Table S223.  Gene #41: 'del_3p21.31' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 9(3P21.31) MUTATED 55 47
DEL PEAK 9(3P21.31) WILD-TYPE 419 521

Figure S223.  Get High-res Image Gene #41: 'del_3p21.31' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_3p21.31' versus 'ETHNICITY'

P value = 0.0236 (Fisher's exact test), Q value = 0.053

Table S224.  Gene #41: 'del_3p21.31' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 30 891
DEL PEAK 9(3P21.31) MUTATED 7 85
DEL PEAK 9(3P21.31) WILD-TYPE 23 806

Figure S224.  Get High-res Image Gene #41: 'del_3p21.31' versus Clinical Feature #9: 'ETHNICITY'

'del_3q13.31' versus 'Time to Death'

P value = 0.0399 (logrank test), Q value = 0.084

Table S225.  Gene #42: 'del_3q13.31' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 10(3Q13.31) MUTATED 91 61 0.1 - 117.4 (14.7)
DEL PEAK 10(3Q13.31) WILD-TYPE 948 498 0.0 - 211.2 (14.8)

Figure S225.  Get High-res Image Gene #42: 'del_3q13.31' versus Clinical Feature #1: 'Time to Death'

'del_3q13.31' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.0366 (Fisher's exact test), Q value = 0.078

Table S226.  Gene #42: 'del_3q13.31' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 10(3Q13.31) MUTATED 51 40
DEL PEAK 10(3Q13.31) WILD-TYPE 423 528

Figure S226.  Get High-res Image Gene #42: 'del_3q13.31' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_3q29' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 0.135 (Fisher's exact test), Q value = 0.23

Table S227.  Gene #43: 'del_3q29' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 11(3Q29) MUTATED 61 37
DEL PEAK 11(3Q29) WILD-TYPE 509 435

Figure S227.  Get High-res Image Gene #43: 'del_3q29' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_3q29' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.0547 (Fisher's exact test), Q value = 0.11

Table S228.  Gene #43: 'del_3q29' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 11(3Q29) MUTATED 54 44
DEL PEAK 11(3Q29) WILD-TYPE 420 524

Figure S228.  Get High-res Image Gene #43: 'del_3q29' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_4q34.3' versus 'Time to Death'

P value = 0.00026 (logrank test), Q value = 0.00085

Table S229.  Gene #44: 'del_4q34.3' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 12(4Q34.3) MUTATED 216 97 0.1 - 156.2 (17.9)
DEL PEAK 12(4Q34.3) WILD-TYPE 823 462 0.0 - 211.2 (14.1)

Figure S229.  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 = 0.0131 (Wilcoxon-test), Q value = 0.032

Table S230.  Gene #44: 'del_4q34.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 12(4Q34.3) MUTATED 216 48.8 (14.6)
DEL PEAK 12(4Q34.3) WILD-TYPE 825 51.7 (16.1)

Figure S230.  Get High-res Image Gene #44: 'del_4q34.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_4q34.3' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 3.31e-05 (Fisher's exact test), Q value = 0.00013

Table S231.  Gene #44: 'del_4q34.3' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 12(4Q34.3) MUTATED 91 125
DEL PEAK 12(4Q34.3) WILD-TYPE 479 347

Figure S231.  Get High-res Image Gene #44: 'del_4q34.3' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_4q34.3' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.136 (Wilcoxon-test), Q value = 0.23

Table S232.  Gene #44: 'del_4q34.3' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
DEL PEAK 12(4Q34.3) MUTATED 149 82.5 (15.4)
DEL PEAK 12(4Q34.3) WILD-TYPE 540 81.3 (14.4)

Figure S232.  Get High-res Image Gene #44: 'del_4q34.3' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_4q34.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.00264 (Fisher's exact test), Q value = 0.0074

Table S233.  Gene #44: 'del_4q34.3' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 12(4Q34.3) MUTATED 45 4 30 50 2 85
DEL PEAK 12(4Q34.3) WILD-TYPE 131 23 88 128 16 440

Figure S233.  Get High-res Image Gene #44: 'del_4q34.3' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_5p15.33' versus 'Time to Death'

P value = 0.123 (logrank test), Q value = 0.22

Table S234.  Gene #45: 'del_5p15.33' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 13(5P15.33) MUTATED 101 52 0.1 - 115.9 (18.0)
DEL PEAK 13(5P15.33) WILD-TYPE 938 507 0.0 - 211.2 (14.4)

Figure S234.  Get High-res Image Gene #45: 'del_5p15.33' versus Clinical Feature #1: 'Time to Death'

'del_5p15.33' versus 'HISTOLOGICAL_TYPE'

P value = 0.0329 (Fisher's exact test), Q value = 0.071

Table S235.  Gene #45: 'del_5p15.33' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 13(5P15.33) MUTATED 19 2 19 8 1 52
DEL PEAK 13(5P15.33) WILD-TYPE 157 25 99 170 17 473

Figure S235.  Get High-res Image Gene #45: 'del_5p15.33' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_5p15.33' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.0118 (Fisher's exact test), Q value = 0.029

Table S236.  Gene #45: 'del_5p15.33' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 13(5P15.33) MUTATED 58 43
DEL PEAK 13(5P15.33) WILD-TYPE 416 525

Figure S236.  Get High-res Image Gene #45: 'del_5p15.33' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_5q34' versus 'YEARS_TO_BIRTH'

P value = 0.0691 (Wilcoxon-test), Q value = 0.13

Table S237.  Gene #46: 'del_5q34' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 14(5Q34) MUTATED 127 48.5 (17.9)
DEL PEAK 14(5Q34) WILD-TYPE 914 51.5 (15.5)

Figure S237.  Get High-res Image Gene #46: 'del_5q34' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_5q34' versus 'HISTOLOGICAL_TYPE'

P value = 0.00015 (Fisher's exact test), Q value = 0.00052

Table S238.  Gene #46: 'del_5q34' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 14(5Q34) MUTATED 38 5 12 9 1 62
DEL PEAK 14(5Q34) WILD-TYPE 138 22 106 169 17 463

Figure S238.  Get High-res Image Gene #46: 'del_5q34' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_6p25.3' versus 'Time to Death'

P value = 2.49e-09 (logrank test), Q value = 1.7e-08

Table S239.  Gene #47: 'del_6p25.3' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 15(6P25.3) MUTATED 131 92 0.1 - 94.5 (10.6)
DEL PEAK 15(6P25.3) WILD-TYPE 908 467 0.0 - 211.2 (15.0)

Figure S239.  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 = 0.0313 (Wilcoxon-test), Q value = 0.068

Table S240.  Gene #47: 'del_6p25.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 15(6P25.3) MUTATED 132 53.8 (15.8)
DEL PEAK 15(6P25.3) WILD-TYPE 909 50.7 (15.8)

Figure S240.  Get High-res Image Gene #47: 'del_6p25.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_6p25.3' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 0.00362 (Fisher's exact test), Q value = 0.01

Table S241.  Gene #47: 'del_6p25.3' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 15(6P25.3) MUTATED 88 44
DEL PEAK 15(6P25.3) WILD-TYPE 482 428

Figure S241.  Get High-res Image Gene #47: 'del_6p25.3' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_6p25.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.0423 (Fisher's exact test), Q value = 0.088

Table S242.  Gene #47: 'del_6p25.3' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 15(6P25.3) MUTATED 21 3 9 14 2 83
DEL PEAK 15(6P25.3) WILD-TYPE 155 24 109 164 16 442

Figure S242.  Get High-res Image Gene #47: 'del_6p25.3' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_6q22.31' versus 'Time to Death'

P value = 4.58e-11 (logrank test), Q value = 3.8e-10

Table S243.  Gene #48: 'del_6q22.31' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 16(6Q22.31) MUTATED 225 157 0.1 - 117.4 (12.6)
DEL PEAK 16(6Q22.31) WILD-TYPE 814 402 0.0 - 211.2 (15.2)

Figure S243.  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 = 0.000104 (Wilcoxon-test), Q value = 0.00037

Table S244.  Gene #48: 'del_6q22.31' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 16(6Q22.31) MUTATED 226 54.8 (15.5)
DEL PEAK 16(6Q22.31) WILD-TYPE 815 50.1 (15.8)

Figure S244.  Get High-res Image Gene #48: 'del_6q22.31' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_6q22.31' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 3.8e-07 (Fisher's exact test), Q value = 2.2e-06

Table S245.  Gene #48: 'del_6q22.31' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 16(6Q22.31) MUTATED 157 69
DEL PEAK 16(6Q22.31) WILD-TYPE 413 403

Figure S245.  Get High-res Image Gene #48: 'del_6q22.31' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_6q22.31' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0473 (Wilcoxon-test), Q value = 0.098

Table S246.  Gene #48: 'del_6q22.31' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
DEL PEAK 16(6Q22.31) MUTATED 162 79.9 (14.7)
DEL PEAK 16(6Q22.31) WILD-TYPE 527 82.0 (14.5)

Figure S246.  Get High-res Image Gene #48: 'del_6q22.31' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_6q22.31' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S247.  Gene #48: 'del_6q22.31' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 16(6Q22.31) MUTATED 44 6 11 14 7 144
DEL PEAK 16(6Q22.31) WILD-TYPE 132 21 107 164 11 381

