[1] "ofn"          "-oTGBMLGG-TP"
[1] "opt"       "-OPMUTSIG"
[1] "tl" ""  
[1] "dx" ""  
[1] "opt"    "MUTSIG"
[1] "dx" ""  
[1] "cfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/GBMLGG-TP/22506567/GBMLGG-TP.merged_data.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/GBMLGG-TP/22534382/transformed.cor.cli.txt"

nPatients in clinical file=1110, in cluster file=1090, common to both=1085
[1]   82 1085
[1] "1P GAIN MUTATION ANALYSIS"
[1] 3
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
               95               990 
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
               95               990 
[1] "1Q GAIN MUTATION ANALYSIS"
[1] 3
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
              112               973 
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
              112               973 
[1] "2P GAIN MUTATION ANALYSIS"
[1] 3
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
               51              1034 
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
               51              1034 
[1] "2Q GAIN MUTATION ANALYSIS"
[1] 3
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
               48              1037 
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
               48              1037 
[1] "3P GAIN MUTATION ANALYSIS"
[1] 3
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
               67              1018 
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
               67              1018 
[1] "3Q GAIN MUTATION ANALYSIS"
[1] 3
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
               71              1014 
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
               71              1014 
[1] "4P GAIN MUTATION ANALYSIS"
[1] 3
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
               48              1037 
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
               48              1037 
[1] "4Q GAIN MUTATION ANALYSIS"
[1] 3
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
               43              1042 
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
               43              1042 
[1] "5P GAIN MUTATION ANALYSIS"
[1] 3
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
               60              1025 
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
               60              1025 
[1] "5Q GAIN MUTATION ANALYSIS"
[1] 3
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
               50              1035 
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
               50              1035 
[1] "6P GAIN MUTATION ANALYSIS"
[1] 3
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
               35              1050 
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
               35              1050 
[1] "6Q GAIN MUTATION ANALYSIS"
[1] 3
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
               28              1057 
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
               28              1057 
[1] "7P GAIN MUTATION ANALYSIS"
[1] 3
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
              591               494 
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
              591               494 
[1] "7Q GAIN MUTATION ANALYSIS"
[1] 3
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
              627               458 
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
              627               458 
[1] "8P GAIN MUTATION ANALYSIS"
[1] 3
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
              101               984 
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
              101               984 
[1] "8Q GAIN MUTATION ANALYSIS"
[1] 3
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
              117               968 
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
              117               968 
[1] "9P GAIN MUTATION ANALYSIS"
[1] 3
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
               64              1021 
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
               64              1021 
[1] "9Q GAIN MUTATION ANALYSIS"
[1] 3
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
               95               990 
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
               95               990 
[1] "10P GAIN MUTATION ANALYSIS"
[1] 3
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                70               1015 
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                70               1015 
[1] "10Q GAIN MUTATION ANALYSIS"
[1] 3
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                12               1073 
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                12               1073 
[1] "11P GAIN MUTATION ANALYSIS"
[1] 3
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                49               1036 
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                49               1036 
[1] "11Q GAIN MUTATION ANALYSIS"
[1] 3
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                74               1011 
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                74               1011 
[1] "12P GAIN MUTATION ANALYSIS"
[1] 3
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                93                992 
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                93                992 
[1] "12Q GAIN MUTATION ANALYSIS"
[1] 3
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                65               1020 
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                65               1020 
[1] "13Q GAIN MUTATION ANALYSIS"
[1] 3
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                17               1068 
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                17               1068 
[1] "14Q GAIN MUTATION ANALYSIS"
[1] 3
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                26               1059 
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                26               1059 
[1] "15Q GAIN MUTATION ANALYSIS"
[1] 3
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                37               1048 
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                37               1048 
[1] "16P GAIN MUTATION ANALYSIS"
[1] 3
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                54               1031 
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                54               1031 
[1] "16Q GAIN MUTATION ANALYSIS"
[1] 3
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                57               1028 
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                57               1028 
[1] "17P GAIN MUTATION ANALYSIS"
[1] 3
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                72               1013 
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                72               1013 
[1] "17Q GAIN MUTATION ANALYSIS"
[1] 3
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                86                999 
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                86                999 
[1] "18P GAIN MUTATION ANALYSIS"
[1] 3
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                78               1007 
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                78               1007 
[1] "18Q GAIN MUTATION ANALYSIS"
[1] 3
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                75               1010 
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                75               1010 
[1] "19P GAIN MUTATION ANALYSIS"
[1] 3
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
               322                763 
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
               322                763 
[1] "19Q GAIN MUTATION ANALYSIS"
[1] 3
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
               222                863 
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
               222                863 
[1] "20P GAIN MUTATION ANALYSIS"
[1] 3
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
               265                820 
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
               265                820 
[1] "20Q GAIN MUTATION ANALYSIS"
[1] 3
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
               262                823 
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
               262                823 
[1] "21Q GAIN MUTATION ANALYSIS"
[1] 3
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                88                997 
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                88                997 
[1] "22Q GAIN MUTATION ANALYSIS"
[1] 3
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                57               1028 
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                57               1028 
[1] "XP GAIN MUTATION ANALYSIS"
[1] 3
  XP GAIN MUTATED XP GAIN WILD-TYPE 
               35              1050 
  XP GAIN MUTATED XP GAIN WILD-TYPE 
               35              1050 
[1] "XQ GAIN MUTATION ANALYSIS"
[1] 3
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
               57              1028 
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
               57              1028 
[1] "1P LOSS MUTATION ANALYSIS"
[1] 3
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
              200               885 
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
              200               885 
[1] "1Q LOSS MUTATION ANALYSIS"
[1] 3
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
               46              1039 
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
               46              1039 
[1] "2P LOSS MUTATION ANALYSIS"
[1] 3
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
               54              1031 
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
               54              1031 
[1] "2Q LOSS MUTATION ANALYSIS"
[1] 3
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
               52              1033 
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
               52              1033 
[1] "3P LOSS MUTATION ANALYSIS"
[1] 3
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
               70              1015 
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
               70              1015 
[1] "3Q LOSS MUTATION ANALYSIS"
[1] 3
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
               62              1023 
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
               62              1023 
[1] "4P LOSS MUTATION ANALYSIS"
[1] 3
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
              127               958 
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
              127               958 
[1] "4Q LOSS MUTATION ANALYSIS"
[1] 3
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
              149               936 
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
              149               936 
[1] "5P LOSS MUTATION ANALYSIS"
[1] 3
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
               80              1005 
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
               80              1005 
[1] "5Q LOSS MUTATION ANALYSIS"
[1] 3
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
               80              1005 
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
               80              1005 
[1] "6P LOSS MUTATION ANALYSIS"
[1] 3
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
              117               968 
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
              117               968 
[1] "6Q LOSS MUTATION ANALYSIS"
[1] 3
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
              188               897 
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
              188               897 
[1] "7P LOSS MUTATION ANALYSIS"
[1] 3
  7P LOSS MUTATED 7P LOSS WILD-TYPE 
               10              1075 
  7P LOSS MUTATED 7P LOSS WILD-TYPE 
               10              1075 
[1] "7Q LOSS MUTATION ANALYSIS"
[1] 3
  7Q LOSS MUTATED 7Q LOSS WILD-TYPE 
                9              1076 
  7Q LOSS MUTATED 7Q LOSS WILD-TYPE 
                9              1076 
[1] "8P LOSS MUTATION ANALYSIS"
[1] 3
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
               75              1010 
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
               75              1010 
[1] "8Q LOSS MUTATION ANALYSIS"
[1] 3
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
               52              1033 
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
               52              1033 
[1] "9P LOSS MUTATION ANALYSIS"
[1] 3
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
              316               769 
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
              316               769 
[1] "9Q LOSS MUTATION ANALYSIS"
[1] 3
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
              141               944 
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
              141               944 
[1] "10P LOSS MUTATION ANALYSIS"
[1] 3
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
               559                526 
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
               559                526 
[1] "10Q LOSS MUTATION ANALYSIS"
[1] 3
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
               587                498 
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
               587                498 
[1] "11P LOSS MUTATION ANALYSIS"
[1] 3
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
               162                923 
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
               162                923 
[1] "11Q LOSS MUTATION ANALYSIS"
[1] 3
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
               112                973 
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
               112                973 
[1] "12P LOSS MUTATION ANALYSIS"
[1] 3
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                84               1001 
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                84               1001 
[1] "12Q LOSS MUTATION ANALYSIS"
[1] 3
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
               108                977 
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
               108                977 
[1] "13Q LOSS MUTATION ANALYSIS"
[1] 3
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
               298                787 
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
               298                787 
[1] "14Q LOSS MUTATION ANALYSIS"
[1] 3
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
               226                859 
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
               226                859 
[1] "15Q LOSS MUTATION ANALYSIS"
[1] 3
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
               154                931 
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
               154                931 
[1] "16P LOSS MUTATION ANALYSIS"
[1] 3
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                78               1007 
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                78               1007 
[1] "16Q LOSS MUTATION ANALYSIS"
[1] 3
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
               104                981 
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
               104                981 
[1] "17P LOSS MUTATION ANALYSIS"
[1] 3
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                78               1007 
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                78               1007 
[1] "17Q LOSS MUTATION ANALYSIS"
[1] 3
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                51               1034 
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                51               1034 
[1] "18P LOSS MUTATION ANALYSIS"
[1] 3
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
               137                948 
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
               137                948 
[1] "18Q LOSS MUTATION ANALYSIS"
[1] 3
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
               123                962 
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
               123                962 
[1] "19P LOSS MUTATION ANALYSIS"
[1] 3
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                57               1028 
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                57               1028 
[1] "19Q LOSS MUTATION ANALYSIS"
[1] 3
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
               244                841 
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
               244                841 
[1] "20P LOSS MUTATION ANALYSIS"
[1] 3
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                26               1059 
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                26               1059 
[1] "20Q LOSS MUTATION ANALYSIS"
[1] 3
  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
                21               1064 
  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
                21               1064 
[1] "21Q LOSS MUTATION ANALYSIS"
[1] 3
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                78               1007 
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                78               1007 
[1] "22Q LOSS MUTATION ANALYSIS"
[1] 3
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
               240                845 
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
               240                845 
[1] "XP LOSS MUTATION ANALYSIS"
[1] 3
  XP LOSS MUTATED XP LOSS WILD-TYPE 
              211               874 
  XP LOSS MUTATED XP LOSS WILD-TYPE 
              211               874 
[1] "XQ LOSS MUTATION ANALYSIS"
[1] 3
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
              174               911 
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
              174               911 
[1] "data2feature, selection=ALL"
 [1] "YEARS_TO_BIRTH"                      
 [2] "VITAL_STATUS"                        
 [3] "DAYS_TO_DEATH"                       
 [4] "DAYS_TO_LAST_FOLLOWUP"               
 [5] "TUMOR_TISSUE_SITE"                   
 [6] "GENDER"                              
 [7] "DATE_OF_INITIAL_PATHOLOGIC_DIAGNOSIS"
 [8] "DAYS_TO_LAST_KNOWN_ALIVE"            
 [9] "RADIATION_THERAPY"                   
[10] "KARNOFSKY_PERFORMANCE_SCORE"         
[11] "HISTOLOGICAL_TYPE"                   
[12] "RACE"                                
[13] "ETHNICITY"                           

Input Data has 13 rows and 1085 columns.

[1] "Last Follow UP"
Variable 1:'YEARS_TO_BIRTH':	nDistinctValues=74,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'VITAL_STATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 3:'DAYS_TO_DEATH':	nDistinctValues=477,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
[1] "exclude grep('DAYS_?TO', vnms) to deal with survival parameters seperately"
Variable 4:'DAYS_TO_LAST_FOLLOWUP':	nDistinctValues=408,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
[1] "exclude grep('FOLLOWUP', vnms) to deal with survival parameters seperately"
Variable 5:'TUMOR_TISSUE_SITE':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'DATE_OF_INITIAL_PATHOLOGIC_DIAGNOSIS':	nDistinctValues=25,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
[1] "exclude grep('DATE', vnms) to deal with survival parameters seperately"
Variable 8:'DAYS_TO_LAST_KNOWN_ALIVE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "DAYS_TO_LAST_KNOWN_ALIVE is excluded in the analysis because there is no more than two cases of (unique non-NA values)"
Variable 9:'RADIATION_THERAPY':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'KARNOFSKY_PERFORMANCE_SCORE':	nDistinctValues=9,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 11:'HISTOLOGICAL_TYPE':	nDistinctValues=6,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'RACE':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 13:'ETHNICITY':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
[1] "## **** detect survival parameters (defined in index such as ind_OS, ind_MFS, ind_RFS, ind_RFS, ind_BCR and ind_d2ssd) *** ##"
[1] "detected survival parameters using [ind_OS, overall_survival]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survival parameters using [ind_OS, curated_overall_survival]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survival parameters using [ind_TCGAOS]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survivial parameters using [ind_MFS]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survival parameters using [ind_RFS]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survival parameters using [ind_BCR]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survival parameters using [ind_Progression]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survival parameters using [index_additional_survival_time]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "detected survival parameters using condition: [is.null(surv.mat)&&(selection=='SURV')]"
[1] "survival parameters accumulated so far"
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "************ conversion from categorical data to rank data ********** "
[1] "****** SUMMARY ***** "
Output Data has 1085 columns, 1 survival variables, and 8 non-survival variables.
[1] "* survival variables: "
[1] "DAYS_TO_DEATH_OR_LAST_FUP" "VITAL_STATUS"             
[1] "* non-survival variables: "
[1] "YEARS_TO_BIRTH"              "TUMOR_TISSUE_SITE"          
[3] "GENDER"                      "RADIATION_THERAPY"          
[5] "KARNOFSKY_PERFORMANCE_SCORE" "HISTOLOGICAL_TYPE"          
[7] "RACE"                        "ETHNICITY"                  
YEARS_TO_BIRTH, nv=74, binary=FALSE, numeric=TRUE
TUMOR_TISSUE_SITE, nv=2, binary=FALSE, numeric=FALSE
GENDER, nv=2, binary=FALSE, numeric=FALSE
RADIATION_THERAPY, nv=2, binary=FALSE, numeric=FALSE
KARNOFSKY_PERFORMANCE_SCORE, nv=9, binary=FALSE, numeric=TRUE
HISTOLOGICAL_TYPE, nv=6, binary=FALSE, numeric=FALSE
RACE, nv=4, binary=FALSE, numeric=FALSE
ETHNICITY, nv=2, binary=FALSE, numeric=FALSE

Clustering(1) Variable = 1P GAIN MUTATION ANALYSIS
D1V1, survival
                   sevent
clus2                 0   1
  1P GAIN MUTATED    22  73
  1P GAIN WILD-TYPE 458 525
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
               95               983 
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
               73               525 
$`1P GAIN MUTATED`
TCGA-CS-6665 TCGA-06-5856 TCGA-06-6698 TCGA-12-1598 TCGA-12-3653 TCGA-14-0783 
       51.55         3.75         4.77        15.65        14.53         6.21 
TCGA-14-1034 TCGA-14-1452 TCGA-14-1454 TCGA-14-1794 TCGA-14-1823 TCGA-14-1827 
       15.95         7.10        30.18         0.99        17.85         5.88 
TCGA-14-3477 TCGA-19-1786 TCGA-19-1787 TCGA-19-2625 TCGA-19-4065 TCGA-26-1440 
        3.78         7.17        12.66         4.08         7.04         9.73 
TCGA-26-5132 TCGA-28-1752 TCGA-28-2509 TCGA-32-1970 TCGA-32-1987 TCGA-32-2634 
        9.40         8.48         4.77        15.39        14.86        22.78 
TCGA-32-4210 TCGA-32-5222 TCGA-74-6584 TCGA-76-4934 TCGA-CS-4941 TCGA-DU-7010 
        3.72        19.23         7.50         2.53         7.69        14.99 
TCGA-DU-7290 TCGA-DU-8165 TCGA-DU-A5TT TCGA-E1-5304 TCGA-E1-A7YD TCGA-E1-A7YQ 
       10.36        19.13        24.43        41.13        14.30        51.88 
TCGA-HT-7686 TCGA-HT-A4DS TCGA-S9-A6WM TCGA-TM-A84I TCGA-06-0209 TCGA-02-0001 
       42.74         0.23        19.86        28.08         7.63        11.77 
TCGA-02-0052 TCGA-02-0055 TCGA-02-0106 TCGA-02-0113 TCGA-02-0266 TCGA-02-0330 
       12.59         2.50        11.67        92.65        17.72        15.91 
TCGA-02-0332 TCGA-02-0451 TCGA-02-0456 TCGA-02-2483 TCGA-06-0128 TCGA-06-0130 
       25.71        16.21         3.35        15.32        22.72        12.95 
TCGA-06-0133 TCGA-06-0152 TCGA-06-0168 TCGA-06-0177 TCGA-06-0182 TCGA-06-0188 
       14.30        12.33        19.66         4.18         3.65        44.58 
TCGA-06-0192 TCGA-06-0195 TCGA-06-0206 TCGA-06-0216 TCGA-06-0237 TCGA-06-0410 
       38.96         7.40         7.66        24.16        13.64         4.70 
TCGA-06-0414 TCGA-06-0644 TCGA-06-0645 TCGA-06-0649 TCGA-06-1084 TCGA-06-1087 
       35.11        12.62         5.75         2.10        23.93         4.04 
TCGA-06-2557 TCGA-08-0349 TCGA-08-0350 TCGA-08-0386 TCGA-08-0531 TCGA-12-0619 
        1.08         9.80        29.23        18.02         7.56        34.92 
TCGA-12-0662 TCGA-12-0773 TCGA-12-0826 TCGA-12-1090 TCGA-12-1098 TCGA-12-1099 
       38.17        43.23        27.78         7.59         3.98         4.14 
TCGA-14-0813 TCGA-14-0817 TCGA-14-0867 TCGA-15-0742 TCGA-15-1447 TCGA-15-1449 
        1.35         5.39         2.04        13.78        53.19        13.28 
TCGA-19-0962 TCGA-26-6173 TCGA-28-5207 TCGA-28-5216 TCGA-76-6283 
        0.66         7.92        11.28        13.64         5.42 