Figure S247.  Get High-res Image Gene #48: 'del_6q22.31' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_6q22.31' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.00412 (Fisher's exact test), Q value = 0.011

Table S248.  Gene #48: 'del_6q22.31' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 16(6Q22.31) MUTATED 122 104
DEL PEAK 16(6Q22.31) WILD-TYPE 352 464

Figure S248.  Get High-res Image Gene #48: 'del_6q22.31' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_6q22.31' versus 'RACE'

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

Table S249.  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 64 922
DEL PEAK 16(6Q22.31) MUTATED 1 6 18 194
DEL PEAK 16(6Q22.31) WILD-TYPE 0 15 46 728

Figure S249.  Get High-res Image Gene #48: 'del_6q22.31' versus Clinical Feature #8: 'RACE'

'del_6q26' versus 'Time to Death'

P value = 4.58e-11 (logrank test), Q value = 3.8e-10

Table S250.  Gene #49: 'del_6q26' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 17(6Q26) MUTATED 247 171 0.0 - 130.8 (12.9)
DEL PEAK 17(6Q26) WILD-TYPE 792 388 0.1 - 211.2 (15.1)

Figure S250.  Get High-res Image Gene #49: 'del_6q26' versus Clinical Feature #1: 'Time to Death'

'del_6q26' versus 'YEARS_TO_BIRTH'

P value = 0.000269 (Wilcoxon-test), Q value = 0.00088

Table S251.  Gene #49: 'del_6q26' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 17(6Q26) MUTATED 248 54.2 (15.0)
DEL PEAK 17(6Q26) WILD-TYPE 793 50.1 (16.0)

Figure S251.  Get High-res Image Gene #49: 'del_6q26' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_6q26' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 4.05e-10 (Fisher's exact test), Q value = 3.1e-09

Table S252.  Gene #49: 'del_6q26' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 17(6Q26) MUTATED 178 70
DEL PEAK 17(6Q26) WILD-TYPE 392 402

Figure S252.  Get High-res Image Gene #49: 'del_6q26' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_6q26' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00393 (Wilcoxon-test), Q value = 0.011

Table S253.  Gene #49: 'del_6q26' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
DEL PEAK 17(6Q26) MUTATED 177 79.4 (14.2)
DEL PEAK 17(6Q26) WILD-TYPE 512 82.3 (14.7)

Figure S253.  Get High-res Image Gene #49: 'del_6q26' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_6q26' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S254.  Gene #49: 'del_6q26' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 17(6Q26) MUTATED 42 7 12 16 9 162
DEL PEAK 17(6Q26) WILD-TYPE 134 20 106 162 9 363

Figure S254.  Get High-res Image Gene #49: 'del_6q26' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_6q26' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.000257 (Fisher's exact test), Q value = 0.00085

Table S255.  Gene #49: 'del_6q26' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 17(6Q26) MUTATED 138 110
DEL PEAK 17(6Q26) WILD-TYPE 336 458

Figure S255.  Get High-res Image Gene #49: 'del_6q26' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_8p23.2' versus 'Time to Death'

P value = 1e-04 (logrank test), Q value = 0.00036

Table S256.  Gene #50: 'del_8p23.2' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 18(8P23.2) MUTATED 85 58 0.1 - 120.6 (12.1)
DEL PEAK 18(8P23.2) WILD-TYPE 954 501 0.0 - 211.2 (14.9)

Figure S256.  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 = 9.73e-05 (Wilcoxon-test), Q value = 0.00035

Table S257.  Gene #50: 'del_8p23.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 18(8P23.2) MUTATED 86 57.3 (14.6)
DEL PEAK 18(8P23.2) WILD-TYPE 955 50.5 (15.8)

Figure S257.  Get High-res Image Gene #50: 'del_8p23.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_8p23.2' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 1.36e-05 (Fisher's exact test), Q value = 5.4e-05

Table S258.  Gene #50: 'del_8p23.2' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 18(8P23.2) MUTATED 66 20
DEL PEAK 18(8P23.2) WILD-TYPE 504 452

Figure S258.  Get High-res Image Gene #50: 'del_8p23.2' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_8p23.2' versus 'HISTOLOGICAL_TYPE'

P value = 6e-05 (Fisher's exact test), Q value = 0.00022

Table S259.  Gene #50: 'del_8p23.2' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 18(8P23.2) MUTATED 13 3 4 3 1 62
DEL PEAK 18(8P23.2) WILD-TYPE 163 24 114 175 17 463

Figure S259.  Get High-res Image Gene #50: 'del_8p23.2' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_8p23.2' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.00214 (Fisher's exact test), Q value = 0.0061

Table S260.  Gene #50: 'del_8p23.2' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 18(8P23.2) MUTATED 53 33
DEL PEAK 18(8P23.2) WILD-TYPE 421 535

Figure S260.  Get High-res Image Gene #50: 'del_8p23.2' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_8p23.2' versus 'RACE'

P value = 0.0189 (Fisher's exact test), Q value = 0.044

Table S261.  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 64 922
DEL PEAK 18(8P23.2) MUTATED 0 6 5 71
DEL PEAK 18(8P23.2) WILD-TYPE 1 15 59 851

Figure S261.  Get High-res Image Gene #50: 'del_8p23.2' versus Clinical Feature #8: 'RACE'

'del_8q24.3' versus 'Time to Death'

P value = 0.034 (logrank test), Q value = 0.073

Table S262.  Gene #51: 'del_8q24.3' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 19(8Q24.3) MUTATED 75 46 0.2 - 82.6 (14.2)
DEL PEAK 19(8Q24.3) WILD-TYPE 964 513 0.0 - 211.2 (14.8)

Figure S262.  Get High-res Image Gene #51: 'del_8q24.3' versus Clinical Feature #1: 'Time to Death'

'del_8q24.3' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 0.0163 (Fisher's exact test), Q value = 0.038

Table S263.  Gene #51: 'del_8q24.3' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 19(8Q24.3) MUTATED 51 24
DEL PEAK 19(8Q24.3) WILD-TYPE 519 448

Figure S263.  Get High-res Image Gene #51: 'del_8q24.3' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_8q24.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.0547 (Fisher's exact test), Q value = 0.11

Table S264.  Gene #51: 'del_8q24.3' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 19(8Q24.3) MUTATED 10 1 9 5 2 48
DEL PEAK 19(8Q24.3) WILD-TYPE 166 26 109 173 16 477

Figure S264.  Get High-res Image Gene #51: 'del_8q24.3' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_8q24.3' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.0111 (Fisher's exact test), Q value = 0.028

Table S265.  Gene #51: 'del_8q24.3' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 19(8Q24.3) MUTATED 45 30
DEL PEAK 19(8Q24.3) WILD-TYPE 429 538

Figure S265.  Get High-res Image Gene #51: 'del_8q24.3' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_9p21.3' versus 'Time to Death'

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

Table S266.  Gene #52: 'del_9p21.3' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 20(9P21.3) MUTATED 572 393 0.1 - 169.8 (12.6)
DEL PEAK 20(9P21.3) WILD-TYPE 467 166 0.0 - 211.2 (16.9)

Figure S266.  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 = 3.21e-27 (Wilcoxon-test), Q value = 5.6e-26

Table S267.  Gene #52: 'del_9p21.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 20(9P21.3) MUTATED 573 55.7 (14.9)
DEL PEAK 20(9P21.3) WILD-TYPE 468 45.4 (15.1)

Figure S267.  Get High-res Image Gene #52: 'del_9p21.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_9p21.3' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 1.68e-36 (Fisher's exact test), Q value = 3.3e-35

Table S268.  Gene #52: 'del_9p21.3' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 20(9P21.3) MUTATED 414 160
DEL PEAK 20(9P21.3) WILD-TYPE 156 312

Figure S268.  Get High-res Image Gene #52: 'del_9p21.3' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_9p21.3' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 1.41e-09 (Wilcoxon-test), Q value = 9.9e-09

Table S269.  Gene #52: 'del_9p21.3' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
DEL PEAK 20(9P21.3) MUTATED 395 78.7 (15.4)
DEL PEAK 20(9P21.3) WILD-TYPE 294 85.3 (12.5)

Figure S269.  Get High-res Image Gene #52: 'del_9p21.3' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_9p21.3' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S270.  Gene #52: 'del_9p21.3' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 20(9P21.3) MUTATED 76 20 35 49 15 379
DEL PEAK 20(9P21.3) WILD-TYPE 100 7 83 129 3 146

Figure S270.  Get High-res Image Gene #52: 'del_9p21.3' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_9p21.3' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 4.39e-11 (Fisher's exact test), Q value = 3.8e-10

Table S271.  Gene #52: 'del_9p21.3' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 20(9P21.3) MUTATED 314 260
DEL PEAK 20(9P21.3) WILD-TYPE 160 308

Figure S271.  Get High-res Image Gene #52: 'del_9p21.3' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_9p21.3' versus 'RACE'

P value = 0.0621 (Fisher's exact test), Q value = 0.12

Table S272.  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 64 922
DEL PEAK 20(9P21.3) MUTATED 0 12 44 498
DEL PEAK 20(9P21.3) WILD-TYPE 1 9 20 424

Figure S272.  Get High-res Image Gene #52: 'del_9p21.3' versus Clinical Feature #8: 'RACE'

'del_10p15.3' versus 'Time to Death'

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

Table S273.  Gene #53: 'del_10p15.3' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 21(10P15.3) MUTATED 537 423 0.1 - 134.3 (12.0)
DEL PEAK 21(10P15.3) WILD-TYPE 502 136 0.0 - 211.2 (18.6)

Figure S273.  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 = 1.35e-66 (Wilcoxon-test), Q value = 3.8e-65

Table S274.  Gene #53: 'del_10p15.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 21(10P15.3) MUTATED 538 59.2 (12.5)
DEL PEAK 21(10P15.3) WILD-TYPE 503 42.5 (14.4)

Figure S274.  Get High-res Image Gene #53: 'del_10p15.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_10p15.3' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 8.94e-106 (Fisher's exact test), Q value = 3.5e-104

Table S275.  Gene #53: 'del_10p15.3' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 21(10P15.3) MUTATED 463 75
DEL PEAK 21(10P15.3) WILD-TYPE 107 397

Figure S275.  Get High-res Image Gene #53: 'del_10p15.3' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_10p15.3' versus 'GENDER'

P value = 0.131 (Fisher's exact test), Q value = 0.23

Table S276.  Gene #53: 'del_10p15.3' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 430 612
DEL PEAK 21(10P15.3) MUTATED 210 328
DEL PEAK 21(10P15.3) WILD-TYPE 220 284

Figure S276.  Get High-res Image Gene #53: 'del_10p15.3' versus Clinical Feature #4: 'GENDER'

'del_10p15.3' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 1.08e-17 (Wilcoxon-test), Q value = 1.5e-16

Table S277.  Gene #53: 'del_10p15.3' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
DEL PEAK 21(10P15.3) MUTATED 388 77.8 (15.0)
DEL PEAK 21(10P15.3) WILD-TYPE 301 86.3 (12.5)

Figure S277.  Get High-res Image Gene #53: 'del_10p15.3' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_10p15.3' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S278.  Gene #53: 'del_10p15.3' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 21(10P15.3) MUTATED 45 19 13 17 11 433
DEL PEAK 21(10P15.3) WILD-TYPE 131 8 105 161 7 92

Figure S278.  Get High-res Image Gene #53: 'del_10p15.3' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_10p15.3' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 5.3e-21 (Fisher's exact test), Q value = 7.9e-20

Table S279.  Gene #53: 'del_10p15.3' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 21(10P15.3) MUTATED 320 218
DEL PEAK 21(10P15.3) WILD-TYPE 154 350

Figure S279.  Get High-res Image Gene #53: 'del_10p15.3' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_10p15.3' versus 'RACE'

P value = 0.00572 (Fisher's exact test), Q value = 0.015

Table S280.  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 64 922
DEL PEAK 21(10P15.3) MUTATED 1 9 45 462
DEL PEAK 21(10P15.3) WILD-TYPE 0 12 19 460

Figure S280.  Get High-res Image Gene #53: 'del_10p15.3' versus Clinical Feature #8: 'RACE'

'del_10p15.3' versus 'ETHNICITY'

P value = 0.0937 (Fisher's exact test), Q value = 0.17

Table S281.  Gene #53: 'del_10p15.3' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 30 891
DEL PEAK 21(10P15.3) MUTATED 10 446
DEL PEAK 21(10P15.3) WILD-TYPE 20 445

Figure S281.  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 S282.  Gene #54: 'del_10p13' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 22(10P13) MUTATED 537 424 0.1 - 134.3 (12.1)
DEL PEAK 22(10P13) WILD-TYPE 502 135 0.0 - 211.2 (18.6)

Figure S282.  Get High-res Image Gene #54: 'del_10p13' versus Clinical Feature #1: 'Time to Death'

'del_10p13' versus 'YEARS_TO_BIRTH'

P value = 9.43e-67 (Wilcoxon-test), Q value = 2.8e-65

Table S283.  Gene #54: 'del_10p13' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 22(10P13) MUTATED 538 59.2 (12.3)
DEL PEAK 22(10P13) WILD-TYPE 503 42.5 (14.5)

Figure S283.  Get High-res Image Gene #54: 'del_10p13' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_10p13' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 3.83e-107 (Fisher's exact test), Q value = 1.6e-105

Table S284.  Gene #54: 'del_10p13' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 22(10P13) MUTATED 464 74
DEL PEAK 22(10P13) WILD-TYPE 106 398

Figure S284.  Get High-res Image Gene #54: 'del_10p13' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_10p13' versus 'GENDER'

P value = 0.0593 (Fisher's exact test), Q value = 0.12

Table S285.  Gene #54: 'del_10p13' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 430 612
DEL PEAK 22(10P13) MUTATED 207 331
DEL PEAK 22(10P13) WILD-TYPE 223 281

Figure S285.  Get High-res Image Gene #54: 'del_10p13' versus Clinical Feature #4: 'GENDER'

'del_10p13' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 4.63e-16 (Wilcoxon-test), Q value = 6e-15

Table S286.  Gene #54: 'del_10p13' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
DEL PEAK 22(10P13) MUTATED 389 78.0 (15.0)
DEL PEAK 22(10P13) WILD-TYPE 300 86.1 (12.6)

Figure S286.  Get High-res Image Gene #54: 'del_10p13' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_10p13' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S287.  Gene #54: 'del_10p13' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 22(10P13) MUTATED 45 18 13 16 11 435
DEL PEAK 22(10P13) WILD-TYPE 131 9 105 162 7 90

Figure S287.  Get High-res Image Gene #54: 'del_10p13' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_10p13' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 3.65e-23 (Fisher's exact test), Q value = 5.9e-22

Table S288.  Gene #54: 'del_10p13' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 22(10P13) MUTATED 324 214
DEL PEAK 22(10P13) WILD-TYPE 150 354

Figure S288.  Get High-res Image Gene #54: 'del_10p13' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_10p13' versus 'RACE'

P value = 0.0121 (Fisher's exact test), Q value = 0.03

Table S289.  Gene #54: 'del_10p13' versus Clinical Feature #8: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 1 21 64 922
DEL PEAK 22(10P13) MUTATED 1 9 44 463
DEL PEAK 22(10P13) WILD-TYPE 0 12 20 459

Figure S289.  Get High-res Image Gene #54: 'del_10p13' versus Clinical Feature #8: 'RACE'

'del_10p13' versus 'ETHNICITY'

P value = 0.0937 (Fisher's exact test), Q value = 0.17

Table S290.  Gene #54: 'del_10p13' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 30 891
DEL PEAK 22(10P13) MUTATED 10 446
DEL PEAK 22(10P13) WILD-TYPE 20 445

Figure S290.  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 S291.  Gene #55: 'del_10p11.23' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 23(10P11.23) MUTATED 541 427 0.1 - 134.3 (12.1)
DEL PEAK 23(10P11.23) WILD-TYPE 498 132 0.0 - 211.2 (18.7)

Figure S291.  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 = 4.73e-70 (Wilcoxon-test), Q value = 1.5e-68

Table S292.  Gene #55: 'del_10p11.23' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 23(10P11.23) MUTATED 542 59.3 (12.3)
DEL PEAK 23(10P11.23) WILD-TYPE 499 42.2 (14.3)

Figure S292.  Get High-res Image Gene #55: 'del_10p11.23' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_10p11.23' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 4.04e-111 (Fisher's exact test), Q value = 1.8e-109

Table S293.  Gene #55: 'del_10p11.23' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 23(10P11.23) MUTATED 469 73
DEL PEAK 23(10P11.23) WILD-TYPE 101 399

Figure S293.  Get High-res Image Gene #55: 'del_10p11.23' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_10p11.23' versus 'GENDER'

P value = 0.0893 (Fisher's exact test), Q value = 0.17

Table S294.  Gene #55: 'del_10p11.23' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 430 612
DEL PEAK 23(10P11.23) MUTATED 210 332
DEL PEAK 23(10P11.23) WILD-TYPE 220 280

Figure S294.  Get High-res Image Gene #55: 'del_10p11.23' versus Clinical Feature #4: 'GENDER'

'del_10p11.23' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 4.03e-19 (Wilcoxon-test), Q value = 5.9e-18

Table S295.  Gene #55: 'del_10p11.23' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
DEL PEAK 23(10P11.23) MUTATED 393 77.7 (15.0)
DEL PEAK 23(10P11.23) WILD-TYPE 296 86.7 (12.2)

Figure S295.  Get High-res Image Gene #55: 'del_10p11.23' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_10p11.23' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S296.  Gene #55: 'del_10p11.23' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 23(10P11.23) MUTATED 45 19 12 16 10 440
DEL PEAK 23(10P11.23) WILD-TYPE 131 8 106 162 8 85

Figure S296.  Get High-res Image Gene #55: 'del_10p11.23' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_10p11.23' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 2.76e-22 (Fisher's exact test), Q value = 4.3e-21

Table S297.  Gene #55: 'del_10p11.23' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 23(10P11.23) MUTATED 324 218
DEL PEAK 23(10P11.23) WILD-TYPE 150 350

Figure S297.  Get High-res Image Gene #55: 'del_10p11.23' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_10p11.23' versus 'RACE'

P value = 0.00101 (Fisher's exact test), Q value = 0.0031

Table S298.  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 64 922
DEL PEAK 23(10P11.23) MUTATED 1 9 47 463
DEL PEAK 23(10P11.23) WILD-TYPE 0 12 17 459