$`1P GAIN WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        1.48         3.98        46.88        46.72        31.82        42.05 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       62.01        17.16        23.90        20.09        17.82        20.45 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 
       18.64        21.40        45.60        42.77        59.38        15.32 
TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 
       11.74         3.55         8.35         4.54         8.81         8.98 
TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 
        8.55         6.71         2.73         6.15         4.57         5.23 
TCGA-06-6695 TCGA-06-6697 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 
        8.32        12.85         1.55         4.77         4.96        26.79 
TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 
        1.87         3.12         2.56        14.60        17.72        15.35 
TCGA-12-1092 TCGA-12-1599 TCGA-12-1600 TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 
       21.73        25.68        14.73         6.77        59.77        44.02 
TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-5295 
       26.93        15.22        10.95        12.69        34.92        14.93 
TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0786 
        3.22         2.04        15.12        11.97         0.95        23.05 
TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1395 
       13.78         3.25         2.89        16.50        26.33         1.38 
TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1453 
        1.12         3.75        32.05        58.78        23.11         1.15 
TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1795 TCGA-14-1821 
        0.92        40.96         6.67        12.43         1.97        17.79 
TCGA-14-1825 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-4157 TCGA-16-0848 
        7.63         7.17        17.49         7.96         3.42        17.59 
TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 
       29.03         4.57        10.29        14.01         9.14        21.24 
TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 
       13.97         6.41         8.61        14.27         3.39        25.38 
TCGA-19-1392 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 
        3.65         3.25         0.13         9.67         4.87         1.08 
TCGA-19-2623 TCGA-19-2624 TCGA-19-2629 TCGA-19-2631 TCGA-19-5947 TCGA-19-5950 
        7.53         0.16        24.23         7.00         6.64        17.19 
TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 
        8.02        18.90         4.73        12.10         1.78        22.49 
TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 
       14.07        16.80        14.96        17.79        28.54        10.03 
TCGA-26-1439 TCGA-26-1443 TCGA-26-1799 TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX 
       13.87         7.13         9.37         8.88        18.97        19.33 
TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 
        5.06        16.60         9.86        24.23        40.54        21.30 
TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 
       30.05        14.04        11.51        24.76        18.08        16.77 
TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 
       16.08         7.59         2.86        14.40        15.78         0.20 
TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1753 TCGA-28-1755 
        2.53         9.21         8.35         7.63         1.22         1.55 
TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-32-1973 TCGA-32-1976 
        2.83         0.13         0.66         6.74        21.07         0.49 
TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 
        0.10        15.85        19.50         1.18         4.67        12.69 
TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 TCGA-32-2632 
       16.93        12.23        20.78        15.02        15.95         8.84 
TCGA-32-2638 TCGA-32-4208 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-41-2571 
       25.18        21.14        12.59        19.86        10.85         0.85 
TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 
       13.35         8.94         9.53         0.99         4.44        11.84 
TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T 
        0.20        15.12        12.46         4.08         1.45        25.58 
TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-76-4925 
        3.45        20.91         4.34        14.33         8.22         4.80 
TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4935 TCGA-76-6191 
        4.54         3.09         3.65         9.17        36.85        16.70 
TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 
        3.29         2.70        17.06         8.35        20.98         4.83 
TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R 
        5.03        23.90        34.45        18.64        36.20         5.92 
TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 
        6.28        20.55       117.50        43.89        36.36        60.10 
TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.26        21.01        53.62         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 
       26.76        37.38        46.95        48.30        49.94        49.12 
TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 
      122.73        81.96        75.25        47.93        72.92        50.86 
TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA 
       91.13        44.52        36.56        78.28        46.42        18.84 
TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH 
       30.21        39.78        37.45        33.57        72.95        31.63 
TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S 
       24.20        25.48        30.12         5.98        31.40        27.45 
TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L 
       27.81        29.23        14.40        18.51        12.10        11.24 
TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 
       17.88        30.74        16.18        19.96        63.88        46.06 
TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR 
       24.59        30.21        27.81        17.19        17.19        54.25 
TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 
       23.21        17.46        13.71        18.61        18.02        14.56 
TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 
       17.46         6.74        13.38         8.45         6.81       182.33 
TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 
       18.94        17.49        15.16       211.17        52.11        22.42 
TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 
       49.02        75.16        46.06        65.75         1.22        87.45 
TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 
        7.04        11.64       133.74        19.89        16.83        94.52 
TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 
      114.08         7.96         2.40        11.47        62.96       156.23 
TCGA-DU-7009 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 
      154.36       105.21         6.54         8.84       117.40        90.77 
TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 
       30.67        26.30         7.96        94.32        18.94        44.02 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 
       25.91        60.30        23.31        41.98         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8166 TCGA-DU-8167 
       23.74        14.60        20.68        21.40        16.96        15.48 
TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TU TCGA-DU-A5TW 
       14.17        33.27        29.85        31.69        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       33.96        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA 
       11.41        26.76        21.30        17.98       139.04        84.33 
TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ 
       51.52        37.38         7.50        44.42        38.89         0.56 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 
       50.14        67.46        79.99        57.93       134.27        78.21 
TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ 
       95.57       130.78        29.13        93.21         3.65        19.46 
TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YS TCGA-E1-A7YU 
       12.43        16.18        21.30        75.02        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       18.44        15.35        17.88        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 
       28.34        13.68        14.24        16.01        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY 
       32.61        38.27        10.72        18.38        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y 
       14.76        21.53        15.02        16.44        22.26        28.54 
TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 
       10.78        36.66        48.69         5.72        27.52         0.10 
TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 
        6.67        11.54        40.11         0.13         0.03        16.54 
TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 
        3.75        17.42         6.54        24.26         6.38        40.34 
TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 
       75.19        95.93       106.95       172.77         4.01         5.03 
TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 
       29.85        23.18       122.47         4.57        17.29         3.16 
TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 
       22.06        45.99        56.09        57.60         0.23        14.27 
TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7687 
        0.16        16.24         0.76        44.68         6.05         0.10 
TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 
       31.69        14.96         0.10         0.10         2.96        17.52 
TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 
        6.90        14.53        39.48        19.23        39.09         0.23 
TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 
       50.63         0.49        23.61        37.15         0.33         0.13 
TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 
        3.68         5.33        35.47         3.72        11.28        31.43 
TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 
        1.64        16.24         9.40        63.55         0.10        37.87 
TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 
       33.01        12.23         6.25         0.10         0.46         2.50 
TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 
        5.56        13.78         0.23        29.59        34.19        28.27 
TCGA-HT-8564 TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA 
       15.72        26.04         0.13        20.22         0.07        27.35 
TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 
        0.10         5.33         2.70        16.93         1.81        16.14 
TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K 
       16.83        17.52        17.65         2.43        10.52        15.35 
TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 
       11.05         0.10        56.58        45.44        41.49        68.32 
TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 
       69.27        35.44        39.75        40.01        42.54        24.92 
TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X 
       31.63        12.76        28.87        20.71        19.00        14.40 
TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ 
       14.40         0.23         6.71         7.99         2.37         2.30 
TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U 
        9.44         5.88         7.96         7.59         1.28         0.23 
TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 
       10.42        13.25        11.64        10.95         9.01        13.61 
TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 
        9.60         7.56        12.23        19.20         3.45         2.37 
TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z 
        4.41        15.16         2.53        12.62        15.85        14.04 
TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY 
       19.33        14.83        14.53        13.61        12.23        13.41 
TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 
        9.17        10.29        14.53        16.34        16.73         1.91 
TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML 
       16.50        16.70        11.08        12.99        88.83        94.03 
TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 
       32.65        30.87         5.46         9.90        28.08         2.07 
TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW 
       19.59        30.67        62.17        87.12        18.77        41.10 
TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 
       40.93        35.38        36.82        24.39        25.81        29.85 
TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB 
       32.61        35.15        98.24        95.93         5.85       123.65 
TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL 
       75.25       135.22        85.55        38.56        84.99        31.10 
TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS 
       26.47        18.61        18.64        14.07        36.13         7.92 
TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 
       26.93        23.51        19.99        20.02         8.19         2.04 
TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 
       20.68        15.06        18.54        28.37        27.16       169.84 
TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V 
       10.39        99.06        30.05        98.63        31.59        18.71 
TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF 
       20.48        54.77        48.33        49.32        34.78        65.39 
TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84J 
       24.92        16.18        59.05        40.64        30.44        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ 
       23.80        21.37        19.69        15.98         2.04        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ 
       44.09        36.69        33.73        31.20        30.05        26.14 
TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 
       25.87        33.93        61.41        26.99        31.36        45.93 
TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF 
       43.20        13.51         0.10         7.89        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 
       23.47        37.05        16.01        23.21         8.05        51.06 
TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C 
       13.32        43.96        39.88        43.40        45.80        46.88 
TCGA-WY-A85D TCGA-WY-A85E TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 
       37.71        20.81         4.73        18.35        23.18        10.59 
TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 
       35.41        20.71        82.59        20.61        87.06        77.65 
TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 
       20.12        53.10        42.74        24.59        12.16        90.58 
TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 
        2.83        14.14         3.62        10.72        10.52        18.31 
TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 TCGA-02-0051 TCGA-02-0054 TCGA-02-0057 
        6.87        14.73         3.22        15.09         6.54        19.86 
TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 
        8.35         9.57         6.02        19.73        26.43        28.70 
TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 TCGA-02-0079 TCGA-02-0080 
       25.05         5.49        10.19        20.84        27.25        89.72 
TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 
       22.72        12.62        51.32         8.81        57.76        16.96 
TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0107 TCGA-02-0111 TCGA-02-0114 
        3.48        27.02        65.00        17.65        23.18        99.98 
TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0269 TCGA-02-0271 
       15.65        48.95        16.54        16.93        10.75        14.47 
TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 
        3.98        13.87        14.20        15.95        12.23         9.90 
TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 
        7.73        10.62         7.33         4.37        25.12        10.59 
TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 
       12.39        14.50        10.55        47.11        11.34         9.27 
TCGA-02-2466 TCGA-02-2470 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 
       16.80        12.92        15.45        20.32         2.70         6.15 
TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0129 TCGA-06-0132 
       20.38        47.61         6.94         3.98        33.67        25.35 
TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 
       26.70        24.23        11.90         0.20        10.29         2.20 
TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 
       11.74         2.33        20.09        17.79        10.09         8.61 
TCGA-06-0150 TCGA-06-0151 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 
       19.46        46.59        13.94        10.45         3.19        10.82 
TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 
        9.44        11.80         3.42        56.91        10.65         5.85 
TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 
        3.29        13.12         4.47         3.22         4.04        91.00 
TCGA-06-0178 TCGA-06-0179 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0189 
       88.14        20.25        69.90        73.84        27.22        15.42 
TCGA-06-0190 TCGA-06-0194 TCGA-06-0197 TCGA-06-0201 TCGA-06-0208 TCGA-06-0210 
       10.42         4.67         5.56         0.39         8.42         7.40 
TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 TCGA-06-0219 TCGA-06-0221 TCGA-06-0238 
       11.84         0.53        15.02         0.72        19.82        13.32 
TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 
       20.42        48.69        10.82         9.01         0.26        72.36 
TCGA-06-0412 TCGA-06-0413 TCGA-06-0646 TCGA-06-0648 TCGA-06-0650 TCGA-06-0686 
        9.57         3.16         5.75         9.80        23.57        14.20 
TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 
       26.40        46.88         7.86         2.70         2.70         0.92 
TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 
       43.46        46.19         7.17        40.41        16.57        20.78 
TCGA-06-0939 TCGA-06-1086 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 
       26.76         6.84        26.79        11.84        15.32        13.61 
TCGA-06-1805 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 
       33.90        12.49         4.93        17.65        12.56        30.64 
TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 
        5.95        16.64         5.98         4.37         0.43        31.50 
TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 TCGA-08-0245 
        7.79         5.39       120.56         7.36        22.68        37.84 
TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 
        4.18       115.86         1.74         8.42        25.71        12.16 
TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 
       65.33         1.28         8.42        17.95        24.56        31.10 
TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0389 
       37.58        22.29         3.39        12.23        14.93        15.35 
TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 TCGA-08-0510 TCGA-08-0512 TCGA-08-0514 
       13.97         0.72        12.56         4.27        42.15        11.08 
TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 
       19.59        58.68        19.33        10.75         4.80         7.27 
TCGA-08-0525 TCGA-08-0529 TCGA-12-0616 TCGA-12-0618 TCGA-12-0620 TCGA-12-0654 
       15.98        18.41        14.73        12.99        10.45         7.59 
TCGA-12-0656 TCGA-12-0657 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 
       94.78         0.10        25.97        26.66        12.13         3.65 
TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0775 TCGA-12-0776 
       20.38        28.41        15.06        53.85         7.63         9.73 
TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 
       14.93        14.86        91.76        24.79        18.48        10.62 
TCGA-12-0822 TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 
       23.51        38.76         8.94        20.58       127.59         5.82 
TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 
       33.21        15.98        12.23        15.85         9.11        14.53 
TCGA-14-0787 TCGA-14-0789 TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-1444 
        2.24        11.24        28.93        19.30         0.79        50.53 
TCGA-15-1446 TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 
       19.10         3.91        26.07        16.37        11.77        21.90 
TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1388 TCGA-19-1389 TCGA-26-1442 
       10.75         9.07         5.95        12.95         4.64        31.33 
TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 
       14.86         5.49         1.58         2.33         7.30         5.26 
TCGA-28-5204 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 
       14.93        17.88        14.53        11.77        31.27        23.44 
TCGA-28-5215 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 
       11.01         5.16        22.68        12.76         5.42         7.36 
TCGA-76-6280 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
       11.38         3.75         1.61        17.72        26.30 

  1P GAIN MUTATED 1P GAIN WILD-TYPE 
             0.23              0.03 
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
            92.65            211.17 
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
            12.59             16.57 
[1] "0.2 - 92.7 (12.6)"  "0.0 - 211.2 (16.6)"
[1] "hr=" "2.1"
D1V2, continuous
D1V3, binary
                   cls
clus                  0   1
  1P GAIN MUTATED    82  13
  1P GAIN WILD-TYPE 491 499
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1P GAIN MUTATED     82   13
  1P GAIN WILD-TYPE  491  499
                        clus
vv                       1P GAIN MUTATED 1P GAIN WILD-TYPE
  BRAIN                               82               491
  CENTRAL NERVOUS SYSTEM              13               499
[1] 2 2
[1] FALSE
D1V4, binary
                   cls
clus                  0   1
  1P GAIN MUTATED    43  52
  1P GAIN WILD-TYPE 410 580
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1P GAIN MUTATED     43   52
  1P GAIN WILD-TYPE  410  580
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  FEMALE              43               410
  MALE                52               580
[1] 2 2
[1] FALSE
D1V5, binary
                   cls
clus                  0   1
  1P GAIN MUTATED    16  76
  1P GAIN WILD-TYPE 242 694
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1P GAIN MUTATED     16   76
  1P GAIN WILD-TYPE  242  694
     clus
vv    1P GAIN MUTATED 1P GAIN WILD-TYPE
  NO               16               242
  YES              76               694
[1] 2 2
[1] FALSE
D1V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  1P GAIN MUTATED            10                             1                0
  1P GAIN WILD-TYPE         184                            29              129
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  1P GAIN MUTATED                   3                   1
  1P GAIN WILD-TYPE               186                  17
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  1P GAIN MUTATED                                80
  1P GAIN WILD-TYPE                             445
D1V7, multiclass
                                 clus
vv                                1P GAIN MUTATED 1P GAIN WILD-TYPE
  ASTROCYTOMA                                  10               184
  GLIOBLASTOMA MULTIFORME (GBM)                 1                29
  OLIGOASTROCYTOMA                              0               129
  OLIGODENDROGLIOMA                             3               186
  TREATED PRIMARY GBM                           1                17
  UNTREATED PRIMARY (DE NOVO) GBM              80               445
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  1P GAIN MUTATED                                  0     2
  1P GAIN WILD-TYPE                                1    19
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  1P GAIN MUTATED                           7    81
  1P GAIN WILD-TYPE                        64   878
D1V8, multiclass
                                  clus
vv                                 1P GAIN MUTATED 1P GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          2                19
  BLACK OR AFRICAN AMERICAN                      7                64
  WHITE                                         81               878
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D1V9, binary
                   cls
clus                  0   1
  1P GAIN MUTATED     2  76
  1P GAIN WILD-TYPE  42 845
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1P GAIN MUTATED      2   76
  1P GAIN WILD-TYPE   42  845
                        clus
vv                       1P GAIN MUTATED 1P GAIN WILD-TYPE
  HISPANIC OR LATINO                   2                42
  NOT HISPANIC OR LATINO              76               845
[1] 2 2
[1] FALSE

Clustering(2) Variable = 1Q GAIN MUTATION ANALYSIS
D2V1, survival
                   sevent
clus2                 0   1
  1Q GAIN MUTATED    33  79
  1Q GAIN WILD-TYPE 447 519
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
              112               966 
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               79               519 
$`1Q GAIN MUTATED`
TCGA-CS-6665 TCGA-06-5856 TCGA-06-6698 TCGA-06-A5U0 TCGA-12-1598 TCGA-12-3653 
       51.55         3.75         4.77        26.79        15.65        14.53 
TCGA-14-0783 TCGA-14-0865 TCGA-14-1452 TCGA-14-1454 TCGA-14-1794 TCGA-14-1823 
        6.21        16.50         7.10        30.18         0.99        17.85 
TCGA-14-3477 TCGA-19-1786 TCGA-19-1791 TCGA-19-2625 TCGA-19-4065 TCGA-26-1440 
        3.78         7.17         0.13         4.08         7.04         9.73 
TCGA-26-5132 TCGA-28-1752 TCGA-28-2509 TCGA-32-1970 TCGA-32-1987 TCGA-32-2632 
        9.40         8.48         4.77        15.39        14.86         8.84 
TCGA-32-2634 TCGA-32-4210 TCGA-32-5222 TCGA-41-5651 TCGA-74-6584 TCGA-76-4934 
       22.78         3.72        19.23        15.12         7.50         2.53 
TCGA-CS-4941 TCGA-DB-A64L TCGA-DU-6392 TCGA-DU-7010 TCGA-DU-7015 TCGA-DU-7290 
        7.69        24.20       211.17        14.99        90.77        10.36 
TCGA-DU-8162 TCGA-DU-8165 TCGA-DU-A5TT TCGA-DU-A7TB TCGA-E1-5304 TCGA-E1-A7YD 
       14.60        19.13        24.43        51.52        41.13        14.30 
TCGA-E1-A7YQ TCGA-HT-7475 TCGA-HT-7688 TCGA-HT-A4DS TCGA-S9-A6WM TCGA-TM-A84B 
       51.88        17.42        31.69         0.23        19.86        24.92 
TCGA-TM-A84I TCGA-VM-A8CA TCGA-VM-A8CF TCGA-WH-A86K TCGA-06-0209 TCGA-02-0001 
       28.08        13.51        20.02        13.32         7.63        11.77 
TCGA-02-0024 TCGA-02-0052 TCGA-02-0055 TCGA-02-0106 TCGA-02-0113 TCGA-02-0266 
       53.10        12.59         2.50        11.67        92.65        17.72 
TCGA-02-0330 TCGA-02-0451 TCGA-02-0456 TCGA-02-2483 TCGA-06-0128 TCGA-06-0130 
       15.91        16.21         3.35        15.32        22.72        12.95 
TCGA-06-0133 TCGA-06-0152 TCGA-06-0168 TCGA-06-0177 TCGA-06-0182 TCGA-06-0188 
       14.30        12.33        19.66         4.18         3.65        44.58 
TCGA-06-0192 TCGA-06-0195 TCGA-06-0206 TCGA-06-0216 TCGA-06-0237 TCGA-06-0409 
       38.96         7.40         7.66        24.16        13.64        72.36 
TCGA-06-0410 TCGA-06-0414 TCGA-06-0645 TCGA-06-0649 TCGA-06-1084 TCGA-06-1087 
        4.70        35.11         5.75         2.10        23.93         4.04 
TCGA-06-2557 TCGA-06-2569 TCGA-08-0349 TCGA-08-0350 TCGA-08-0386 TCGA-08-0524 
        1.08         0.43         9.80        29.23        18.02         7.27 
TCGA-08-0531 TCGA-12-0619 TCGA-12-0662 TCGA-12-0773 TCGA-12-0826 TCGA-12-0827 
        7.56        34.92        38.17        43.23        27.78        38.76 
TCGA-12-1090 TCGA-12-1098 TCGA-12-1099 TCGA-14-0813 TCGA-14-0817 TCGA-14-0867 
        7.59         3.98         4.14         1.35         5.39         2.04 
TCGA-14-0871 TCGA-15-0742 TCGA-15-1447 TCGA-15-1449 TCGA-19-0962 TCGA-26-6173 
       28.93        13.78        53.19        13.28         0.66         7.92 
TCGA-28-5207 TCGA-28-5216 TCGA-28-5218 TCGA-76-6283 
       11.28        13.64         5.16         5.42 

$`1Q GAIN WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        1.48         3.98        46.88        46.72        31.82        42.05 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       62.01        17.16        23.90        20.09        17.82        20.45 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 
       18.64        21.40        45.60        42.77        59.38        15.32 
TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 
       11.74         3.55         8.35         4.54         8.81         8.98 
TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 
        8.55         6.71         2.73         6.15         4.57         5.23 
TCGA-06-6695 TCGA-06-6697 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U1 
        8.32        12.85         1.55         4.77         4.96         1.87 
TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 
        3.12         2.56        14.60        17.72        15.35        21.73 
TCGA-12-1599 TCGA-12-1600 TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 
       25.68        14.73         6.77        59.77        44.02        26.93 
TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-5295 TCGA-12-5299 
       15.22        10.95        12.69        34.92        14.93         3.22 
TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0786 TCGA-14-0790 
        2.04        15.12        11.97         0.95        23.05        13.78 
TCGA-14-0812 TCGA-14-0862 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 
        3.25         2.89        26.33        15.95         1.38         1.12 
TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1453 TCGA-14-1455 
        3.75        32.05        58.78        23.11         1.15         0.92 
TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1795 TCGA-14-1821 TCGA-14-1825 
       40.96         6.67        12.43         1.97        17.79         7.63 
TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-4157 TCGA-16-0848 
        5.88         7.17        17.49         7.96         3.42        17.59 
TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 
       29.03         4.57        10.29        14.01         9.14        21.24 
TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 
       13.97         6.41         8.61        14.27         3.39        25.38 
TCGA-19-1392 TCGA-19-1787 TCGA-19-1789 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 
        3.65        12.66         3.25         9.67         4.87         1.08 
TCGA-19-2623 TCGA-19-2624 TCGA-19-2629 TCGA-19-2631 TCGA-19-5947 TCGA-19-5950 
        7.53         0.16        24.23         7.00         6.64        17.19 
TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 
        8.02        18.90         4.73        12.10         1.78        22.49 
TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 
       14.07        16.80        14.96        17.79        28.54        10.03 
TCGA-26-1439 TCGA-26-1443 TCGA-26-1799 TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX 
       13.87         7.13         9.37         8.88        18.97        19.33 
TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 
        5.06        16.60         9.86        24.23        40.54        21.30 
TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 
       30.05        14.04        11.51        24.76        18.08        16.77 
TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 
       16.08         7.59         2.86        14.40        15.78         0.20 
TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1753 TCGA-28-1755 
        2.53         9.21         8.35         7.63         1.22         1.55 
TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-32-1973 TCGA-32-1976 
        2.83         0.13         0.66         6.74        21.07         0.49 
TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 
        0.10        15.85        19.50         1.18         4.67        12.69 
TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 TCGA-32-2638 
       16.93        12.23        20.78        15.02        15.95        25.18 
TCGA-32-4208 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-41-2571 TCGA-41-2572 
       21.14        12.59        19.86        10.85         0.85        13.35 
TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 TCGA-41-4097 
        8.94         9.53         0.99         4.44        11.84         0.20 
TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 
       12.46         4.08         1.45        25.58         3.45        20.91 
TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 
        4.34        14.33         8.22         4.80         4.54         3.09 
TCGA-76-4929 TCGA-76-4931 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 
        3.65         9.17        36.85        16.70         3.29         2.70 
TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 
       17.06         8.35        20.98         4.83         5.03        23.90 
TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC 
       34.45        18.64        36.20         5.92         6.28        20.55 
TCGA-CS-4938 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 
      117.50        43.89        36.36        60.10        40.18         0.26 
TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 
       21.01        53.62         6.38        17.69        26.76        37.38 
TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 
       46.95        48.30        49.94        49.12       122.73        81.96 
TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 
       75.25        47.93        72.92        50.86        91.13        44.52 
TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD 
       36.56        78.28        46.42        18.84        30.21        39.78 
TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64O TCGA-DB-A64P 
       37.45        33.57        72.95        31.63        25.48        30.12 
TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W 
        5.98        31.40        27.45        27.81        29.23        14.40 
TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D 
       19.96        63.88        46.06        24.59        30.21        27.81 
TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU 
       17.19        17.19        54.25        23.21        17.46        13.71 
TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 
       18.61        18.02        14.56        17.46         6.74        13.38 
TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 
        8.45         6.81       182.33        18.94        17.49        15.16 
TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
       52.11        22.42        49.02        75.16        46.06        65.75 
TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
        1.22        87.45         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 
       16.83        94.52       114.08         7.96         2.40        11.47 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 
       62.96       156.23       154.36       105.21         6.54         8.84 
TCGA-DU-7014 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 
      117.40        30.67        26.30         7.96        94.32        18.94 
TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 
       44.02        25.91        60.30        23.31        41.98         2.76 
TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8166 TCGA-DU-8167 
        5.10        23.74        20.68        21.40        16.96        15.48 
TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TU TCGA-DU-A5TW 
       14.17        33.27        29.85        31.69        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       33.96        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA 
       11.41        26.76        21.30        17.98       139.04        84.33 
TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 
       37.38         7.50        44.42        38.89         0.56        50.14 
TCGA-E1-5303 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 
       67.46        79.99        57.93       134.27        78.21        95.57 
TCGA-E1-5322 TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK 
      130.78        29.13        93.21         3.65        19.46        12.43 
TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV 
       16.18        21.30        75.02        15.32         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       36.82       146.14        13.08        73.48       145.05        32.35 
TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 
       39.48         0.23         0.20        47.77        25.48        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 
       15.35        17.88        22.55        20.61        20.09        28.34 
TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 
       13.68        14.24        16.01        14.96        22.52        32.61 
TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J 
       38.27        10.72        18.38        18.71        23.70        14.76 
TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z 
       21.53        15.02        16.44        22.26        28.54        10.78 
TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 
       36.66        48.69         5.72        27.52         0.10         6.67 
TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
       11.54        40.11         0.13         0.03        16.54         3.75 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
        6.54        24.26         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7689 
        0.76        44.68         6.05        42.74         0.10        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
        0.10         0.10         2.96        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 
       39.48        19.23        39.09         0.23        50.63         0.49 
TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
       23.61        37.15         0.33         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 
       35.47         3.72        11.28        31.43         1.64        16.24 
TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 
        9.40        63.55         0.10        37.87        33.01        12.23 
TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 
        6.25         0.10         0.46         2.50         5.56        13.78 
TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DV 
        0.23        29.59        34.19        28.27        15.72        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC 
        0.13        20.22         0.07        27.35         0.10         5.33 
TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B 
        2.70        16.93         1.81        16.14        16.83        17.52 
TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O 
       17.65         2.43        10.52        15.35        11.05         0.10 
TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 
       56.58        45.44        41.49        68.32        69.27        35.44 
TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK 
       39.75        40.01        42.54        24.92        31.63        12.76 
TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV 
       28.87        20.71        19.00        14.40        14.40         0.23 
TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 
        6.71         7.99         2.37         2.30         9.44         5.88 
TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X 
        7.96         7.59         1.28         0.23        10.42        13.25 
TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 
       11.64        10.95         9.01        13.61         9.60         7.56 
TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R 
       12.23        19.20         3.45         2.37         4.41        15.16 
TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU 
        2.53        12.62        15.85        14.04        19.33        14.83 
TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 
       14.53        13.61        12.23        13.41         9.17        10.29 
TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC 
       14.53        16.34        16.73         1.91        16.50        16.70 
TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X 
       11.08        12.99        88.83        94.03        32.65        30.87 
TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
        5.46         9.90        28.08         2.07        19.59        30.67 
TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY 
       62.17        87.12        18.77        41.10        40.93        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       36.82        24.39        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE 
       98.24        95.93         5.85       123.65        75.25       135.22 
TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WN TCGA-S9-A6WO 
       85.55        38.56        84.99        31.10        26.47        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.64        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       18.54        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       30.05        98.63        31.59        18.71        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84C TCGA-TM-A84F 
       48.33        49.32        34.78        65.39        16.18        59.05 
TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O 
       40.64        30.44        24.16        40.83        24.79        33.24 
TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG 
       25.38        18.61        14.93        23.80        21.37        19.69 
TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN 
       15.98         2.04        40.41        44.09        36.69        33.73 
TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV 
       31.20        30.05        26.14        25.87        33.93        61.41 
TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CB TCGA-VM-A8CD 
       26.99        31.36        45.93        43.20         0.10         7.89 
TCGA-VM-A8CE TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI 
       39.16        23.47        37.05        16.01        23.21         8.05 
TCGA-W9-A837 TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C 
       51.06        43.96        39.88        43.40        45.80        46.88 
TCGA-WY-A85D TCGA-WY-A85E TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 
       37.71        20.81         4.73        18.35        23.18        10.59 
TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 
       35.41        20.71        82.59        20.61        87.06        77.65 
TCGA-02-0023 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 
       20.12        42.74        24.59        12.16        90.58         2.83 
TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 
       14.14         3.62        10.72        10.52        18.31         6.87 
TCGA-02-0047 TCGA-02-0048 TCGA-02-0051 TCGA-02-0054 TCGA-02-0057 TCGA-02-0058 
       14.73         3.22        15.09         6.54        19.86         8.35 
TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 
        9.57         6.02        19.73        26.43        28.70        25.05 
TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 
        5.49        10.19        20.84        27.25        89.72        22.72 
TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 
       12.62        51.32         8.81        57.76        16.96         3.48 
TCGA-02-0102 TCGA-02-0104 TCGA-02-0107 TCGA-02-0111 TCGA-02-0114 TCGA-02-0115 
       27.02        65.00        17.65        23.18        99.98        15.65 
TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0269 TCGA-02-0271 TCGA-02-0281 
       48.95        16.54        16.93        10.75        14.47         3.98 
TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 
       13.87        14.20        15.95        12.23         9.90         7.73 
TCGA-02-0325 TCGA-02-0326 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 
       10.62         7.33        25.71         4.37        25.12        10.59 
TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 
       12.39        14.50        10.55        47.11        11.34         9.27 
TCGA-02-2466 TCGA-02-2470 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 
       16.80        12.92        15.45        20.32         2.70         6.15 
TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0129 TCGA-06-0132 
       20.38        47.61         6.94         3.98        33.67        25.35 
TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 
       26.70        24.23        11.90         0.20        10.29         2.20 
TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 
       11.74         2.33        20.09        17.79        10.09         8.61 
TCGA-06-0150 TCGA-06-0151 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 
       19.46        46.59        13.94        10.45         3.19        10.82 
TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 
        9.44        11.80         3.42        56.91        10.65         5.85 
TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 
        3.29        13.12         4.47         3.22         4.04        91.00 
TCGA-06-0178 TCGA-06-0179 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0189 
       88.14        20.25        69.90        73.84        27.22        15.42 
TCGA-06-0190 TCGA-06-0194 TCGA-06-0197 TCGA-06-0201 TCGA-06-0208 TCGA-06-0210 
       10.42         4.67         5.56         0.39         8.42         7.40 
TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 TCGA-06-0219 TCGA-06-0221 TCGA-06-0238 
       11.84         0.53        15.02         0.72        19.82        13.32 
TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0412 
       20.42        48.69        10.82         9.01         0.26         9.57 
TCGA-06-0413 TCGA-06-0644 TCGA-06-0646 TCGA-06-0648 TCGA-06-0650 TCGA-06-0686 
        3.16        12.62         5.75         9.80        23.57        14.20 
TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 
       26.40        46.88         7.86         2.70         2.70         0.92 
TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 
       43.46        46.19         7.17        40.41        16.57        20.78 
TCGA-06-0939 TCGA-06-1086 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 
       26.76         6.84        26.79        11.84        15.32        13.61 
TCGA-06-1805 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 
       33.90        12.49         4.93        17.65        12.56        30.64 
TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2570 TCGA-06-6389 
        5.95        16.64         5.98         4.37        31.50         7.79 
TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 
        5.39       120.56         7.36        22.68        37.84         4.18 
TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0351 
      115.86         1.74         8.42        25.71        12.16        65.33 
TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 
        1.28         8.42        17.95        24.56        31.10        37.58 
TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0389 TCGA-08-0390 
       22.29         3.39        12.23        14.93        15.35        13.97 
TCGA-08-0392 TCGA-08-0509 TCGA-08-0510 TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 
        0.72        12.56         4.27        42.15        11.08        19.59 
TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0525 TCGA-08-0529 
       58.68        19.33        10.75         4.80        15.98        18.41 
TCGA-12-0616 TCGA-12-0618 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 
       14.73        12.99        10.45         7.59        94.78         0.10 
TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 
       25.97        26.66        12.13         3.65        20.38        28.41 
TCGA-12-0769 TCGA-12-0772 TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 
       15.06        53.85         7.63         9.73        14.93        14.86 
TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0828 
       91.76        24.79        18.48        10.62        23.51         8.94 
TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 
       20.58       127.59         5.82        33.21        15.98        12.23 
TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-14-0787 TCGA-14-0789 TCGA-14-1037 
       15.85         9.11        14.53         2.24        11.24        19.30 
TCGA-14-1043 TCGA-15-1444 TCGA-15-1446 TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 
        0.79        50.53        19.10         3.91        26.07        16.37 
TCGA-19-0955 TCGA-19-0957 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1388 
       11.77        21.90        10.75         9.07         5.95        12.95 
TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6174 
        4.64        31.33        14.86         5.49         1.58         2.33 
TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 
        7.30         5.26        14.93        17.88        14.53        11.77 
TCGA-28-5213 TCGA-28-5214 TCGA-28-5215 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 
       31.27        23.44        11.01        22.68        12.76         5.42 
TCGA-32-2616 TCGA-76-6280 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        7.36        11.38         3.75         1.61        17.72        26.30 