Figure S298.  Get High-res Image Gene #55: 'del_10p11.23' versus Clinical Feature #8: 'RACE'

'del_10p11.23' versus 'ETHNICITY'

P value = 0.0661 (Fisher's exact test), Q value = 0.13

Table S299.  Gene #55: 'del_10p11.23' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 30 891
DEL PEAK 23(10P11.23) MUTATED 10 451
DEL PEAK 23(10P11.23) WILD-TYPE 20 440

Figure S299.  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 S300.  Gene #56: 'del_10q23.31' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 24(10Q23.31) MUTATED 608 466 0.1 - 156.2 (12.2)
DEL PEAK 24(10Q23.31) WILD-TYPE 431 93 0.0 - 211.2 (18.8)

Figure S300.  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 = 6.52e-60 (Wilcoxon-test), Q value = 1.7e-58

Table S301.  Gene #56: 'del_10q23.31' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 24(10Q23.31) MUTATED 609 57.7 (13.6)
DEL PEAK 24(10Q23.31) WILD-TYPE 432 41.7 (13.8)

Figure S301.  Get High-res Image Gene #56: 'del_10q23.31' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_10q23.31' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 7.56e-116 (Fisher's exact test), Q value = 3.6e-114

Table S302.  Gene #56: 'del_10q23.31' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 24(10Q23.31) MUTATED 507 102
DEL PEAK 24(10Q23.31) WILD-TYPE 63 370

Figure S302.  Get High-res Image Gene #56: 'del_10q23.31' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_10q23.31' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 1.4e-18 (Wilcoxon-test), Q value = 2e-17

Table S303.  Gene #56: 'del_10q23.31' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
DEL PEAK 24(10Q23.31) MUTATED 430 78.1 (15.0)
DEL PEAK 24(10Q23.31) WILD-TYPE 259 87.2 (11.9)

Figure S303.  Get High-res Image Gene #56: 'del_10q23.31' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_10q23.31' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S304.  Gene #56: 'del_10q23.31' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 24(10Q23.31) MUTATED 60 22 17 25 13 472
DEL PEAK 24(10Q23.31) WILD-TYPE 116 5 101 153 5 53

Figure S304.  Get High-res Image Gene #56: 'del_10q23.31' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_10q23.31' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 3.56e-26 (Fisher's exact test), Q value = 5.9e-25

Table S305.  Gene #56: 'del_10q23.31' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 24(10Q23.31) MUTATED 360 249
DEL PEAK 24(10Q23.31) WILD-TYPE 114 319

Figure S305.  Get High-res Image Gene #56: 'del_10q23.31' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_10q23.31' versus 'RACE'

P value = 0.00272 (Fisher's exact test), Q value = 0.0076

Table S306.  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 64 922
DEL PEAK 24(10Q23.31) MUTATED 1 11 50 525
DEL PEAK 24(10Q23.31) WILD-TYPE 0 10 14 397

Figure S306.  Get High-res Image Gene #56: 'del_10q23.31' versus Clinical Feature #8: 'RACE'

'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 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 25(10Q26.3) MUTATED 640 471 0.1 - 172.8 (12.5)
DEL PEAK 25(10Q26.3) WILD-TYPE 399 88 0.0 - 211.2 (18.7)

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 = 5.03e-48 (Wilcoxon-test), Q value = 1.2e-46

Table S308.  Gene #57: 'del_10q26.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 25(10Q26.3) MUTATED 642 56.6 (14.2)
DEL PEAK 25(10Q26.3) WILD-TYPE 399 42.2 (14.1)

Figure S308.  Get High-res Image Gene #57: 'del_10q26.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_10q26.3' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 1.13e-95 (Fisher's exact test), Q value = 4e-94

Table S309.  Gene #57: 'del_10q26.3' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 25(10Q26.3) MUTATED 508 134
DEL PEAK 25(10Q26.3) WILD-TYPE 62 338

Figure S309.  Get High-res Image Gene #57: 'del_10q26.3' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_10q26.3' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 1.14e-15 (Wilcoxon-test), Q value = 1.4e-14

Table S310.  Gene #57: 'del_10q26.3' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
DEL PEAK 25(10Q26.3) MUTATED 453 78.6 (15.2)
DEL PEAK 25(10Q26.3) WILD-TYPE 236 87.2 (11.4)

Figure S310.  Get High-res Image Gene #57: 'del_10q26.3' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_10q26.3' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S311.  Gene #57: 'del_10q26.3' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 25(10Q26.3) MUTATED 72 22 28 34 14 472
DEL PEAK 25(10Q26.3) WILD-TYPE 104 5 90 144 4 53

Figure S311.  Get High-res Image Gene #57: 'del_10q26.3' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_10q26.3' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 9.66e-23 (Fisher's exact test), Q value = 1.5e-21

Table S312.  Gene #57: 'del_10q26.3' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 25(10Q26.3) MUTATED 368 274
DEL PEAK 25(10Q26.3) WILD-TYPE 106 294

Figure S312.  Get High-res Image Gene #57: 'del_10q26.3' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_10q26.3' versus 'RACE'

P value = 0.00208 (Fisher's exact test), Q value = 0.006

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 64 922
DEL PEAK 25(10Q26.3) MUTATED 1 11 52 556
DEL PEAK 25(10Q26.3) WILD-TYPE 0 10 12 366

Figure S313.  Get High-res Image Gene #57: 'del_10q26.3' versus Clinical Feature #8: 'RACE'

'del_11p15.5' versus 'YEARS_TO_BIRTH'

P value = 0.00157 (Wilcoxon-test), Q value = 0.0047

Table S314.  Gene #58: 'del_11p15.5' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 26(11P15.5) MUTATED 223 48.2 (16.0)
DEL PEAK 26(11P15.5) WILD-TYPE 818 51.9 (15.7)

Figure S314.  Get High-res Image Gene #58: 'del_11p15.5' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_11p15.5' versus 'GENDER'

P value = 0.055 (Fisher's exact test), Q value = 0.11

Table S315.  Gene #58: 'del_11p15.5' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 430 612
DEL PEAK 26(11P15.5) MUTATED 105 118
DEL PEAK 26(11P15.5) WILD-TYPE 325 494

Figure S315.  Get High-res Image Gene #58: 'del_11p15.5' versus Clinical Feature #4: 'GENDER'

'del_11p15.5' versus 'HISTOLOGICAL_TYPE'

P value = 0.00012 (Fisher's exact test), Q value = 0.00042

Table S316.  Gene #58: 'del_11p15.5' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 26(11P15.5) MUTATED 51 6 26 17 6 117
DEL PEAK 26(11P15.5) WILD-TYPE 125 21 92 161 12 408

Figure S316.  Get High-res Image Gene #58: 'del_11p15.5' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_11p15.1' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 0.0646 (Fisher's exact test), Q value = 0.13

Table S317.  Gene #59: 'del_11p15.1' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 27(11P15.1) MUTATED 104 66
DEL PEAK 27(11P15.1) WILD-TYPE 466 406

Figure S317.  Get High-res Image Gene #59: 'del_11p15.1' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_11p15.1' versus 'GENDER'

P value = 0.0331 (Fisher's exact test), Q value = 0.072

Table S318.  Gene #59: 'del_11p15.1' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 430 612
DEL PEAK 27(11P15.1) MUTATED 83 87
DEL PEAK 27(11P15.1) WILD-TYPE 347 525

Figure S318.  Get High-res Image Gene #59: 'del_11p15.1' versus Clinical Feature #4: 'GENDER'

'del_11p15.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.00159 (Fisher's exact test), Q value = 0.0047

Table S319.  Gene #59: 'del_11p15.1' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 27(11P15.1) MUTATED 38 5 14 14 5 94
DEL PEAK 27(11P15.1) WILD-TYPE 138 22 104 164 13 431

Figure S319.  Get High-res Image Gene #59: 'del_11p15.1' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_11p11.2' versus 'Time to Death'

P value = 0.0142 (logrank test), Q value = 0.034

Table S320.  Gene #60: 'del_11p11.2' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 28(11P11.2) MUTATED 154 104 0.2 - 117.4 (14.9)
DEL PEAK 28(11P11.2) WILD-TYPE 885 455 0.0 - 211.2 (14.7)

Figure S320.  Get High-res Image Gene #60: 'del_11p11.2' versus Clinical Feature #1: 'Time to Death'

'del_11p11.2' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 0.000304 (Fisher's exact test), Q value = 0.00099

Table S321.  Gene #60: 'del_11p11.2' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 28(11P11.2) MUTATED 105 49
DEL PEAK 28(11P11.2) WILD-TYPE 465 423

Figure S321.  Get High-res Image Gene #60: 'del_11p11.2' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_11p11.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.00018 (Fisher's exact test), Q value = 6e-04

Table S322.  Gene #60: 'del_11p11.2' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 28(11P11.2) MUTATED 27 5 11 11 6 94
DEL PEAK 28(11P11.2) WILD-TYPE 149 22 107 167 12 431

Figure S322.  Get High-res Image Gene #60: 'del_11p11.2' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_11p11.2' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.0654 (Fisher's exact test), Q value = 0.13

Table S323.  Gene #60: 'del_11p11.2' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 28(11P11.2) MUTATED 81 73
DEL PEAK 28(11P11.2) WILD-TYPE 393 495