  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
             0.13              0.03 
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
           211.17            182.33 
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
           13.575            16.520 
[1] "0.1 - 211.2 (13.6)" "0.0 - 182.3 (16.5)"
[1] "hr=" "1.6"
D2V2, continuous
D2V3, binary
                   cls
clus                  0   1
  1Q GAIN MUTATED    89  23
  1Q GAIN WILD-TYPE 484 489
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1Q GAIN MUTATED     89   23
  1Q GAIN WILD-TYPE  484  489
                        clus
vv                       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  BRAIN                               89               484
  CENTRAL NERVOUS SYSTEM              23               489
[1] 2 2
[1] FALSE
D2V4, binary
                   cls
clus                  0   1
  1Q GAIN MUTATED    52  60
  1Q GAIN WILD-TYPE 401 572
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1Q GAIN MUTATED     52   60
  1Q GAIN WILD-TYPE  401  572
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  FEMALE              52               401
  MALE                60               572
[1] 2 2
[1] FALSE
D2V5, binary
                   cls
clus                  0   1
  1Q GAIN MUTATED    22  85
  1Q GAIN WILD-TYPE 236 685
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1Q GAIN MUTATED     22   85
  1Q GAIN WILD-TYPE  236  685
     clus
vv    1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  NO               22               236
  YES              85               685
[1] 2 2
[1] FALSE
D2V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  1Q GAIN MUTATED            13                             2                2
  1Q GAIN WILD-TYPE         181                            28              127
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  1Q GAIN MUTATED                   8                   2
  1Q GAIN WILD-TYPE               181                  16
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  1Q GAIN MUTATED                                85
  1Q GAIN WILD-TYPE                             440
D2V7, multiclass
                                 clus
vv                                1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  ASTROCYTOMA                                  13               181
  GLIOBLASTOMA MULTIFORME (GBM)                 2                28
  OLIGOASTROCYTOMA                              2               127
  OLIGODENDROGLIOMA                             8               181
  TREATED PRIMARY GBM                           2                16
  UNTREATED PRIMARY (DE NOVO) GBM              85               440
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  1Q GAIN MUTATED                                  0     3
  1Q GAIN WILD-TYPE                                1    18
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  1Q GAIN MUTATED                          10    94
  1Q GAIN WILD-TYPE                        61   865
D2V8, multiclass
                                  clus
vv                                 1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          3                18
  BLACK OR AFRICAN AMERICAN                     10                61
  WHITE                                         94               865
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D2V9, binary
                   cls
clus                  0   1
  1Q GAIN MUTATED     2  90
  1Q GAIN WILD-TYPE  42 831
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1Q GAIN MUTATED      2   90
  1Q GAIN WILD-TYPE   42  831
                        clus
vv                       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  HISPANIC OR LATINO                   2                42
  NOT HISPANIC OR LATINO              90               831
[1] 2 2
[1] FALSE

Clustering(3) Variable = 2P GAIN MUTATION ANALYSIS
D3V1, survival
                   sevent
clus2                 0   1
  2P GAIN MUTATED    14  36
  2P GAIN WILD-TYPE 466 562
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
               50              1028 
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
               36               562 
$`2P GAIN MUTATED`
TCGA-06-6391 TCGA-12-3653 TCGA-14-1453 TCGA-14-1823 TCGA-14-3477 TCGA-19-1786 
        1.48        14.53         1.15        17.85         3.78         7.17 
TCGA-19-2629 TCGA-26-1439 TCGA-27-1834 TCGA-32-4210 TCGA-74-6584 TCGA-DB-5274 
       24.23        13.87        40.54         3.72         7.50        75.25 
TCGA-DH-A669 TCGA-DH-A7UR TCGA-DU-8165 TCGA-E1-5304 TCGA-E1-A7YD TCGA-E1-A7YV 
       30.21        54.25        19.13        41.13        14.30        32.45 
TCGA-HT-8564 TCGA-HT-A4DS TCGA-S9-A6WM TCGA-S9-A7J0 TCGA-TM-A84Q TCGA-VM-A8CA 
       15.72         0.23        19.86        20.02        25.38        13.51 
TCGA-VW-A8FI TCGA-02-0001 TCGA-02-0106 TCGA-02-0113 TCGA-02-0281 TCGA-06-0133 
        8.05        11.77        11.67        92.65         3.98        14.30 
TCGA-06-0151 TCGA-06-0192 TCGA-06-0216 TCGA-06-0649 TCGA-06-1086 TCGA-06-1802 
       46.59        38.96        24.16         2.10         6.84        15.32 
TCGA-06-2557 TCGA-06-2569 TCGA-08-0346 TCGA-08-0386 TCGA-08-0510 TCGA-08-0517 
        1.08         0.43         8.42        18.02         4.27        58.68 
TCGA-08-0524 TCGA-12-0778 TCGA-12-1099 TCGA-14-0817 TCGA-14-0871 TCGA-16-0846 
        7.27        14.93         4.14         5.39        28.93         3.91 
TCGA-19-0957 TCGA-28-5218 
       21.90         5.16 

$`2P GAIN WILD-TYPE`
TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        3.98        51.55        46.88        46.72        31.82        42.05 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       62.01        17.16        23.90        20.09        17.82        20.45 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 
       18.64        21.40        45.60        42.77        59.38        15.32 
TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 
       11.74         3.55         8.35         4.54         8.81         8.98 
TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 
        8.55         6.71         2.73         3.75         6.15         4.57 
TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 
        5.23         8.32        12.85         4.77         1.55         4.77 
TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK 
        4.96        26.79         1.87         3.12         2.56        14.60 
TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 
       17.72        15.35        21.73        15.65        25.68        14.73 
TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 
        6.77        59.77        44.02        26.93        15.22        10.95 
TCGA-12-3651 TCGA-12-3652 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 
       12.69        34.92        14.93         3.22         2.04        15.12 
TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 
       11.97         0.95         6.21        23.05        13.78         3.25 
TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 
        2.89        16.50        26.33        15.95         1.38         1.12 
TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1454 
        3.75        32.05        58.78        23.11         7.10        30.18 
TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 
        0.92        40.96         6.67        12.43         0.99         1.97 
TCGA-14-1821 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 
       17.79         7.63         5.88         7.17        17.49         7.96 
TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 
        3.42        17.59        29.03         4.57        10.29        14.01 
TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 
        9.14        21.24        13.97         6.41         8.61        14.27 
TCGA-19-0964 TCGA-19-1390 TCGA-19-1392 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 
        3.39        25.38         3.65        12.66         3.25         0.13 
TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 
        9.67         4.87         1.08         7.53         0.16         4.08 
TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 
        7.00         7.04         6.64        17.19         8.02        18.90 
TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 
        4.73        12.10         1.78        22.49        14.07        16.80 
TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1440 TCGA-26-1443 
       14.96        17.79        28.54        10.03         9.73         7.13 
TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 
        9.37         9.40         8.88        18.97        19.33         5.06 
TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 
       16.60         9.86        24.23        21.30        30.05        14.04 
TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 TCGA-27-2524 
       11.51        24.76        18.08        16.77        16.08         7.59 
TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 
        2.86        14.40        15.78         0.20         2.53         9.21 
TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 
        8.35         7.63         8.48         1.22         1.55         2.83 
TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 TCGA-32-1970 TCGA-32-1973 
        0.13         0.66         6.74         4.77        15.39        21.07 
TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 
        0.49         0.10        15.85        19.50         1.18         4.67 
TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 
       12.69        14.86        16.93        12.23        20.78        15.02 
TCGA-32-2615 TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 TCGA-32-4211 
       15.95         8.84        22.78        25.18        21.14        12.59 
TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 
       19.86        10.85        19.23         0.85        13.35         8.94 
TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 TCGA-41-4097 TCGA-41-5651 
        9.53         0.99         4.44        11.84         0.20        15.12 
TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 
       12.46         4.08         1.45        25.58         3.45        20.91 
TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 
        4.34        14.33         8.22         4.80         4.54         3.09 
TCGA-76-4929 TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 
        3.65         9.17         2.53        36.85        16.70         3.29 
TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 
        2.70        17.06         8.35        20.98         4.83         5.03 
TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA 
       23.90        34.45        18.64        36.20         5.92         6.28 
TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 
       20.55       117.50         7.69        43.89        36.36        60.10 
TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.26        21.01        53.62         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 
       26.76        37.38        46.95        48.30        49.94        49.12 
TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 
      122.73        81.96        47.93        72.92        50.86        91.13 
TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB 
       44.52        36.56        78.28        46.42        18.84        30.21 
TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L 
       39.78        37.45        33.57        72.95        31.63        24.20 
TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U 
       25.48        30.12         5.98        31.40        27.45        27.81 
TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M 
       29.23        14.40        18.51        12.10        11.24        17.88 
TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 
       30.74        16.18        19.96        63.88        46.06        24.59 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU 
       27.81        17.19        17.19        23.21        17.46        13.71 
TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 
       18.61        18.02        14.56        17.46         6.74        13.38 
TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 
        8.45         6.81       182.33        18.94        17.49        15.16 
TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 
      211.17        52.11        22.42        49.02        75.16        46.06 
TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       65.75         1.22        87.45         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 
       19.89        16.83        94.52       114.08         7.96         2.40 
TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 
       11.47        62.96       156.23       154.36        14.99       105.21 
TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
        6.54         8.84       117.40        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 
       10.36         7.96        94.32        18.94        44.02        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 
       60.30        23.31        41.98         2.76         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       14.60        20.68        21.40        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       33.27        29.85        31.69        24.43        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       33.96        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA 
       11.41        26.76        21.30        17.98       139.04        84.33 
TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ 
       51.52        37.38         7.50        44.42        38.89         0.56 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 
       50.14        67.46        79.99        57.93       134.27        78.21 
TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ 
       95.57       130.78        29.13        93.21         3.65        19.46 
TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS 
       12.43        16.18        21.30        75.02        51.88        15.32 
TCGA-E1-A7YU TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
        0.76        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       18.44        15.35        17.88        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 
       28.34        13.68        14.24        16.01        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY 
       32.61        38.27        10.72        18.38        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y 
       14.76        21.53        15.02        16.44        22.26        28.54 
TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 
       10.78        36.66        48.69         5.72        27.52         0.10 
TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 
        6.67        11.54        40.11         0.13         0.03        16.54 
TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 
        3.75        17.42         6.54        24.26         6.38        40.34 
TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 
       75.19        95.93       106.95       172.77         4.01         5.03 
TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 
       29.85        23.18       122.47         4.57        17.29         3.16 
TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 
       22.06        45.99        56.09        57.60         0.23        14.27 
TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 
        0.16        16.24         0.76        44.68         6.05        42.74 
TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 
        0.10        31.69        14.96         0.10         0.10         2.96 
TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 
       17.52         6.90        14.53        39.48        19.23        39.09 
TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 
        0.23        50.63         0.49        23.61        37.15         0.33 
TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 
        0.13         3.68         5.33        35.47         3.72        11.28 
TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 
       31.43         1.64        16.24         9.40        63.55         0.10 
TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 
       37.87        33.01        12.23         6.25         0.10         0.46 
TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 
        2.50         5.56        13.78         0.23        29.59        34.19 
TCGA-HT-8563 TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA 
       28.27        26.04         0.13        20.22         0.07        27.35 
TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 
        0.10         5.33         2.70        16.93         1.81        16.14 
TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K 
       16.83        17.52        17.65         2.43        10.52        15.35 
TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 
       11.05         0.10        56.58        45.44        41.49        68.32 
TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 
       69.27        35.44        39.75        40.01        42.54        24.92 
TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X 
       31.63        12.76        28.87        20.71        19.00        14.40 
TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ 
       14.40         0.23         6.71         7.99         2.37         2.30 
TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U 
        9.44         5.88         7.96         7.59         1.28         0.23 
TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 
       10.42        13.25        11.64        10.95         9.01        13.61 
TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 
        9.60         7.56        12.23        19.20         3.45         2.37 
TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z 
        4.41        15.16         2.53        12.62        15.85        14.04 
TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY 
       19.33        14.83        14.53        13.61        12.23        13.41 
TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 
        9.17        10.29        14.53        16.34        16.73         1.91 
TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML 
       16.50        16.70        11.08        12.99        88.83        94.03 
TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 
       32.65        30.87         5.46         9.90        28.08         2.07 
TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW 
       19.59        30.67        62.17        87.12        18.77        41.10 
TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 
       40.93        35.38        36.82        24.39        25.81        29.85 
TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB 
       32.61        35.15        98.24        95.93         5.85       123.65 
TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL 
       75.25       135.22        85.55        38.56        84.99        31.10 
TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS 
       26.47        18.61        18.64        14.07        36.13         7.92 
TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       26.93        23.51        19.99         8.19         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 
       15.06        18.54        28.37        27.16       169.84        10.39 
TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z 
       99.06        30.05        98.63        31.59        18.71        20.48 
TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B 
       54.77        48.33        49.32        34.78        65.39        24.92 
TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J 
       16.18        59.05        40.64        30.44        28.08        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       40.83        24.79        33.24        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       36.69        33.73        31.20        30.05        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 
       33.93        61.41        26.99        31.36        45.93        43.20 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 
        0.10         7.89        39.16        20.02        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 
       16.01        23.21        51.06        13.32        43.96        39.88 
TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 
       43.40        45.80        46.88        37.71        20.81         7.63 
TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 
        4.73        18.35        23.18        10.59        35.41        20.71 
TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 
       82.59        20.61        87.06        77.65        20.12        53.10 
TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 
       42.74        24.59        12.16        90.58         2.83        14.14 
TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 
        3.62        10.72        10.52        18.31         6.87        14.73 
TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0055 TCGA-02-0057 
        3.22        15.09        12.59         6.54         2.50        19.86 
TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 
        8.35         9.57         6.02        19.73        26.43        28.70 
TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 TCGA-02-0079 TCGA-02-0080 
       25.05         5.49        10.19        20.84        27.25        89.72 
TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 
       22.72        12.62        51.32         8.81        57.76        16.96 
TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0107 TCGA-02-0111 TCGA-02-0114 
        3.48        27.02        65.00        17.65        23.18        99.98 
TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 
       15.65        48.95        16.54        16.93        17.72        10.75 
TCGA-02-0271 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 
       14.47        13.87        14.20        15.95        12.23         9.90 
TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 
        7.73        10.62         7.33        15.91        25.71         4.37 
TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 
       25.12        10.59        12.39        14.50        10.55        47.11 
TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 
       11.34         9.27        16.21         3.35        16.80        12.92 
TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 
       15.32        15.45        20.32         2.70         6.15        20.38 
TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 
       47.61         6.94         3.98        22.72        33.67        12.95 
TCGA-06-0132 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 
       25.35        26.70        24.23        11.90         0.20        10.29 
TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 
        2.20        11.74         2.33        20.09        17.79        10.09 
TCGA-06-0149 TCGA-06-0150 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 
        8.61        19.46        12.33        13.94        10.45         3.19 
TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 
       10.82         9.44        11.80         3.42        56.91        10.65 
TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 
        5.85        19.66         3.29        13.12         4.47         3.22 
TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 
        4.04        91.00         4.18        88.14        20.25         3.65 
TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 TCGA-06-0190 
       69.90        73.84        27.22        44.58        15.42        10.42 
TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 
        4.67         7.40         5.56         0.39         7.66         8.42 
TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 TCGA-06-0219 TCGA-06-0221 
        7.40        11.84         0.53        15.02         0.72        19.82 
TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 
       13.64        13.32        20.42        48.69        10.82         9.01 
TCGA-06-0402 TCGA-06-0409 TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 TCGA-06-0414 
        0.26        72.36         4.70         9.57         3.16        35.11 
TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0650 TCGA-06-0686 
       12.62         5.75         5.75         9.80        23.57        14.20 
TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 
       26.40        46.88         7.86         2.70         2.70         0.92 
TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 
       43.46        46.19         7.17        40.41        16.57        20.78 
TCGA-06-0939 TCGA-06-1084 TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 TCGA-06-1804 
       26.76        23.93         4.04        26.79        11.84        13.61 
TCGA-06-1805 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 
       33.90        12.49         4.93        17.65        12.56        30.64 
TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2570 TCGA-06-6389 
        5.95        16.64         5.98         4.37        31.50         7.79 
TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 
        5.39       120.56         7.36        22.68        37.84         4.18 
TCGA-08-0344 TCGA-08-0345 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 
      115.86         1.74        25.71        12.16         9.80        29.23 
TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 
       65.33         1.28         8.42        17.95        24.56        31.10 
TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0389 
       37.58        22.29         3.39        12.23        14.93        15.35 
TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 
       13.97         0.72        12.56        42.15        11.08        19.59 
TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 
       19.33        10.75         4.80        15.98        18.41         7.56 
TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 
       14.73        12.99        34.92        10.45         7.59        94.78 
TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 
        0.10        38.17        25.97        26.66        12.13         3.65 
TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 
       20.38        28.41        15.06        53.85        43.23         7.63 
TCGA-12-0776 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 
        9.73        14.86        91.76        24.79        18.48        10.62 
TCGA-12-0822 TCGA-12-0826 TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 
       23.51        27.78        38.76         8.94        20.58       127.59 
TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 
        5.82         7.59        33.21        15.98        12.23        15.85 
TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 
        9.11        14.53         3.98         2.24        11.24         1.35 
TCGA-14-0867 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 
        2.04        19.30         0.79        13.78        50.53        19.10 
TCGA-15-1447 TCGA-15-1449 TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 TCGA-19-0962 
       53.19        13.28        26.07        16.37        11.77         0.66 
TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1388 TCGA-19-1389 TCGA-26-1442 
       10.75         9.07         5.95        12.95         4.64        31.33 
TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 
       14.86         5.49         1.58         7.92         2.33         7.30 
TCGA-28-2514 TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 
        5.26        14.93        11.28        17.88        14.53        11.77 
TCGA-28-5213 TCGA-28-5214 TCGA-28-5215 TCGA-28-5216 TCGA-28-5219 TCGA-28-5220 
       31.27        23.44        11.01        13.64        22.68        12.76 
TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 
        5.42         7.36        11.38         5.42         3.75         1.61 
TCGA-81-5911 TCGA-87-5896 
       17.72        26.30 

  2P GAIN MUTATED 2P GAIN WILD-TYPE 
             0.23              0.03 
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
            92.65            211.17 
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
            14.30             16.16 
[1] "0.2 - 92.7 (14.3)"  "0.0 - 211.2 (16.2)"
[1] "hr=" "1.6"
D3V2, continuous
D3V3, binary
                   cls
clus                  0   1
  2P GAIN MUTATED    37  14
  2P GAIN WILD-TYPE 536 498
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2P GAIN MUTATED     37   14
  2P GAIN WILD-TYPE  536  498
                        clus
vv                       2P GAIN MUTATED 2P GAIN WILD-TYPE
  BRAIN                               37               536
  CENTRAL NERVOUS SYSTEM              14               498
[1] 2 2
[1] FALSE
D3V4, binary
                   cls
clus                  0   1
  2P GAIN MUTATED    26  25
  2P GAIN WILD-TYPE 427 607
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2P GAIN MUTATED     26   25
  2P GAIN WILD-TYPE  427  607
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  FEMALE              26               427
  MALE                25               607
[1] 2 2
[1] FALSE
D3V5, binary
                   cls
clus                  0   1
  2P GAIN MUTATED     9  39
  2P GAIN WILD-TYPE 249 731
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2P GAIN MUTATED      9   39
  2P GAIN WILD-TYPE  249  731
     clus
vv    2P GAIN MUTATED 2P GAIN WILD-TYPE
  NO                9               249
  YES              39               731
[1] 2 2
[1] FALSE
D3V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  2P GAIN MUTATED             7                             1                2
  2P GAIN WILD-TYPE         187                            29              127
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  2P GAIN MUTATED                   5                   1
  2P GAIN WILD-TYPE               184                  17
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  2P GAIN MUTATED                                35
  2P GAIN WILD-TYPE                             490
D3V7, multiclass
                                 clus
vv                                2P GAIN MUTATED 2P GAIN WILD-TYPE
  ASTROCYTOMA                                   7               187
  GLIOBLASTOMA MULTIFORME (GBM)                 1                29
  OLIGOASTROCYTOMA                              2               127
  OLIGODENDROGLIOMA                             5               184
  TREATED PRIMARY GBM                           1                17
  UNTREATED PRIMARY (DE NOVO) GBM              35               490
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  2P GAIN MUTATED                                  0     1
  2P GAIN WILD-TYPE                                1    20
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  2P GAIN MUTATED                           5    42
  2P GAIN WILD-TYPE                        66   917
D3V8, multiclass
                                  clus
vv                                 2P GAIN MUTATED 2P GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          1                20
  BLACK OR AFRICAN AMERICAN                      5                66
  WHITE                                         42               917
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D3V9, binary
                   cls
clus                  0   1
  2P GAIN MUTATED     1  42
  2P GAIN WILD-TYPE  43 879
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2P GAIN MUTATED      1   42
  2P GAIN WILD-TYPE   43  879
                        clus
vv                       2P GAIN MUTATED 2P GAIN WILD-TYPE
  HISPANIC OR LATINO                   1                43
  NOT HISPANIC OR LATINO              42               879
[1] 2 2
[1] FALSE

Clustering(4) Variable = 2Q GAIN MUTATION ANALYSIS
D4V1, survival
                   sevent
clus2                 0   1
  2Q GAIN MUTATED    14  33
  2Q GAIN WILD-TYPE 466 565
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
               47              1031 
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
               33               565 
$`2Q GAIN MUTATED`
TCGA-12-3653 TCGA-14-0740 TCGA-14-1453 TCGA-14-1823 TCGA-14-3477 TCGA-19-1786 
       14.53        11.97         1.15        17.85         3.78         7.17 
TCGA-26-1439 TCGA-27-1834 TCGA-32-4210 TCGA-74-6584 TCGA-DB-5274 TCGA-DH-A7UR 
       13.87        40.54         3.72         7.50        75.25        54.25 
TCGA-DU-8165 TCGA-E1-5304 TCGA-E1-A7YD TCGA-E1-A7YV TCGA-HT-8564 TCGA-HT-A4DS 
       19.13        41.13        14.30        32.45        15.72         0.23 
TCGA-S9-A6WM TCGA-S9-A7J0 TCGA-TM-A84Q TCGA-VM-A8CA TCGA-VW-A8FI TCGA-02-0001 
       19.86        20.02        25.38        13.51         8.05        11.77 
TCGA-02-0106 TCGA-02-0113 TCGA-02-0281 TCGA-06-0128 TCGA-06-0133 TCGA-06-0151 
       11.67        92.65         3.98        22.72        14.30        46.59 
TCGA-06-0192 TCGA-06-0216 TCGA-06-0649 TCGA-06-1086 TCGA-06-1802 TCGA-06-2557 
       38.96        24.16         2.10         6.84        15.32         1.08 
TCGA-06-2569 TCGA-08-0346 TCGA-08-0386 TCGA-08-0510 TCGA-08-0524 TCGA-12-0778 
        0.43         8.42        18.02         4.27         7.27        14.93 
TCGA-14-0817 TCGA-14-0871 TCGA-16-0846 TCGA-19-0957 TCGA-28-5218 
        5.39        28.93         3.91        21.90         5.16 