Figure S323.  Get High-res Image Gene #60: 'del_11p11.2' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_12p13.1' versus 'Time to Death'

P value = 0.11 (logrank test), Q value = 0.2

Table S324.  Gene #61: 'del_12p13.1' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 29(12P13.1) MUTATED 105 65 0.1 - 92.7 (14.1)
DEL PEAK 29(12P13.1) WILD-TYPE 934 494 0.0 - 211.2 (14.8)

Figure S324.  Get High-res Image Gene #61: 'del_12p13.1' versus Clinical Feature #1: 'Time to Death'

'del_12p13.1' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 0.00744 (Fisher's exact test), Q value = 0.019

Table S325.  Gene #61: 'del_12p13.1' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 29(12P13.1) MUTATED 71 35
DEL PEAK 29(12P13.1) WILD-TYPE 499 437

Figure S325.  Get High-res Image Gene #61: 'del_12p13.1' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_12p13.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.00598 (Fisher's exact test), Q value = 0.016

Table S326.  Gene #61: 'del_12p13.1' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 29(12P13.1) MUTATED 19 1 9 7 1 69
DEL PEAK 29(12P13.1) WILD-TYPE 157 26 109 171 17 456

Figure S326.  Get High-res Image Gene #61: 'del_12p13.1' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_12p13.1' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.00993 (Fisher's exact test), Q value = 0.025

Table S327.  Gene #61: 'del_12p13.1' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 29(12P13.1) MUTATED 61 45
DEL PEAK 29(12P13.1) WILD-TYPE 413 523

Figure S327.  Get High-res Image Gene #61: 'del_12p13.1' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_12q12' versus 'HISTOLOGICAL_TYPE'

P value = 0.00214 (Fisher's exact test), Q value = 0.0061

Table S328.  Gene #62: 'del_12q12' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 30(12Q12) MUTATED 38 3 15 11 2 71
DEL PEAK 30(12Q12) WILD-TYPE 138 24 103 167 16 454

Figure S328.  Get High-res Image Gene #62: 'del_12q12' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_12q15' versus 'HISTOLOGICAL_TYPE'

P value = 0.0117 (Fisher's exact test), Q value = 0.029

Table S329.  Gene #63: 'del_12q15' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 31(12Q15) MUTATED 33 4 13 11 3 71
DEL PEAK 31(12Q15) WILD-TYPE 143 23 105 167 15 454

Figure S329.  Get High-res Image Gene #63: 'del_12q15' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_13q14.2' versus 'Time to Death'

P value = 5.68e-05 (logrank test), Q value = 0.00021

Table S330.  Gene #64: 'del_13q14.2' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 32(13Q14.2) MUTATED 366 229 0.1 - 211.2 (14.2)
DEL PEAK 32(13Q14.2) WILD-TYPE 673 330 0.0 - 182.3 (15.0)

Figure S330.  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 = 0.0697 (Wilcoxon-test), Q value = 0.13

Table S331.  Gene #64: 'del_13q14.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 32(13Q14.2) MUTATED 367 52.3 (16.2)
DEL PEAK 32(13Q14.2) WILD-TYPE 674 50.5 (15.6)

Figure S331.  Get High-res Image Gene #64: 'del_13q14.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_13q14.2' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 1.35e-06 (Fisher's exact test), Q value = 7.7e-06

Table S332.  Gene #64: 'del_13q14.2' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 32(13Q14.2) MUTATED 238 129
DEL PEAK 32(13Q14.2) WILD-TYPE 332 343

Figure S332.  Get High-res Image Gene #64: 'del_13q14.2' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_13q14.2' versus 'GENDER'

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

Table S333.  Gene #64: 'del_13q14.2' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 430 612
DEL PEAK 32(13Q14.2) MUTATED 139 228
DEL PEAK 32(13Q14.2) WILD-TYPE 291 384

Figure S333.  Get High-res Image Gene #64: 'del_13q14.2' versus Clinical Feature #4: 'GENDER'

'del_13q14.2' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00311 (Wilcoxon-test), Q value = 0.0087

Table S334.  Gene #64: 'del_13q14.2' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
DEL PEAK 32(13Q14.2) MUTATED 258 79.7 (14.5)
DEL PEAK 32(13Q14.2) WILD-TYPE 431 82.6 (14.5)

Figure S334.  Get High-res Image Gene #64: 'del_13q14.2' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_13q14.2' versus 'HISTOLOGICAL_TYPE'

P value = 2e-05 (Fisher's exact test), Q value = 7.7e-05

Table S335.  Gene #64: 'del_13q14.2' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 32(13Q14.2) MUTATED 56 8 33 40 6 224
DEL PEAK 32(13Q14.2) WILD-TYPE 120 19 85 138 12 301

Figure S335.  Get High-res Image Gene #64: 'del_13q14.2' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_13q14.2' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.00421 (Fisher's exact test), Q value = 0.011

Table S336.  Gene #64: 'del_13q14.2' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 32(13Q14.2) MUTATED 189 178
DEL PEAK 32(13Q14.2) WILD-TYPE 285 390

Figure S336.  Get High-res Image Gene #64: 'del_13q14.2' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_13q22.1' versus 'Time to Death'

P value = 5.36e-05 (logrank test), Q value = 2e-04

Table S337.  Gene #65: 'del_13q22.1' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 33(13Q22.1) MUTATED 350 219 0.1 - 211.2 (14.3)
DEL PEAK 33(13Q22.1) WILD-TYPE 689 340 0.0 - 182.3 (14.9)

Figure S337.  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 = 0.0188 (Wilcoxon-test), Q value = 0.043

Table S338.  Gene #65: 'del_13q22.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 33(13Q22.1) MUTATED 351 52.7 (15.6)
DEL PEAK 33(13Q22.1) WILD-TYPE 690 50.3 (15.9)

Figure S338.  Get High-res Image Gene #65: 'del_13q22.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_13q22.1' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 7.44e-06 (Fisher's exact test), Q value = 4e-05

Table S339.  Gene #65: 'del_13q22.1' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 33(13Q22.1) MUTATED 226 125
DEL PEAK 33(13Q22.1) WILD-TYPE 344 347

Figure S339.  Get High-res Image Gene #65: 'del_13q22.1' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_13q22.1' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00104 (Wilcoxon-test), Q value = 0.0032

Table S340.  Gene #65: 'del_13q22.1' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
DEL PEAK 33(13Q22.1) MUTATED 243 79.3 (14.5)
DEL PEAK 33(13Q22.1) WILD-TYPE 446 82.7 (14.5)

Figure S340.  Get High-res Image Gene #65: 'del_13q22.1' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_13q22.1' versus 'HISTOLOGICAL_TYPE'

P value = 0.00018 (Fisher's exact test), Q value = 6e-04

Table S341.  Gene #65: 'del_13q22.1' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 33(13Q22.1) MUTATED 53 8 31 41 5 213
DEL PEAK 33(13Q22.1) WILD-TYPE 123 19 87 137 13 312

Figure S341.  Get High-res Image Gene #65: 'del_13q22.1' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_13q22.1' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.0124 (Fisher's exact test), Q value = 0.03

Table S342.  Gene #65: 'del_13q22.1' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 33(13Q22.1) MUTATED 179 172
DEL PEAK 33(13Q22.1) WILD-TYPE 295 396

Figure S342.  Get High-res Image Gene #65: 'del_13q22.1' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_14q13.1' versus 'Time to Death'

P value = 1.06e-10 (logrank test), Q value = 8.6e-10

Table S343.  Gene #66: 'del_14q13.1' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 34(14Q13.1) MUTATED 232 161 0.1 - 130.8 (12.7)
DEL PEAK 34(14Q13.1) WILD-TYPE 807 398 0.0 - 211.2 (15.2)

Figure S343.  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 = 9.38e-09 (Wilcoxon-test), Q value = 6e-08

Table S344.  Gene #66: 'del_14q13.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 34(14Q13.1) MUTATED 232 56.2 (14.4)
DEL PEAK 34(14Q13.1) WILD-TYPE 809 49.6 (15.9)

Figure S344.  Get High-res Image Gene #66: 'del_14q13.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_14q13.1' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 2.32e-13 (Fisher's exact test), Q value = 2.4e-12

Table S345.  Gene #66: 'del_14q13.1' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 34(14Q13.1) MUTATED 175 57
DEL PEAK 34(14Q13.1) WILD-TYPE 395 415

Figure S345.  Get High-res Image Gene #66: 'del_14q13.1' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_14q13.1' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0214 (Wilcoxon-test), Q value = 0.049

Table S346.  Gene #66: 'del_14q13.1' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
DEL PEAK 34(14Q13.1) MUTATED 169 80.2 (12.6)
DEL PEAK 34(14Q13.1) WILD-TYPE 520 81.9 (15.2)

Figure S346.  Get High-res Image Gene #66: 'del_14q13.1' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_14q13.1' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S347.  Gene #66: 'del_14q13.1' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 34(14Q13.1) MUTATED 26 5 13 18 6 164
DEL PEAK 34(14Q13.1) WILD-TYPE 150 22 105 160 12 361

Figure S347.  Get High-res Image Gene #66: 'del_14q13.1' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_14q13.1' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.000566 (Fisher's exact test), Q value = 0.0018