$`2Q GAIN WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K 
       42.05        62.01        17.16        23.90        20.09        17.82 
TCGA-FG-A713 TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M 
       20.45        18.64        21.40        45.60        42.77        59.38 
TCGA-06-1806 TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 
       15.32        11.74         3.55         8.35         4.54         8.81 
TCGA-06-5414 TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 
        8.98         8.55         6.71         2.73         3.75         6.15 
TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 
        4.57         5.23         8.32        12.85         4.77         1.55 
TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 
        4.77         4.96        26.79         1.87         3.12         2.56 
TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 
       14.60        17.72        15.35        21.73        15.65        25.68 
TCGA-12-1600 TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 
       14.73         6.77        59.77        44.02        26.93        15.22 
TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 
       10.95        12.69        34.92        14.93         3.22         2.04 
TCGA-14-0736 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 
       15.12         0.95         6.21        23.05        13.78         3.25 
TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 
        2.89        16.50        26.33        15.95         1.38         1.12 
TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1454 
        3.75        32.05        58.78        23.11         7.10        30.18 
TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 
        0.92        40.96         6.67        12.43         0.99         1.97 
TCGA-14-1821 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 
       17.79         7.63         5.88         7.17        17.49         7.96 
TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 
        3.42        17.59        29.03         4.57        10.29        14.01 
TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 
        9.14        21.24        13.97         6.41         8.61        14.27 
TCGA-19-0964 TCGA-19-1390 TCGA-19-1392 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 
        3.39        25.38         3.65        12.66         3.25         0.13 
TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 
        9.67         4.87         1.08         7.53         0.16         4.08 
TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 
       24.23         7.00         7.04         6.64        17.19         8.02 
TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 
       18.90         4.73        12.10         1.78        22.49        14.07 
TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1440 
       16.80        14.96        17.79        28.54        10.03         9.73 
TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX 
        7.13         9.37         9.40         8.88        18.97        19.33 
TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1835 TCGA-27-1836 
        5.06        16.60         9.86        24.23        21.30        30.05 
TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 
       14.04        11.51        24.76        18.08        16.77        16.08 
TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 
        7.59         2.86        14.40        15.78         0.20         2.53 
TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 
        9.21         8.35         7.63         8.48         1.22         1.55 
TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 TCGA-32-1970 
        2.83         0.13         0.66         6.74         4.77        15.39 
TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 
       21.07         0.49         0.10        15.85        19.50         1.18 
TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 
        4.67        12.69        14.86        16.93        12.23        20.78 
TCGA-32-2495 TCGA-32-2615 TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 
       15.02        15.95         8.84        22.78        25.18        21.14 
TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 
       12.59        19.86        10.85        19.23         0.85        13.35 
TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 TCGA-41-4097 
        8.94         9.53         0.99         4.44        11.84         0.20 
TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 
       15.12        12.46         4.08         1.45        25.58         3.45 
TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-76-4925 TCGA-76-4926 
       20.91         4.34        14.33         8.22         4.80         4.54 
TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 
        3.09         3.65         9.17         2.53        36.85        16.70 
TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 
        3.29         2.70        17.06         8.35        20.98         4.83 
TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R 
        5.03        23.90        34.45        18.64        36.20         5.92 
TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 
        6.28        20.55       117.50         7.69        43.89        36.36 
TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 
       60.10        40.18         0.26        21.01        53.62         6.38 
TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       17.69        26.76        37.38        46.95        48.30        49.94 
TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 
       49.12       122.73        81.96        47.93        72.92        50.86 
TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA 
       91.13        44.52        36.56        78.28        46.42        18.84 
TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH 
       30.21        39.78        37.45        33.57        72.95        31.63 
TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S 
       24.20        25.48        30.12         5.98        31.40        27.45 
TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L 
       27.81        29.23        14.40        18.51        12.10        11.24 
TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 
       17.88        30.74        16.18        19.96        63.88        46.06 
TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7US 
       24.59        30.21        27.81        17.19        17.19        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 
       17.49        15.16       211.17        52.11        22.42        49.02 
TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 
       75.16        46.06        65.75         1.22        87.45         7.04 
TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 
       11.64       133.74        19.89        16.83        94.52       114.08 
TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 
        7.96         2.40        11.47        62.96       156.23       154.36 
TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 
       14.99       105.21         6.54         8.84       117.40        90.77 
TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 
       30.67        26.30        10.36         7.96        94.32        18.94 
TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 
       44.02        25.91        60.30        23.31        41.98         2.76 
TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8166 
        5.10        23.74        14.60        20.68        21.40        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT 
       15.48        14.17        33.27        29.85        31.69        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 
       20.98        22.29        11.41        26.76        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
      139.04        84.33        51.52        37.38         7.50        44.42 
TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5305 TCGA-E1-5307 
       38.89         0.56        50.14        67.46        79.99        57.93 
TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YE TCGA-E1-A7YH 
      134.27        78.21        95.57       130.78        29.13        93.21 
TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO 
        3.65        19.46        12.43        16.18        21.30        75.02 
TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 
       51.88        15.32         0.76        36.82       146.14        13.08 
TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 
       73.48       145.05        32.35        39.48         0.23         0.20 
TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 
       47.77        25.48        52.21        36.82        18.77        14.93 
TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 
       42.54        41.33        18.44        15.35        17.88        22.55 
TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 
       20.61        20.09        28.34        13.68        14.24        16.01 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       14.96        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 
       18.71        23.70        14.76        21.53        15.02        16.44 
TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q 
       22.26        28.54        10.78        36.66        48.69         5.72 
TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 
       27.52         0.10         6.67        11.54        40.11         0.13 
TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 
        0.03        16.54         3.75        17.42         6.54        24.26 
TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 
        6.38        40.34        75.19        95.93       106.95       172.77 
TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 
        4.01         5.03        29.85        23.18       122.47         4.57 
TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 
       17.29         3.16        22.06        45.99        56.09        57.60 
TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
        0.23        14.27         0.16        16.24         0.76        44.68 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 
        6.05        42.74         0.10        31.69        14.96         0.10 
TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 
        0.10         2.96        17.52         6.90        14.53        39.48 
TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 
       19.23        39.09         0.23        50.63         0.49        23.61 
TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
       37.15         0.33         0.13         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 
        3.72        11.28        31.43         1.64        16.24         9.40 
TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 
       63.55         0.10        37.87        33.01        12.23         6.25 
TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 
        0.10         0.46         2.50         5.56        13.78         0.23 
TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 
       29.59        34.19        28.27        26.04         0.13        20.22 
TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 
        0.07        27.35         0.10         5.33         2.70        16.93 
TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H 
        1.81        16.14        16.83        17.52        17.65         2.43 
TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 
       10.52        15.35        11.05         0.10        56.58        45.44 
TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 
       41.49        68.32        69.27        35.44        39.75        40.01 
TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       42.54        24.92        31.63        12.76        28.87        20.71 
TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX 
       19.00        14.40        14.40         0.23         6.71         7.99 
TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 
        2.37         2.30         9.44         5.88         7.96         7.59 
TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 
        1.28         0.23        10.42        13.25        11.64        10.95 
TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W 
        9.01        13.61         9.60         7.56        12.23        19.20 
TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V 
        3.45         2.37         4.41        15.16         2.53        12.62 
TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW 
       15.85        14.04        19.33        14.83        14.53        13.61 
TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 
       12.23        13.41         9.17        10.29        14.53        16.34 
TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 
       16.73         1.91        16.50        16.70        11.08        12.99 
TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z 
       88.83        94.03        32.65        30.87         5.46         9.90 
TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU 
       28.08         2.07        19.59        30.67        62.17        87.12 
TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       18.77        41.10        40.93        35.38        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 
       25.81        29.85        32.61        35.15        98.24        95.93 
TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH 
        5.85       123.65        75.25       135.22        85.55        38.56 
TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ 
       84.99        31.10        26.47        18.61        18.64        14.07 
TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J1 
       36.13         7.92        26.93        23.51        19.99         8.19 
TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ 
        2.04        20.68        15.06        18.54        28.37        27.16 
TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 
      169.84        10.39        99.06        30.05        98.63        31.59 
TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA 
       18.71        20.48        54.77        48.33        49.32        34.78 
TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H 
       65.39        24.92        16.18        59.05        40.64        30.44 
TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84R 
       28.08        24.16        40.83        24.79        33.24        18.61 
TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI 
       14.93        23.80        21.37        19.69        15.98         2.04 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP 
       40.41        44.09        36.69        33.73        31.20        30.05 
TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE 
       26.14        25.87        33.93        61.41        26.99        31.36 
TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF 
       45.93        43.20         0.10         7.89        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-W9-A837 TCGA-WH-A86K 
       23.47        37.05        16.01        23.21        51.06        13.32 
TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D 
       43.96        39.88        43.40        45.80        46.88        37.71 
TCGA-WY-A85E TCGA-06-0209 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 
       20.81         7.63         4.73        18.35        23.18        10.59 
TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 
       35.41        20.71        82.59        20.61        87.06        77.65 
TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 
       20.12        53.10        42.74        24.59        12.16        90.58 
TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 
        2.83        14.14         3.62        10.72        10.52        18.31 
TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 
        6.87        14.73         3.22        15.09        12.59         6.54 
TCGA-02-0055 TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 
        2.50        19.86         8.35         9.57         6.02        19.73 
TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 
       26.43        28.70        25.05         5.49        10.19        20.84 
TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 
       27.25        89.72        22.72        12.62        51.32         8.81 
TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0107 
       57.76        16.96         3.48        27.02        65.00        17.65 
TCGA-02-0111 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 
       23.18        99.98        15.65        48.95        16.54        16.93 
TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 
       17.72        10.75        14.47        13.87        14.20        15.95 
TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 
       12.23         9.90         7.73        10.62         7.33        15.91 
TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 
       25.71         4.37        25.12        10.59        12.39        14.50 
TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 
       10.55        47.11        11.34         9.27        16.21         3.35 
TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 
       16.80        12.92        15.32        15.45        20.32         2.70 
TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0129 
        6.15        20.38        47.61         6.94         3.98        33.67 
TCGA-06-0130 TCGA-06-0132 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 
       12.95        25.35        26.70        24.23        11.90         0.20 
TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 
       10.29         2.20        11.74         2.33        20.09        17.79 
TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 
       10.09         8.61        19.46        12.33        13.94        10.45 
TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 
        3.19        10.82         9.44        11.80         3.42        56.91 
TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 
       10.65         5.85        19.66         3.29        13.12         4.47 
TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 
        3.22         4.04        91.00         4.18        88.14        20.25 
TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 
        3.65        69.90        73.84        27.22        44.58        15.42 
TCGA-06-0190 TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 
       10.42         4.67         7.40         5.56         0.39         7.66 
TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 TCGA-06-0219 
        8.42         7.40        11.84         0.53        15.02         0.72 
TCGA-06-0221 TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 
       19.82        13.64        13.32        20.42        48.69        10.82 
TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 
        9.01         0.26        72.36         4.70         9.57         3.16 
TCGA-06-0414 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0650 
       35.11        12.62         5.75         5.75         9.80        23.57 
TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 
       14.20        26.40        46.88         7.86         2.70         2.70 
TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 
        0.92        43.46        46.19         7.17        40.41        16.57 
TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 
       20.78        26.76        23.93         4.04        26.79        11.84 
TCGA-06-1804 TCGA-06-1805 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 
       13.61        33.90        12.49         4.93        17.65        12.56 
TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2570 
       30.64         5.95        16.64         5.98         4.37        31.50 
TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 TCGA-08-0245 
        7.79         5.39       120.56         7.36        22.68        37.84 
TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 
        4.18       115.86         1.74        25.71        12.16         9.80 
TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 
       29.23        65.33         1.28         8.42        17.95        24.56 
TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 
       31.10        37.58        22.29         3.39        12.23        14.93 
TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 TCGA-08-0512 TCGA-08-0514 
       15.35        13.97         0.72        12.56        42.15        11.08 
TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0525 
       19.59        58.68        19.33        10.75         4.80        15.98 
TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 
       18.41         7.56        14.73        12.99        34.92        10.45 
TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 
        7.59        94.78         0.10        38.17        25.97        26.66 
TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 
       12.13         3.65        20.38        28.41        15.06        53.85 
TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 
       43.23         7.63         9.73        14.86        91.76        24.79 
TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0826 TCGA-12-0827 TCGA-12-0828 
       18.48        10.62        23.51        27.78        38.76         8.94 
TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 
       20.58       127.59         5.82         7.59        33.21        15.98 
TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 
       12.23        15.85         9.11        14.53         3.98         4.14 
TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 TCGA-14-0867 TCGA-14-1037 TCGA-14-1043 
        2.24        11.24         1.35         2.04        19.30         0.79 
TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 TCGA-15-1447 TCGA-15-1449 TCGA-16-0849 
       13.78        50.53        19.10        53.19        13.28        26.07 
TCGA-16-0850 TCGA-19-0955 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 
       16.37        11.77         0.66        10.75         9.07         5.95 
TCGA-19-1388 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 
       12.95         4.64        31.33        14.86         5.49         1.58 
TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 TCGA-28-5207 
        7.92         2.33         7.30         5.26        14.93        11.28 
TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5215 
       17.88        14.53        11.77        31.27        23.44        11.01 
TCGA-28-5216 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 
       13.64        22.68        12.76         5.42         7.36        11.38 
TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        5.42         3.75         1.61        17.72        26.30 

  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
             0.23              0.03 
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
            92.65            211.17 
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
            14.30             16.18 
[1] "0.2 - 92.7 (14.3)"  "0.0 - 211.2 (16.2)"
[1] "hr=" "1.6"
D4V2, continuous
D4V3, binary
                   cls
clus                  0   1
  2Q GAIN MUTATED    35  13
  2Q GAIN WILD-TYPE 538 499
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2Q GAIN MUTATED     35   13
  2Q GAIN WILD-TYPE  538  499
                        clus
vv                       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  BRAIN                               35               538
  CENTRAL NERVOUS SYSTEM              13               499
[1] 2 2
[1] FALSE
D4V4, binary
                   cls
clus                  0   1
  2Q GAIN MUTATED    23  25
  2Q GAIN WILD-TYPE 430 607
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2Q GAIN MUTATED     23   25
  2Q GAIN WILD-TYPE  430  607
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  FEMALE              23               430
  MALE                25               607
[1] 2 2
[1] FALSE
D4V5, binary
                   cls
clus                  0   1
  2Q GAIN MUTATED     7  38
  2Q GAIN WILD-TYPE 251 732
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2Q GAIN MUTATED      7   38
  2Q GAIN WILD-TYPE  251  732
     clus
vv    2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  NO                7               251
  YES              38               732
[1] 2 2
[1] FALSE
D4V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  2Q GAIN MUTATED             7                             1                2
  2Q GAIN WILD-TYPE         187                            29              127
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  2Q GAIN MUTATED                   4                   1
  2Q GAIN WILD-TYPE               185                  17
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  2Q GAIN MUTATED                                33
  2Q GAIN WILD-TYPE                             492
D4V7, multiclass
                                 clus
vv                                2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  ASTROCYTOMA                                   7               187
  GLIOBLASTOMA MULTIFORME (GBM)                 1                29
  OLIGOASTROCYTOMA                              2               127
  OLIGODENDROGLIOMA                             4               185
  TREATED PRIMARY GBM                           1                17
  UNTREATED PRIMARY (DE NOVO) GBM              33               492
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  2Q GAIN MUTATED                                  0     1
  2Q GAIN WILD-TYPE                                1    20
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  2Q GAIN MUTATED                           5    39
  2Q GAIN WILD-TYPE                        66   920
D4V8, multiclass
                                  clus
vv                                 2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          1                20
  BLACK OR AFRICAN AMERICAN                      5                66
  WHITE                                         39               920
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D4V9, binary
                   cls
clus                  0   1
  2Q GAIN MUTATED     1  38
  2Q GAIN WILD-TYPE  43 883
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2Q GAIN MUTATED      1   38
  2Q GAIN WILD-TYPE   43  883
                        clus
vv                       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  HISPANIC OR LATINO                   1                43
  NOT HISPANIC OR LATINO              38               883
[1] 2 2
[1] FALSE

Clustering(5) Variable = 3P GAIN MUTATION ANALYSIS
D5V1, survival
                   sevent
clus2                 0   1
  3P GAIN MUTATED    16  51
  3P GAIN WILD-TYPE 464 547
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
               67              1011 
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
               51               547 
$`3P GAIN MUTATED`
TCGA-06-A7TL TCGA-12-0615 TCGA-12-1598 TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 
       17.72        15.35        15.65         6.77        59.77        44.02 
TCGA-14-1794 TCGA-14-1825 TCGA-19-2629 TCGA-19-4065 TCGA-26-1440 TCGA-27-1834 
        0.99         7.63        24.23         7.04         9.73        40.54 
TCGA-27-2521 TCGA-28-2506 TCGA-28-2509 TCGA-32-2632 TCGA-41-3915 TCGA-41-4097 
       16.77         6.74         4.77         8.84        11.84         0.20 
TCGA-76-4934 TCGA-76-6285 TCGA-CS-6668 TCGA-DU-6400 TCGA-DU-8158 TCGA-E1-5304 
        2.53         8.35        49.94         1.22         5.10        41.13 
TCGA-FG-5962 TCGA-HT-7606 TCGA-HT-A4DS TCGA-P5-A5EZ TCGA-S9-A6WM TCGA-S9-A6WO 
       47.77        17.29         0.23         2.30        19.86        18.61 
TCGA-02-0001 TCGA-02-0028 TCGA-02-0069 TCGA-02-0074 TCGA-02-0281 TCGA-02-0324 
       11.77        90.58        28.70        10.19         3.98         7.73 
TCGA-02-0325 TCGA-02-0332 TCGA-06-0166 TCGA-06-0188 TCGA-06-0192 TCGA-06-0211 
       10.62        25.71         5.85        44.58        38.96        11.84 
TCGA-06-0237 TCGA-06-0410 TCGA-06-0413 TCGA-06-0414 TCGA-06-0648 TCGA-06-0649 
       13.64         4.70         3.16        35.11         9.80         2.10 
TCGA-06-0686 TCGA-06-0743 TCGA-06-1087 TCGA-06-2557 TCGA-08-0345 TCGA-08-0346 
       14.20        26.40         4.04         1.08         1.74         8.42 
TCGA-08-0510 TCGA-12-0619 TCGA-12-0822 TCGA-12-0829 TCGA-12-1088 TCGA-12-1099 
        4.27        34.92        23.51        20.58       127.59         4.14 
TCGA-14-0867 TCGA-26-6174 TCGA-28-5207 TCGA-28-5215 TCGA-28-5216 TCGA-28-5219 
        2.04         2.33        11.28        11.01        13.64        22.68 
TCGA-28-6450 
        5.42 

$`3P GAIN WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K 
       42.05        62.01        17.16        23.90        20.09        17.82 
TCGA-FG-A713 TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M 
       20.45        18.64        21.40        45.60        42.77        59.38 
TCGA-06-1806 TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 
       15.32        11.74         3.55         8.35         4.54         8.81 
TCGA-06-5414 TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 
        8.98         8.55         6.71         2.73         3.75         6.15 
TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 
        4.57         5.23         8.32        12.85         4.77         1.55 
TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 
        4.77         4.96        26.79         1.87         3.12         2.56 
TCGA-06-A7TK TCGA-12-1092 TCGA-12-1599 TCGA-12-1600 TCGA-12-3648 TCGA-12-3649 
       14.60        21.73        25.68        14.73        26.93        15.22 
TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 TCGA-12-5299 
       10.95        12.69        34.92        14.53        14.93         3.22 
TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 
        2.04        15.12        11.97         0.95         6.21        23.05 
TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 
       13.78         3.25         2.89        16.50        26.33        15.95 
TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 
        1.38         1.12         3.75        32.05        58.78        23.11 
TCGA-14-1452 TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 
        7.10         1.15        30.18         0.92        40.96         6.67 
TCGA-14-1459 TCGA-14-1795 TCGA-14-1821 TCGA-14-1823 TCGA-14-1827 TCGA-14-1829 
       12.43         1.97        17.79        17.85         5.88         7.17 
TCGA-14-2554 TCGA-14-2555 TCGA-14-3477 TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 
       17.49         7.96         3.78         3.42        17.59        29.03 
TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 
        4.57        10.29        14.01         9.14        21.24        13.97 
TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 TCGA-19-1392 
        6.41         8.61        14.27         3.39        25.38         3.65 
TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 
        7.17        12.66         3.25         0.13         9.67         4.87 
TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2631 TCGA-19-5947 
        1.08         7.53         0.16         4.08         7.00         6.64 
TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 
       17.19         8.02        18.90         4.73        12.10         1.78 
TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 
       22.49        14.07        16.80        14.96        17.79        28.54 
TCGA-26-1438 TCGA-26-1439 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 
       10.03        13.87         7.13         9.37         9.40         8.88 
TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 
       18.97        19.33         5.06        16.60         9.86        24.23 
TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 
       21.30        30.05        14.04        11.51        24.76        18.08 
TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 
       16.08         7.59         2.86        14.40        15.78         0.20 
TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 
        2.53         9.21         8.35         7.63         8.48         1.22 
TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-32-1970 TCGA-32-1973 
        1.55         2.83         0.13         0.66        15.39        21.07 
TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 
        0.49         0.10        15.85        19.50         1.18         4.67 
TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 
       12.69        14.86        16.93        12.23        20.78        15.02 
TCGA-32-2615 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 
       15.95        22.78        25.18        21.14         3.72        12.59 
TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 
       19.86        10.85        19.23         0.85        13.35         8.94 
TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R 
        9.53         0.99         4.44        15.12        12.46         4.08 
TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 
        1.45        25.58         3.45        20.91         4.34        14.33 
TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 
        8.22         7.50         4.80         4.54         3.09         3.65 
TCGA-76-4931 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 
        9.17        36.85        16.70         3.29         2.70        17.06 
TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 
       20.98         4.83         5.03        23.90        34.45        18.64 
TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 
       36.20         5.92         6.28        20.55       117.50         7.69 
TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 
       43.89        36.36        60.10        40.18         0.26        21.01 
TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 
       53.62         6.38        17.69        26.76        37.38        46.95 
TCGA-CS-6667 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       48.30        49.12       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       46.42        18.84        30.21        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       12.10        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F 
       63.88        46.06        24.59        30.21        27.81        17.19 
TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV 
       17.19        54.25        23.21        17.46        13.71        18.61 
TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 
       18.02        14.56        17.46         6.74        13.38         8.45 
TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 
        6.81       182.33        18.94        17.49        15.16       211.17 
TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
       52.11        22.42        49.02        75.16        46.06        65.75 
TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 
       87.45         7.04        11.64       133.74        19.89        16.83 
TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 
       94.52       114.08         7.96         2.40        11.47        62.96 
TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 
      156.23       154.36        14.99       105.21         6.54         8.84 
TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 
      117.40        90.77        30.67        26.30        10.36         7.96 
TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 
       94.32        18.94        44.02        25.91        60.30        23.31 
TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 
       41.98         2.76        23.74        14.60        20.68        21.40 
TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR 
       19.13        16.96        15.48        14.17        33.27        29.85 
TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 
       31.69        24.43        26.17        24.99        33.96        25.55 
TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L 
       21.57        95.11        20.98        22.29        11.41        26.76 
TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC 
       21.30        17.98       139.04        84.33        51.52        37.38 
TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 
        7.50        44.42        38.89         0.56        50.14        67.46 
TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 
       79.99        57.93       134.27        78.21        95.57       130.78 
TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK 
       14.30        29.13        93.21         3.65        19.46        12.43 
TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU 
       16.18        21.30        75.02        51.88        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5963 TCGA-FG-5964 
       32.35        39.48         0.23         0.20        25.48        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 
       15.35        17.88        22.55        20.61        20.09        28.34 
TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 
       13.68        14.24        16.01        14.96        22.52        32.61 
TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J 
       38.27        10.72        18.38        18.71        23.70        14.76 
TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z 
       21.53        15.02        16.44        22.26        28.54        10.78 
TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 
       36.66        48.69         5.72        27.52         0.10         6.67 
TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
       11.54        40.11         0.13         0.03        16.54         3.75 
TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 
       17.42         6.54        24.26         6.38        40.34        75.19 
TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 
       95.93       106.95       172.77         4.01         5.03        29.85 
TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
       23.18       122.47         4.57         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 
        0.76        44.68         6.05        42.74         0.10        31.69 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 
       14.96         0.10         0.10         2.96        17.52         6.90 
TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 
       14.53        39.48        19.23        39.09         0.23        50.63 
TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 
        0.49        23.61        37.15         0.33         0.13         3.68 
TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 
        5.33        35.47         3.72        11.28        31.43         1.64 
TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
       16.24         9.40        63.55         0.10        37.87        33.01 
TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 
       12.23         6.25         0.10         0.46         2.50         5.56 
TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 
       13.78         0.23        29.59        34.19        28.27        15.72 
TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB 
       26.04         0.13        20.22         0.07        27.35         0.10 
TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 
        5.33         2.70        16.93         1.81        16.14        16.83 
TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L 
       17.52        17.65         2.43        10.52        15.35        11.05 
TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 
        0.10        56.58        45.44        41.49        68.32        69.27 
TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ 
       35.44        39.75        40.01        42.54        24.92        31.63 
TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 
       12.76        28.87        20.71        19.00        14.40        14.40 
TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5F0 TCGA-P5-A5F1 
        0.23         6.71         7.99         2.37         9.44         5.88 
TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X 
        7.96         7.59         1.28         0.23        10.42        13.25 
TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 
       11.64        10.95         9.01        13.61         9.60         7.56 
TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R 
       12.23        19.20         3.45         2.37         4.41        15.16 
TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU 
        2.53        12.62        15.85        14.04        19.33        14.83 
TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 
       14.53        13.61        12.23        13.41         9.17        10.29 
TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC 
       14.53        16.34        16.73         1.91        16.50        16.70 
TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X 
       11.08        12.99        88.83        94.03        32.65        30.87 
TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
        5.46         9.90        28.08         2.07        19.59        30.67 
TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY 
       62.17        87.12        18.77        41.10        40.93        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       36.82        24.39        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE 
       98.24        95.93         5.85       123.65        75.25       135.22 
TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WN TCGA-S9-A6WP 
       85.55        38.56        84.99        31.10        26.47        18.64 
TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ 
       14.07        36.13         7.92        26.93        23.51        19.99 
TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX 
       20.02         8.19         2.04        20.68        15.06        18.54 
TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 
       28.37        27.16       169.84        10.39        99.06        30.05 
TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 
       98.63        31.59        18.71        20.48        54.77        48.33 
TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F 
       49.32        34.78        65.39        24.92        16.18        59.05 
TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M 
       40.64        30.44        28.08        24.16        40.83        24.79 
TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF 
       33.24        25.38        18.61        14.93        23.80        21.37 
TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM 
       19.69        15.98         2.04        40.41        44.09        36.69 
TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU 
       33.73        31.20        30.05        26.14        25.87        33.93 
TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA 
       61.41        26.99        31.36        45.93        43.20        13.51 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 
        0.10         7.89        39.16        20.02        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       16.01        23.21         8.05        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 
TCGA-06-0209 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 
        7.63         4.73        18.35        23.18        10.59        35.41 
TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 
       20.71        82.59        20.61        87.06        77.65        20.12 
TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 TCGA-02-0033 TCGA-02-0034 
       53.10        42.74        24.59        12.16         2.83        14.14 
TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 
        3.62        10.72        10.52        18.31         6.87        14.73 
TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0055 TCGA-02-0057 
        3.22        15.09        12.59         6.54         2.50        19.86 
TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0070 
        8.35         9.57         6.02        19.73        26.43        25.05 
TCGA-02-0071 TCGA-02-0075 TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 
        5.49        20.84        27.25        89.72        22.72        12.62 
TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 
       51.32         8.81        57.76        16.96         3.48        27.02 
TCGA-02-0104 TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 TCGA-02-0113 TCGA-02-0114 
       65.00        11.67        17.65        23.18        92.65        99.98 
TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 
       15.65        48.95        16.54        16.93        17.72        10.75 
TCGA-02-0271 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 
       14.47        13.87        14.20        15.95        12.23         9.90 
TCGA-02-0326 TCGA-02-0330 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 
        7.33        15.91         4.37        25.12        10.59        12.39 
TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 
       14.50        10.55        47.11        11.34         9.27        16.21 
TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 
        3.35        16.80        12.92        15.32        15.45        20.32 
TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 
        2.70         6.15        20.38        47.61         6.94         3.98 
TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 
       22.72        33.67        12.95        25.35        14.30        26.70 
TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 
       24.23        11.90         0.20        10.29         2.20        11.74 
TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 
        2.33        20.09        17.79        10.09         8.61        19.46 
TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 
       46.59        12.33        13.94        10.45         3.19        10.82 
TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 TCGA-06-0168 
        9.44        11.80         3.42        56.91        10.65        19.66 
TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 
        3.29        13.12         4.47         3.22         4.04        91.00 
TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 
        4.18        88.14        20.25         3.65        69.90        73.84 
TCGA-06-0187 TCGA-06-0189 TCGA-06-0190 TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 
       27.22        15.42        10.42         4.67         7.40         5.56 
TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0213 TCGA-06-0214 
        0.39         7.66         8.42         7.40         0.53        15.02 
TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 
       24.16         0.72        19.82        13.32        20.42        48.69 
TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 TCGA-06-0412 TCGA-06-0644 
       10.82         9.01         0.26        72.36         9.57        12.62 
TCGA-06-0645 TCGA-06-0646 TCGA-06-0650 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 
        5.75         5.75        23.57        46.88         7.86         2.70 
TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 
        2.70         0.92        43.46        46.19         7.17        40.41 
TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1800 
       16.57        20.78        26.76        23.93         6.84        26.79 
TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 TCGA-06-2558 TCGA-06-2559 
       11.84        15.32        13.61        33.90        12.49         4.93 
TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 
       17.65        12.56        30.64         5.95        16.64         5.98 
TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 
        4.37         0.43        31.50         7.79         5.39       120.56 
TCGA-06-6694 TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 TCGA-08-0344 TCGA-08-0347 
        7.36        22.68        37.84         4.18       115.86        25.71 
TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 
       12.16         9.80        29.23        65.33         1.28         8.42 
TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 
       17.95        24.56        31.10        37.58        22.29         3.39 
TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 
       12.23        14.93        18.02        15.35        13.97         0.72 
TCGA-08-0509 TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 
       12.56        42.15        11.08        19.59        58.68        19.33 
TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 
       10.75         4.80         7.27        15.98        18.41         7.56 
TCGA-12-0616 TCGA-12-0618 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 
       14.73        12.99        10.45         7.59        94.78         0.10 
TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 
       38.17        25.97        26.66        12.13         3.65        20.38 
TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 
       28.41        15.06        53.85        43.23         7.63         9.73 
TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 
       14.93        14.86        91.76        24.79        18.48        10.62 
TCGA-12-0826 TCGA-12-0827 TCGA-12-0828 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 
       27.78        38.76         8.94         5.82         7.59        33.21 
TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 
       15.98        12.23        15.85         9.11        14.53         3.98 
TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 TCGA-14-0871 TCGA-14-1037 
        2.24        11.24         1.35         5.39        28.93        19.30 
TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 TCGA-15-1447 TCGA-15-1449 
        0.79        13.78        50.53        19.10        53.19        13.28 
TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 
        3.91        26.07        16.37        11.77        21.90         0.66 
TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1388 TCGA-19-1389 TCGA-26-1442 
       10.75         9.07         5.95        12.95         4.64        31.33 
TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-28-2513 TCGA-28-2514 
       14.86         5.49         1.58         7.92         7.30         5.26 
TCGA-28-5204 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 
       14.93        17.88        14.53        11.77        31.27        23.44 
TCGA-28-5218 TCGA-28-5220 TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 
        5.16        12.76         7.36        11.38         5.42         3.75 
TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        1.61        17.72        26.30 

  3P GAIN MUTATED 3P GAIN WILD-TYPE 
             0.20              0.03 
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
           127.59            211.17 
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
            11.01             16.24 
[1] "0.2 - 127.6 (11.0)" "0.0 - 211.2 (16.2)"
[1] "hr=" "1.9"
D5V2, continuous
D5V3, binary
                   cls
clus                  0   1
  3P GAIN MUTATED    57  10
  3P GAIN WILD-TYPE 516 502
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3P GAIN MUTATED     57   10
  3P GAIN WILD-TYPE  516  502
                        clus
vv                       3P GAIN MUTATED 3P GAIN WILD-TYPE
  BRAIN                               57               516
  CENTRAL NERVOUS SYSTEM              10               502
[1] 2 2
[1] FALSE
D5V4, binary
                   cls
clus                  0   1
  3P GAIN MUTATED    32  35
  3P GAIN WILD-TYPE 421 597
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3P GAIN MUTATED     32   35
  3P GAIN WILD-TYPE  421  597
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  FEMALE              32               421
  MALE                35               597
[1] 2 2
[1] FALSE
D5V5, binary
                   cls
clus                  0   1
  3P GAIN MUTATED    12  51
  3P GAIN WILD-TYPE 246 719
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3P GAIN MUTATED     12   51
  3P GAIN WILD-TYPE  246  719
     clus
vv    3P GAIN MUTATED 3P GAIN WILD-TYPE
  NO               12               246
  YES              51               719
[1] 2 2
[1] FALSE
D5V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  3P GAIN MUTATED             7                             1                0
  3P GAIN WILD-TYPE         187                            29              129
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  3P GAIN MUTATED                   3                   1
  3P GAIN WILD-TYPE               186                  17
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  3P GAIN MUTATED                                55
  3P GAIN WILD-TYPE                             470
D5V7, multiclass
                                 clus
vv                                3P GAIN MUTATED 3P GAIN WILD-TYPE
  ASTROCYTOMA                                   7               187
  GLIOBLASTOMA MULTIFORME (GBM)                 1                29
  OLIGOASTROCYTOMA                              0               129
  OLIGODENDROGLIOMA                             3               186
  TREATED PRIMARY GBM                           1                17
  UNTREATED PRIMARY (DE NOVO) GBM              55               470
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  3P GAIN MUTATED                                  0     1
  3P GAIN WILD-TYPE                                1    20
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  3P GAIN MUTATED                           4    58
  3P GAIN WILD-TYPE                        67   901
D5V8, multiclass
                                  clus
vv                                 3P GAIN MUTATED 3P GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          1                20
  BLACK OR AFRICAN AMERICAN                      4                67
  WHITE                                         58               901
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D5V9, binary
                   cls
clus                  0   1
  3P GAIN MUTATED     1  55
  3P GAIN WILD-TYPE  43 866
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3P GAIN MUTATED      1   55
  3P GAIN WILD-TYPE   43  866
                        clus
vv                       3P GAIN MUTATED 3P GAIN WILD-TYPE
  HISPANIC OR LATINO                   1                43
  NOT HISPANIC OR LATINO              55               866
[1] 2 2
[1] FALSE

Clustering(6) Variable = 3Q GAIN MUTATION ANALYSIS
D6V1, survival
                   sevent
clus2                 0   1
  3Q GAIN MUTATED    15  56
  3Q GAIN WILD-TYPE 465 542
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
               71              1007 
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
               56               542 
$`3Q GAIN MUTATED`
TCGA-06-5416 TCGA-06-A7TL TCGA-12-0615 TCGA-12-1598 TCGA-12-1602 TCGA-12-3644 
        6.71        17.72        15.35        15.65         6.77        59.77 
TCGA-12-3646 TCGA-14-1794 TCGA-14-1825 TCGA-14-1829 TCGA-14-3477 TCGA-19-2629 
       44.02         0.99         7.63         7.17         3.78        24.23 
TCGA-19-4065 TCGA-26-1440 TCGA-27-1831 TCGA-27-1834 TCGA-27-2521 TCGA-28-2506 
        7.04         9.73        16.60        40.54        16.77         6.74 
TCGA-28-2509 TCGA-32-1991 TCGA-32-2632 TCGA-41-3915 TCGA-41-4097 TCGA-76-4934 
        4.77        16.93         8.84        11.84         0.20         2.53 
TCGA-76-6285 TCGA-DU-6400 TCGA-DU-7013 TCGA-DU-8158 TCGA-E1-5304 TCGA-FG-5962 
        8.35         1.22         8.84         5.10        41.13        47.77 
TCGA-HT-7606 TCGA-HT-A4DS TCGA-S9-A6WM TCGA-02-0001 TCGA-02-0028 TCGA-02-0047 
       17.29         0.23        19.86        11.77        90.58        14.73 
TCGA-02-0074 TCGA-02-0106 TCGA-02-0281 TCGA-02-0324 TCGA-02-0325 TCGA-02-0332 
       10.19        11.67         3.98         7.73        10.62        25.71 
TCGA-06-0166 TCGA-06-0188 TCGA-06-0192 TCGA-06-0211 TCGA-06-0237 TCGA-06-0410 
        5.85        44.58        38.96        11.84        13.64         4.70 
TCGA-06-0413 TCGA-06-0414 TCGA-06-0648 TCGA-06-0649 TCGA-06-0686 TCGA-06-0743 
        3.16        35.11         9.80         2.10        14.20        26.40 
TCGA-06-1087 TCGA-06-2557 TCGA-08-0345 TCGA-08-0346 TCGA-08-0510 TCGA-12-0619 
        4.04         1.08         1.74         8.42         4.27        34.92 
TCGA-12-0827 TCGA-12-0829 TCGA-12-1088 TCGA-12-1099 TCGA-14-0867 TCGA-26-6174 
       38.76        20.58       127.59         4.14         2.04         2.33 
TCGA-28-5207 TCGA-28-5215 TCGA-28-5216 TCGA-28-5219 TCGA-28-6450 
       11.28        11.01        13.64        22.68         5.42 