Table S348.  Gene #66: 'del_14q13.1' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 34(14Q13.1) MUTATED 129 103
DEL PEAK 34(14Q13.1) WILD-TYPE 345 465

Figure S348.  Get High-res Image Gene #66: 'del_14q13.1' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_14q13.1' versus 'RACE'

P value = 0.0739 (Fisher's exact test), Q value = 0.14

Table S349.  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 64 922
DEL PEAK 34(14Q13.1) MUTATED 1 4 20 196
DEL PEAK 34(14Q13.1) WILD-TYPE 0 17 44 726

Figure S349.  Get High-res Image Gene #66: 'del_14q13.1' versus Clinical Feature #8: 'RACE'

'del_14q13.1' versus 'ETHNICITY'

P value = 0.0651 (Fisher's exact test), Q value = 0.13

Table S350.  Gene #66: 'del_14q13.1' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 30 891
DEL PEAK 34(14Q13.1) MUTATED 2 192
DEL PEAK 34(14Q13.1) WILD-TYPE 28 699

Figure S350.  Get High-res Image Gene #66: 'del_14q13.1' versus Clinical Feature #9: 'ETHNICITY'

'del_14q24.2' versus 'Time to Death'

P value = 0.00284 (logrank test), Q value = 0.0079

Table S351.  Gene #67: 'del_14q24.2' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 35(14Q24.2) MUTATED 276 172 0.1 - 130.8 (14.5)
DEL PEAK 35(14Q24.2) WILD-TYPE 763 387 0.0 - 211.2 (14.9)

Figure S351.  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 = 0.108 (Wilcoxon-test), Q value = 0.19

Table S352.  Gene #67: 'del_14q24.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 35(14Q24.2) MUTATED 277 52.4 (15.8)
DEL PEAK 35(14Q24.2) WILD-TYPE 764 50.6 (15.8)

Figure S352.  Get High-res Image Gene #67: 'del_14q24.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_14q24.2' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 0.00608 (Fisher's exact test), Q value = 0.016

Table S353.  Gene #67: 'del_14q24.2' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 35(14Q24.2) MUTATED 171 106
DEL PEAK 35(14Q24.2) WILD-TYPE 399 366

Figure S353.  Get High-res Image Gene #67: 'del_14q24.2' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_14q24.2' versus 'GENDER'

P value = 0.0752 (Fisher's exact test), Q value = 0.14

Table S354.  Gene #67: 'del_14q24.2' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 430 612
DEL PEAK 35(14Q24.2) MUTATED 127 150
DEL PEAK 35(14Q24.2) WILD-TYPE 303 462

Figure S354.  Get High-res Image Gene #67: 'del_14q24.2' versus Clinical Feature #4: 'GENDER'

'del_14q24.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.0165 (Fisher's exact test), Q value = 0.039

Table S355.  Gene #67: 'del_14q24.2' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 35(14Q24.2) MUTATED 48 5 25 33 7 159
DEL PEAK 35(14Q24.2) WILD-TYPE 128 22 93 145 11 366

Figure S355.  Get High-res Image Gene #67: 'del_14q24.2' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_14q24.2' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.041 (Fisher's exact test), Q value = 0.086

Table S356.  Gene #67: 'del_14q24.2' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 35(14Q24.2) MUTATED 141 136
DEL PEAK 35(14Q24.2) WILD-TYPE 333 432

Figure S356.  Get High-res Image Gene #67: 'del_14q24.2' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_14q31.3' versus 'Time to Death'

P value = 0.00403 (logrank test), Q value = 0.011

Table S357.  Gene #68: 'del_14q31.3' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 36(14Q31.3) MUTATED 260 160 0.1 - 130.8 (14.5)
DEL PEAK 36(14Q31.3) WILD-TYPE 779 399 0.0 - 211.2 (14.9)

Figure S357.  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 = 0.111 (Wilcoxon-test), Q value = 0.2

Table S358.  Gene #68: 'del_14q31.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 36(14Q31.3) MUTATED 261 52.4 (15.7)
DEL PEAK 36(14Q31.3) WILD-TYPE 780 50.6 (15.8)

Figure S358.  Get High-res Image Gene #68: 'del_14q31.3' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_14q31.3' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 0.0215 (Fisher's exact test), Q value = 0.049

Table S359.  Gene #68: 'del_14q31.3' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 36(14Q31.3) MUTATED 159 102
DEL PEAK 36(14Q31.3) WILD-TYPE 411 370

Figure S359.  Get High-res Image Gene #68: 'del_14q31.3' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_14q31.3' versus 'GENDER'

P value = 0.0814 (Fisher's exact test), Q value = 0.15

Table S360.  Gene #68: 'del_14q31.3' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 430 612
DEL PEAK 36(14Q31.3) MUTATED 120 141
DEL PEAK 36(14Q31.3) WILD-TYPE 310 471

Figure S360.  Get High-res Image Gene #68: 'del_14q31.3' versus Clinical Feature #4: 'GENDER'

'del_14q31.3' versus 'HISTOLOGICAL_TYPE'

P value = 0.0249 (Fisher's exact test), Q value = 0.055

Table S361.  Gene #68: 'del_14q31.3' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 36(14Q31.3) MUTATED 46 6 26 30 8 145
DEL PEAK 36(14Q31.3) WILD-TYPE 130 21 92 148 10 380

Figure S361.  Get High-res Image Gene #68: 'del_14q31.3' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_14q31.3' versus 'RACE'

P value = 0.0788 (Fisher's exact test), Q value = 0.15

Table S362.  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 64 922
DEL PEAK 36(14Q31.3) MUTATED 1 6 22 223
DEL PEAK 36(14Q31.3) WILD-TYPE 0 15 42 699

Figure S362.  Get High-res Image Gene #68: 'del_14q31.3' versus Clinical Feature #8: 'RACE'

'del_15q14' versus 'Time to Death'

P value = 4.68e-06 (logrank test), Q value = 2.6e-05

Table S363.  Gene #69: 'del_15q14' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 37(15Q14) MUTATED 202 139 0.2 - 134.3 (13.0)
DEL PEAK 37(15Q14) WILD-TYPE 837 420 0.0 - 211.2 (15.0)

Figure S363.  Get High-res Image Gene #69: 'del_15q14' versus Clinical Feature #1: 'Time to Death'

'del_15q14' versus 'YEARS_TO_BIRTH'

P value = 5.98e-06 (Wilcoxon-test), Q value = 3.2e-05

Table S364.  Gene #69: 'del_15q14' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 37(15Q14) MUTATED 203 55.8 (16.0)
DEL PEAK 37(15Q14) WILD-TYPE 838 50.0 (15.6)

Figure S364.  Get High-res Image Gene #69: 'del_15q14' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_15q14' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 2.99e-09 (Fisher's exact test), Q value = 2e-08

Table S365.  Gene #69: 'del_15q14' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 37(15Q14) MUTATED 149 55
DEL PEAK 37(15Q14) WILD-TYPE 421 417

Figure S365.  Get High-res Image Gene #69: 'del_15q14' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_15q14' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0221 (Wilcoxon-test), Q value = 0.05

Table S366.  Gene #69: 'del_15q14' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
DEL PEAK 37(15Q14) MUTATED 126 79.8 (13.1)
DEL PEAK 37(15Q14) WILD-TYPE 563 81.9 (14.9)

Figure S366.  Get High-res Image Gene #69: 'del_15q14' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_15q14' versus 'HISTOLOGICAL_TYPE'

P value = 2e-05 (Fisher's exact test), Q value = 7.7e-05

Table S367.  Gene #69: 'del_15q14' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 37(15Q14) MUTATED 22 7 12 21 4 138
DEL PEAK 37(15Q14) WILD-TYPE 154 20 106 157 14 387

Figure S367.  Get High-res Image Gene #69: 'del_15q14' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_15q14' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.0416 (Fisher's exact test), Q value = 0.087

Table S368.  Gene #69: 'del_15q14' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 37(15Q14) MUTATED 106 98
DEL PEAK 37(15Q14) WILD-TYPE 368 470

Figure S368.  Get High-res Image Gene #69: 'del_15q14' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_16p12.2' versus 'Time to Death'

P value = 2.64e-09 (logrank test), Q value = 1.8e-08

Table S369.  Gene #70: 'del_16p12.2' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 38(16P12.2) MUTATED 111 89 0.4 - 78.3 (14.5)
DEL PEAK 38(16P12.2) WILD-TYPE 928 470 0.0 - 211.2 (14.8)

Figure S369.  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 = 1.78e-07 (Wilcoxon-test), Q value = 1.1e-06

Table S370.  Gene #70: 'del_16p12.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 38(16P12.2) MUTATED 111 58.6 (14.4)
DEL PEAK 38(16P12.2) WILD-TYPE 930 50.2 (15.8)

Figure S370.  Get High-res Image Gene #70: 'del_16p12.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_16p12.2' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 6.94e-11 (Fisher's exact test), Q value = 5.7e-10

Table S371.  Gene #70: 'del_16p12.2' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 38(16P12.2) MUTATED 92 19
DEL PEAK 38(16P12.2) WILD-TYPE 478 453

Figure S371.  Get High-res Image Gene #70: 'del_16p12.2' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_16p12.2' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.136 (Wilcoxon-test), Q value = 0.23

Table S372.  Gene #70: 'del_16p12.2' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
DEL PEAK 38(16P12.2) MUTATED 81 79.3 (15.7)
DEL PEAK 38(16P12.2) WILD-TYPE 608 81.8 (14.4)

Figure S372.  Get High-res Image Gene #70: 'del_16p12.2' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_16p12.2' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S373.  Gene #70: 'del_16p12.2' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 38(16P12.2) MUTATED 13 3 2 4 1 88
DEL PEAK 38(16P12.2) WILD-TYPE 163 24 116 174 17 437

Figure S373.  Get High-res Image Gene #70: 'del_16p12.2' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_16p12.2' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.00237 (Fisher's exact test), Q value = 0.0068

Table S374.  Gene #70: 'del_16p12.2' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 38(16P12.2) MUTATED 66 45
DEL PEAK 38(16P12.2) WILD-TYPE 408 523

Figure S374.  Get High-res Image Gene #70: 'del_16p12.2' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_16q23.1' versus 'Time to Death'

P value = 6.09e-09 (logrank test), Q value = 4e-08

Table S375.  Gene #71: 'del_16q23.1' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 39(16Q23.1) MUTATED 123 98 0.1 - 127.6 (12.9)
DEL PEAK 39(16Q23.1) WILD-TYPE 916 461 0.0 - 211.2 (14.9)

Figure S375.  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 = 6.99e-05 (Wilcoxon-test), Q value = 0.00025

Table S376.  Gene #71: 'del_16q23.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 39(16Q23.1) MUTATED 123 56.2 (14.9)
DEL PEAK 39(16Q23.1) WILD-TYPE 918 50.4 (15.8)

Figure S376.  Get High-res Image Gene #71: 'del_16q23.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_16q23.1' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 3.07e-10 (Fisher's exact test), Q value = 2.3e-09

Table S377.  Gene #71: 'del_16q23.1' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 39(16Q23.1) MUTATED 99 24
DEL PEAK 39(16Q23.1) WILD-TYPE 471 448

Figure S377.  Get High-res Image Gene #71: 'del_16q23.1' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_16q23.1' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00213 (Wilcoxon-test), Q value = 0.0061

Table S378.  Gene #71: 'del_16q23.1' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
DEL PEAK 39(16Q23.1) MUTATED 85 77.1 (16.1)
DEL PEAK 39(16Q23.1) WILD-TYPE 604 82.2 (14.3)

Figure S378.  Get High-res Image Gene #71: 'del_16q23.1' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_16q23.1' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S379.  Gene #71: 'del_16q23.1' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 39(16Q23.1) MUTATED 13 3 5 6 2 94
DEL PEAK 39(16Q23.1) WILD-TYPE 163 24 113 172 16 431

Figure S379.  Get High-res Image Gene #71: 'del_16q23.1' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_17p13.1' versus 'Time to Death'

P value = 6.21e-09 (logrank test), Q value = 4e-08

Table S380.  Gene #72: 'del_17p13.1' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 40(17P13.1) MUTATED 112 83 0.1 - 92.7 (11.7)
DEL PEAK 40(17P13.1) WILD-TYPE 927 476 0.0 - 211.2 (15.1)

Figure S380.  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 = 1.12e-06 (Wilcoxon-test), Q value = 6.5e-06

Table S381.  Gene #72: 'del_17p13.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 40(17P13.1) MUTATED 112 57.9 (15.0)
DEL PEAK 40(17P13.1) WILD-TYPE 929 50.3 (15.7)

Figure S381.  Get High-res Image Gene #72: 'del_17p13.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_17p13.1' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 1.82e-12 (Fisher's exact test), Q value = 1.7e-11

Table S382.  Gene #72: 'del_17p13.1' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 40(17P13.1) MUTATED 95 17
DEL PEAK 40(17P13.1) WILD-TYPE 475 455

Figure S382.  Get High-res Image Gene #72: 'del_17p13.1' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_17p13.1' versus 'GENDER'

P value = 0.128 (Fisher's exact test), Q value = 0.22

Table S383.  Gene #72: 'del_17p13.1' versus Clinical Feature #4: 'GENDER'

nPatients FEMALE MALE
ALL 430 612
DEL PEAK 40(17P13.1) MUTATED 54 58
DEL PEAK 40(17P13.1) WILD-TYPE 376 554

Figure S383.  Get High-res Image Gene #72: 'del_17p13.1' versus Clinical Feature #4: 'GENDER'

'del_17p13.1' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00249 (Wilcoxon-test), Q value = 0.0071

Table S384.  Gene #72: 'del_17p13.1' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
DEL PEAK 40(17P13.1) MUTATED 78 78.1 (12.6)
DEL PEAK 40(17P13.1) WILD-TYPE 611 82.0 (14.8)

Figure S384.  Get High-res Image Gene #72: 'del_17p13.1' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_17p13.1' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S385.  Gene #72: 'del_17p13.1' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 40(17P13.1) MUTATED 6 3 4 7 3 89
DEL PEAK 40(17P13.1) WILD-TYPE 170 24 114 171 15 436

Figure S385.  Get High-res Image Gene #72: 'del_17p13.1' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_17p13.1' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.0275 (Fisher's exact test), Q value = 0.061

Table S386.  Gene #72: 'del_17p13.1' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 40(17P13.1) MUTATED 62 50
DEL PEAK 40(17P13.1) WILD-TYPE 412 518

Figure S386.  Get High-res Image Gene #72: 'del_17p13.1' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_17q11.2' versus 'Time to Death'

P value = 1.07e-07 (logrank test), Q value = 6.5e-07

Table S387.  Gene #73: 'del_17q11.2' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 41(17Q11.2) MUTATED 90 66 0.1 - 92.7 (12.0)
DEL PEAK 41(17Q11.2) WILD-TYPE 949 493 0.0 - 211.2 (15.0)

Figure S387.  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 = 0.000229 (Wilcoxon-test), Q value = 0.00076

Table S388.  Gene #73: 'del_17q11.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 41(17Q11.2) MUTATED 90 56.8 (13.1)
DEL PEAK 41(17Q11.2) WILD-TYPE 951 50.6 (15.9)

Figure S388.  Get High-res Image Gene #73: 'del_17q11.2' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_17q11.2' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 2.52e-06 (Fisher's exact test), Q value = 1.4e-05

Table S389.  Gene #73: 'del_17q11.2' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 41(17Q11.2) MUTATED 70 20
DEL PEAK 41(17Q11.2) WILD-TYPE 500 452

Figure S389.  Get High-res Image Gene #73: 'del_17q11.2' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_17q11.2' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00129 (Wilcoxon-test), Q value = 0.0039

Table S390.  Gene #73: 'del_17q11.2' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
DEL PEAK 41(17Q11.2) MUTATED 67 75.7 (17.2)
DEL PEAK 41(17Q11.2) WILD-TYPE 622 82.2 (14.1)

Figure S390.  Get High-res Image Gene #73: 'del_17q11.2' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_17q11.2' versus 'HISTOLOGICAL_TYPE'

P value = 0.00016 (Fisher's exact test), Q value = 0.00055

Table S391.  Gene #73: 'del_17q11.2' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 41(17Q11.2) MUTATED 11 3 3 6 2 65
DEL PEAK 41(17Q11.2) WILD-TYPE 165 24 115 172 16 460

Figure S391.  Get High-res Image Gene #73: 'del_17q11.2' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_17q11.2' versus 'RACE'

P value = 0.0631 (Fisher's exact test), Q value = 0.13

Table S392.  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 64 922
DEL PEAK 41(17Q11.2) MUTATED 1 2 8 77
DEL PEAK 41(17Q11.2) WILD-TYPE 0 19 56 845

Figure S392.  Get High-res Image Gene #73: 'del_17q11.2' versus Clinical Feature #8: 'RACE'

'del_18q23' versus 'YEARS_TO_BIRTH'

P value = 0.0928 (Wilcoxon-test), Q value = 0.17

Table S393.  Gene #74: 'del_18q23' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 42(18Q23) MUTATED 146 53.1 (16.1)
DEL PEAK 42(18Q23) WILD-TYPE 895 50.8 (15.8)

Figure S393.  Get High-res Image Gene #74: 'del_18q23' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_18q23' versus 'ETHNICITY'

P value = 0.0584 (Fisher's exact test), Q value = 0.12

Table S394.  Gene #74: 'del_18q23' versus Clinical Feature #9: 'ETHNICITY'

nPatients HISPANIC OR LATINO NOT HISPANIC OR LATINO
ALL 30 891
DEL PEAK 42(18Q23) MUTATED 8 122
DEL PEAK 42(18Q23) WILD-TYPE 22 769

Figure S394.  Get High-res Image Gene #74: 'del_18q23' versus Clinical Feature #9: 'ETHNICITY'

'del_19q13.41' versus 'Time to Death'

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

Table S395.  Gene #75: 'del_19q13.41' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 43(19Q13.41) MUTATED 344 121 0.0 - 182.3 (17.2)
DEL PEAK 43(19Q13.41) WILD-TYPE 695 438 0.1 - 211.2 (13.4)

Figure S395.  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 = 2.49e-07 (Wilcoxon-test), Q value = 1.5e-06

Table S396.  Gene #75: 'del_19q13.41' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 43(19Q13.41) MUTATED 345 47.7 (14.6)
DEL PEAK 43(19Q13.41) WILD-TYPE 696 52.8 (16.1)

Figure S396.  Get High-res Image Gene #75: 'del_19q13.41' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_19q13.41' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 4.41e-33 (Fisher's exact test), Q value = 8.2e-32

Table S397.  Gene #75: 'del_19q13.41' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 43(19Q13.41) MUTATED 99 247
DEL PEAK 43(19Q13.41) WILD-TYPE 471 225

Figure S397.  Get High-res Image Gene #75: 'del_19q13.41' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_19q13.41' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.000119 (Wilcoxon-test), Q value = 0.00042

Table S398.  Gene #75: 'del_19q13.41' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
DEL PEAK 43(19Q13.41) MUTATED 222 84.5 (12.9)
DEL PEAK 43(19Q13.41) WILD-TYPE 467 80.1 (15.1)

Figure S398.  Get High-res Image Gene #75: 'del_19q13.41' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_19q13.41' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S399.  Gene #75: 'del_19q13.41' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 43(19Q13.41) MUTATED 50 3 53 144 4 92
DEL PEAK 43(19Q13.41) WILD-TYPE 126 24 65 34 14 433

Figure S399.  Get High-res Image Gene #75: 'del_19q13.41' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_19q13.41' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 7.21e-10 (Fisher's exact test), Q value = 5.2e-09

Table S400.  Gene #75: 'del_19q13.41' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 43(19Q13.41) MUTATED 111 235
DEL PEAK 43(19Q13.41) WILD-TYPE 363 333

Figure S400.  Get High-res Image Gene #75: 'del_19q13.41' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_19q13.43' versus 'Time to Death'

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

Table S401.  Gene #76: 'del_19q13.43' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 44(19Q13.43) MUTATED 330 105 0.0 - 182.3 (17.8)
DEL PEAK 44(19Q13.43) WILD-TYPE 709 454 0.1 - 211.2 (13.3)

Figure S401.  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 = 1.07e-12 (Wilcoxon-test), Q value = 1e-11

Table S402.  Gene #76: 'del_19q13.43' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 44(19Q13.43) MUTATED 331 46.1 (14.6)
DEL PEAK 44(19Q13.43) WILD-TYPE 710 53.4 (15.8)

Figure S402.  Get High-res Image Gene #76: 'del_19q13.43' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_19q13.43' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 1.99e-39 (Fisher's exact test), Q value = 4.3e-38

Table S403.  Gene #76: 'del_19q13.43' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 44(19Q13.43) MUTATED 84 248
DEL PEAK 44(19Q13.43) WILD-TYPE 486 224

Figure S403.  Get High-res Image Gene #76: 'del_19q13.43' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_19q13.43' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 2.91e-05 (Wilcoxon-test), Q value = 0.00011

Table S404.  Gene #76: 'del_19q13.43' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
DEL PEAK 44(19Q13.43) MUTATED 217 84.6 (13.4)
DEL PEAK 44(19Q13.43) WILD-TYPE 472 80.1 (14.9)

Figure S404.  Get High-res Image Gene #76: 'del_19q13.43' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_19q13.43' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S405.  Gene #76: 'del_19q13.43' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 44(19Q13.43) MUTATED 52 4 55 141 4 76
DEL PEAK 44(19Q13.43) WILD-TYPE 124 23 63 37 14 449

Figure S405.  Get High-res Image Gene #76: 'del_19q13.43' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_19q13.43' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 6.92e-10 (Fisher's exact test), Q value = 5.1e-09

Table S406.  Gene #76: 'del_19q13.43' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 44(19Q13.43) MUTATED 105 227
DEL PEAK 44(19Q13.43) WILD-TYPE 369 341

Figure S406.  Get High-res Image Gene #76: 'del_19q13.43' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_19q13.43' versus 'RACE'

P value = 0.12 (Fisher's exact test), Q value = 0.21

Table S407.  Gene #76: 'del_19q13.43' versus Clinical Feature #8: 'RACE'

nPatients AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN WHITE
ALL 1 21 64 922
DEL PEAK 44(19Q13.43) MUTATED 0 8 13 301
DEL PEAK 44(19Q13.43) WILD-TYPE 1 13 51 621

Figure S407.  Get High-res Image Gene #76: 'del_19q13.43' versus Clinical Feature #8: 'RACE'

'del_22q13.32' versus 'Time to Death'

P value = 2.27e-09 (logrank test), Q value = 1.6e-08

Table S408.  Gene #77: 'del_22q13.32' versus Clinical Feature #1: 'Time to Death'

nPatients nDeath Duration Range (Median), Month
ALL 1039 559 0.0 - 211.2 (14.8)
DEL PEAK 45(22Q13.32) MUTATED 280 204 0.1 - 156.2 (14.3)
DEL PEAK 45(22Q13.32) WILD-TYPE 759 355 0.0 - 211.2 (14.9)

Figure S408.  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 = 6.74e-10 (Wilcoxon-test), Q value = 5e-09

Table S409.  Gene #77: 'del_22q13.32' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 45(22Q13.32) MUTATED 280 55.9 (15.6)
DEL PEAK 45(22Q13.32) WILD-TYPE 761 49.3 (15.5)

Figure S409.  Get High-res Image Gene #77: 'del_22q13.32' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_22q13.32' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 5.15e-17 (Fisher's exact test), Q value = 7e-16

Table S410.  Gene #77: 'del_22q13.32' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 45(22Q13.32) MUTATED 212 68
DEL PEAK 45(22Q13.32) WILD-TYPE 358 404

Figure S410.  Get High-res Image Gene #77: 'del_22q13.32' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_22q13.32' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.00388 (Wilcoxon-test), Q value = 0.011

Table S411.  Gene #77: 'del_22q13.32' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
DEL PEAK 45(22Q13.32) MUTATED 197 79.5 (14.8)
DEL PEAK 45(22Q13.32) WILD-TYPE 492 82.3 (14.4)

Figure S411.  Get High-res Image Gene #77: 'del_22q13.32' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

'del_22q13.32' versus 'HISTOLOGICAL_TYPE'

P value = 1e-05 (Fisher's exact test), Q value = 4.1e-05

Table S412.  Gene #77: 'del_22q13.32' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

nPatients ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA OLIGODENDROGLIOMA TREATED PRIMARY GBM UNTREATED PRIMARY (DE NOVO) GBM
ALL 176 27 118 178 18 525
DEL PEAK 45(22Q13.32) MUTATED 38 10 14 16 6 196
DEL PEAK 45(22Q13.32) WILD-TYPE 138 17 104 162 12 329

Figure S412.  Get High-res Image Gene #77: 'del_22q13.32' versus Clinical Feature #6: 'HISTOLOGICAL_TYPE'

'del_22q13.32' versus 'RADIATIONS_RADIATION_REGIMENINDICATION'

P value = 0.000113 (Fisher's exact test), Q value = 4e-04

Table S413.  Gene #77: 'del_22q13.32' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

nPatients NO YES
ALL 474 568
DEL PEAK 45(22Q13.32) MUTATED 155 125
DEL PEAK 45(22Q13.32) WILD-TYPE 319 443

Figure S413.  Get High-res Image Gene #77: 'del_22q13.32' versus Clinical Feature #7: 'RADIATIONS_RADIATION_REGIMENINDICATION'

'del_xq21.1' versus 'YEARS_TO_BIRTH'

P value = 0.016 (Wilcoxon-test), Q value = 0.038

Table S414.  Gene #79: 'del_xq21.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

nPatients Mean (Std.Dev)
ALL 1041 51.1 (15.8)
DEL PEAK 47(XQ21.1) MUTATED 170 53.5 (15.9)
DEL PEAK 47(XQ21.1) WILD-TYPE 871 50.6 (15.8)

Figure S414.  Get High-res Image Gene #79: 'del_xq21.1' versus Clinical Feature #2: 'YEARS_TO_BIRTH'

'del_xq21.1' versus 'PRIMARY_SITE_OF_DISEASE'

P value = 0.0646 (Fisher's exact test), Q value = 0.13

Table S415.  Gene #79: 'del_xq21.1' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

nPatients BRAIN CENTRAL NERVOUS SYSTEM
ALL 570 472
DEL PEAK 47(XQ21.1) MUTATED 104 66
DEL PEAK 47(XQ21.1) WILD-TYPE 466 406

Figure S415.  Get High-res Image Gene #79: 'del_xq21.1' versus Clinical Feature #3: 'PRIMARY_SITE_OF_DISEASE'

'del_xq21.1' versus 'KARNOFSKY_PERFORMANCE_SCORE'

P value = 0.0928 (Wilcoxon-test), Q value = 0.17

Table S416.  Gene #79: 'del_xq21.1' versus Clinical Feature #5: 'KARNOFSKY_PERFORMANCE_SCORE'

nPatients Mean (Std.Dev)
ALL 689 81.5 (14.6)
DEL PEAK 47(XQ21.1) MUTATED 119 78.9 (16.5)
DEL PEAK 47(XQ21.1) WILD-TYPE 570 82.1 (14.1)

Figure S416.  Get High-res Image Gene #79: 'del_xq21.1' versus Clinical Feature #5: '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/15101907/transformed.cor.cli.txt

  • Clinical data file = /xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/GBMLGG-TP/15078950/GBMLGG-TP.merged_data.txt

  • Number of patients = 1042

  • 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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