$`3Q GAIN WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K 
       42.05        62.01        17.16        23.90        20.09        17.82 
TCGA-FG-A713 TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M 
       20.45        18.64        21.40        45.60        42.77        59.38 
TCGA-06-1806 TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 
       15.32        11.74         3.55         8.35         4.54         8.81 
TCGA-06-5414 TCGA-06-5415 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 
        8.98         8.55         2.73         3.75         6.15         4.57 
TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 
        5.23         8.32        12.85         4.77         1.55         4.77 
TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK 
        4.96        26.79         1.87         3.12         2.56        14.60 
TCGA-12-1092 TCGA-12-1599 TCGA-12-1600 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 
       21.73        25.68        14.73        26.93        15.22        10.95 
TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 
       12.69        34.92        14.53        14.93         3.22         2.04 
TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 
       15.12        11.97         0.95         6.21        23.05        13.78 
TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 
        3.25         2.89        16.50        26.33        15.95         1.38 
TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 
        1.12         3.75        32.05        58.78        23.11         7.10 
TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 
        1.15        30.18         0.92        40.96         6.67        12.43 
TCGA-14-1795 TCGA-14-1821 TCGA-14-1823 TCGA-14-1827 TCGA-14-2554 TCGA-14-2555 
        1.97        17.79        17.85         5.88        17.49         7.96 
TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 
        3.42        17.59        29.03         4.57        10.29        14.01 
TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 
        9.14        21.24        13.97         6.41         8.61        14.27 
TCGA-19-0964 TCGA-19-1390 TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 
        3.39        25.38         3.65         7.17        12.66         3.25 
TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 
        0.13         9.67         4.87         1.08         7.53         0.16 
TCGA-19-2625 TCGA-19-2631 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 
        4.08         7.00         6.64        17.19         8.02        18.90 
TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 
        4.73        12.10         1.78        22.49        14.07        16.80 
TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 TCGA-26-1443 
       14.96        17.79        28.54        10.03        13.87         7.13 
TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 
        9.37         9.40         8.88        18.97        19.33         5.06 
TCGA-27-1832 TCGA-27-1833 TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 
        9.86        24.23        21.30        30.05        14.04        11.51 
TCGA-27-2518 TCGA-27-2519 TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 
       24.76        18.08        16.08         7.59         2.86        14.40 
TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 
       15.78         0.20         2.53         9.21         8.35         7.63 
TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 
        8.48         1.22         1.55         2.83         0.13         0.66 
TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 
       15.39        21.07         0.49         0.10        15.85        19.50 
TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-2491 TCGA-32-2494 
        1.18         4.67        12.69        14.86        12.23        20.78 
TCGA-32-2495 TCGA-32-2615 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 
       15.02        15.95        22.78        25.18        21.14         3.72 
TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 
       12.59        19.86        10.85        19.23         0.85        13.35 
TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 TCGA-41-5651 TCGA-41-6646 
        8.94         9.53         0.99         4.44        15.12        12.46 
TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 
        4.08         1.45        25.58         3.45        20.91         4.34 
TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 
       14.33         8.22         7.50         4.80         4.54         3.09 
TCGA-76-4929 TCGA-76-4931 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 
        3.65         9.17        36.85        16.70         3.29         2.70 
TCGA-76-6282 TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 
       17.06        20.98         4.83         5.03        23.90        34.45 
TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 
       18.64        36.20         5.92         6.28        20.55       117.50 
TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 
        7.69        43.89        36.36        60.10        40.18         0.26 
TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 
       21.01        53.62         6.38        17.69        26.76        37.38 
TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 
       46.95        48.30        49.94        49.12       122.73        81.96 
TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 
       75.25        47.93        72.92        50.86        91.13        44.52 
TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD 
       36.56        78.28        46.42        18.84        30.21        39.78 
TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O 
       37.45        33.57        72.95        31.63        24.20        25.48 
TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V 
       30.12         5.98        31.40        27.45        27.81        29.23 
TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O 
       14.40        18.51        12.10        11.24        17.88        30.74 
TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       16.18        19.96        63.88        46.06        24.59        30.21 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       15.16       211.17        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       46.06        65.75        87.45         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 
       19.89        16.83        94.52       114.08         7.96         2.40 
TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 
       11.47        62.96       156.23       154.36        14.99       105.21 
TCGA-DU-7012 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        6.54       117.40        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 
        7.96        94.32        18.94        44.02        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 
       23.31        41.98         2.76        23.74        14.60        20.68 
TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP 
       21.40        19.13        16.96        15.48        14.17        33.27 
TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY 
       29.85        31.69        24.43        26.17        24.99        33.96 
TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K 
       25.55        21.57        95.11        20.98        22.29        11.41 
TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB 
       26.76        21.30        17.98       139.04        84.33        51.52 
TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 
       37.38         7.50        44.42        38.89         0.56        50.14 
TCGA-E1-5303 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 
       67.46        79.99        57.93       134.27        78.21        95.57 
TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ 
      130.78        14.30        29.13        93.21         3.65        19.46 
TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS 
       12.43        16.18        21.30        75.02        51.88        15.32 
TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 
        0.76        32.45        36.82       146.14        13.08        73.48 
TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5963 
      145.05        32.35        39.48         0.23         0.20        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       18.44        15.35        17.88        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 
       28.34        13.68        14.24        16.01        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY 
       32.61        38.27        10.72        18.38        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y 
       14.76        21.53        15.02        16.44        22.26        28.54 
TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 
       10.78        36.66        48.69         5.72        27.52         0.10 
TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 
        6.67        11.54        40.11         0.13         0.03        16.54 
TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 
        3.75        17.42         6.54        24.26         6.38        40.34 
TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 
       75.19        95.93       106.95       172.77         4.01         5.03 
TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7607 TCGA-HT-7608 
       29.85        23.18       122.47         4.57         3.16        22.06 
TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 
       45.99        56.09        57.60         0.23        14.27         0.16 
TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 
       16.24         0.76        44.68         6.05        42.74         0.10 
TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 
       31.69        14.96         0.10         0.10         2.96        17.52 
TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 
        6.90        14.53        39.48        19.23        39.09         0.23 
TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 
       50.63         0.49        23.61        37.15         0.33         0.13 
TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 
        3.68         5.33        35.47         3.72        11.28        31.43 
TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 
        1.64        16.24         9.40        63.55         0.10        37.87 
TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 
       33.01        12.23         6.25         0.10         0.46         2.50 
TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 
        5.56        13.78         0.23        29.59        34.19        28.27 
TCGA-HT-8564 TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA 
       15.72        26.04         0.13        20.22         0.07        27.35 
TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 
        0.10         5.33         2.70        16.93         1.81        16.14 
TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K 
       16.83        17.52        17.65         2.43        10.52        15.35 
TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 
       11.05         0.10        56.58        45.44        41.49        68.32 
TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 
       69.27        35.44        39.75        40.01        42.54        24.92 
TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X 
       31.63        12.76        28.87        20.71        19.00        14.40 
TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ 
       14.40         0.23         6.71         7.99         2.37         2.30 
TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U 
        9.44         5.88         7.96         7.59         1.28         0.23 
TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 
       10.42        13.25        11.64        10.95         9.01        13.61 
TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 
        9.60         7.56        12.23        19.20         3.45         2.37 
TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z 
        4.41        15.16         2.53        12.62        15.85        14.04 
TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY 
       19.33        14.83        14.53        13.61        12.23        13.41 
TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 
        9.17        10.29        14.53        16.34        16.73         1.91 
TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML 
       16.50        16.70        11.08        12.99        88.83        94.03 
TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 
       32.65        30.87         5.46         9.90        28.08         2.07 
TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW 
       19.59        30.67        62.17        87.12        18.77        41.10 
TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 
       40.93        35.38        36.82        24.39        25.81        29.85 
TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB 
       32.61        35.15        98.24        95.93         5.85       123.65 
TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL 
       75.25       135.22        85.55        38.56        84.99        31.10 
TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS 
       26.47        18.61        18.64        14.07        36.13         7.92 
TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 
       26.93        23.51        19.99        20.02         8.19         2.04 
TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 
       20.68        15.06        18.54        28.37        27.16       169.84 
TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V 
       10.39        99.06        30.05        98.63        31.59        18.71 
TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF 
       20.48        54.77        48.33        49.32        34.78        65.39 
TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I 
       24.92        16.18        59.05        40.64        30.44        28.08 
TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R 
       24.16        40.83        24.79        33.24        25.38        18.61 
TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI 
       14.93        23.80        21.37        19.69        15.98         2.04 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP 
       40.41        44.09        36.69        33.73        31.20        30.05 
TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE 
       26.14        25.87        33.93        61.41        26.99        31.36 
TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE 
       45.93        43.20        13.51         0.10         7.89        39.16 
TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI 
       20.02        23.47        37.05        16.01        23.21         8.05 
TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B 
       51.06        13.32        43.96        39.88        43.40        45.80 
TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 TCGA-02-0003 TCGA-02-0006 
       46.88        37.71        20.81         7.63         4.73        18.35 
TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 
       23.18        10.59        35.41        20.71        82.59        20.61 
TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 
       87.06        77.65        20.12        53.10        42.74        24.59 
TCGA-02-0027 TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 
       12.16         2.83        14.14         3.62        10.72        10.52 
TCGA-02-0043 TCGA-02-0046 TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 
       18.31         6.87         3.22        15.09        12.59         6.54 
TCGA-02-0055 TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 
        2.50        19.86         8.35         9.57         6.02        19.73 
TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 TCGA-02-0075 TCGA-02-0079 
       26.43        28.70        25.05         5.49        20.84        27.25 
TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 
       89.72        22.72        12.62        51.32         8.81        57.76 
TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0107 TCGA-02-0111 
       16.96         3.48        27.02        65.00        17.65        23.18 
TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 
       92.65        99.98        15.65        48.95        16.54        16.93 
TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 
       17.72        10.75        14.47        13.87        14.20        15.95 
TCGA-02-0317 TCGA-02-0321 TCGA-02-0326 TCGA-02-0330 TCGA-02-0333 TCGA-02-0337 
       12.23         9.90         7.33        15.91         4.37        25.12 
TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 
       10.59        12.39        14.50        10.55        47.11        11.34 
TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 
        9.27        16.21         3.35        16.80        12.92        15.32 
TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 
       15.45        20.32         2.70         6.15        20.38        47.61 
TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 TCGA-06-0132 
        6.94         3.98        22.72        33.67        12.95        25.35 
TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 
       14.30        26.70        24.23        11.90         0.20        10.29 
TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 
        2.20        11.74         2.33        20.09        17.79        10.09 
TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 
        8.61        19.46        46.59        12.33        13.94        10.45 
TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 
        3.19        10.82         9.44        11.80         3.42        56.91 
TCGA-06-0165 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 
       10.65        19.66         3.29        13.12         4.47         3.22 
TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 
        4.04        91.00         4.18        88.14        20.25         3.65 
TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0189 TCGA-06-0190 TCGA-06-0194 
       69.90        73.84        27.22        15.42        10.42         4.67 
TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 
        7.40         5.56         0.39         7.66         8.42         7.40 
TCGA-06-0213 TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 TCGA-06-0238 
        0.53        15.02        24.16         0.72        19.82        13.32 
TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 
       20.42        48.69        10.82         9.01         0.26        72.36 
TCGA-06-0412 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 TCGA-06-0650 TCGA-06-0744 
        9.57        12.62         5.75         5.75        23.57        46.88 
TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 
        7.86         2.70         2.70         0.92        43.46        46.19 
TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 
        7.17        40.41        16.57        20.78        26.76        23.93 
TCGA-06-1086 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 
        6.84        26.79        11.84        15.32        13.61        33.90 
TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 
       12.49         4.93        17.65        12.56        30.64         5.95 
TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 
       16.64         5.98         4.37         0.43        31.50         7.79 
TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 
        5.39       120.56         7.36        22.68        37.84         4.18 
TCGA-08-0344 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 
      115.86        25.71        12.16         9.80        29.23        65.33 
TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 
        1.28         8.42        17.95        24.56        31.10        37.58 
TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 
       22.29         3.39        12.23        14.93        18.02        15.35 
TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 
       13.97         0.72        12.56        42.15        11.08        19.59 
TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 
       58.68        19.33        10.75         4.80         7.27        15.98 
TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0620 TCGA-12-0654 
       18.41         7.56        14.73        12.99        10.45         7.59 
TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 
       94.78         0.10        38.17        25.97        26.66        12.13 
TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 
        3.65        20.38        28.41        15.06        53.85        43.23 
TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 
        7.63         9.73        14.93        14.86        91.76        24.79 
TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0826 TCGA-12-0828 TCGA-12-1089 
       18.48        10.62        23.51        27.78         8.94         5.82 
TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 
        7.59        33.21        15.98        12.23        15.85         9.11 
TCGA-12-1097 TCGA-12-1098 TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 
       14.53         3.98         2.24        11.24         1.35         5.39 
TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 
       28.93        19.30         0.79        13.78        50.53        19.10 
TCGA-15-1447 TCGA-15-1449 TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 
       53.19        13.28         3.91        26.07        16.37        11.77 
TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1388 
       21.90         0.66        10.75         9.07         5.95        12.95 
TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 
        4.64        31.33        14.86         5.49         1.58         7.92 
TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 
        7.30         5.26        14.93        17.88        14.53        11.77 
TCGA-28-5213 TCGA-28-5214 TCGA-28-5218 TCGA-28-5220 TCGA-32-2616 TCGA-76-6280 
       31.27        23.44         5.16        12.76         7.36        11.38 
TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        5.42         3.75         1.61        17.72        26.30 

  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
             0.20              0.03 
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
           127.59            211.17 
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
            10.62             16.37 
[1] "0.2 - 127.6 (10.6)" "0.0 - 211.2 (16.4)"
[1] "hr=" "2.1"
D6V2, continuous
D6V3, binary
                   cls
clus                  0   1
  3Q GAIN MUTATED    63   8
  3Q GAIN WILD-TYPE 510 504
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3Q GAIN MUTATED     63    8
  3Q GAIN WILD-TYPE  510  504
                        clus
vv                       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  BRAIN                               63               510
  CENTRAL NERVOUS SYSTEM               8               504
[1] 2 2
[1] FALSE
D6V4, binary
                   cls
clus                  0   1
  3Q GAIN MUTATED    33  38
  3Q GAIN WILD-TYPE 420 594
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3Q GAIN MUTATED     33   38
  3Q GAIN WILD-TYPE  420  594
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  FEMALE              33               420
  MALE                38               594
[1] 2 2
[1] FALSE
D6V5, binary
                   cls
clus                  0   1
  3Q GAIN MUTATED    10  58
  3Q GAIN WILD-TYPE 248 712
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3Q GAIN MUTATED     10   58
  3Q GAIN WILD-TYPE  248  712
     clus
vv    3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  NO               10               248
  YES              58               712
[1] 2 2
[1] FALSE
D6V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  3Q GAIN MUTATED             6                             1                0
  3Q GAIN WILD-TYPE         188                            29              129
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  3Q GAIN MUTATED                   2                   1
  3Q GAIN WILD-TYPE               187                  17
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  3Q GAIN MUTATED                                61
  3Q GAIN WILD-TYPE                             464
D6V7, multiclass
                                 clus
vv                                3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  ASTROCYTOMA                                   6               188
  GLIOBLASTOMA MULTIFORME (GBM)                 1                29
  OLIGOASTROCYTOMA                              0               129
  OLIGODENDROGLIOMA                             2               187
  TREATED PRIMARY GBM                           1                17
  UNTREATED PRIMARY (DE NOVO) GBM              61               464
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  3Q GAIN MUTATED                                  0     0
  3Q GAIN WILD-TYPE                                1    21
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  3Q GAIN MUTATED                           6    61
  3Q GAIN WILD-TYPE                        65   898
D6V8, multiclass
                                  clus
vv                                 3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                21
  BLACK OR AFRICAN AMERICAN                      6                65
  WHITE                                         61               898
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D6V9, binary
                   cls
clus                  0   1
  3Q GAIN MUTATED     1  58
  3Q GAIN WILD-TYPE  43 863
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3Q GAIN MUTATED      1   58
  3Q GAIN WILD-TYPE   43  863
                        clus
vv                       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  HISPANIC OR LATINO                   1                43
  NOT HISPANIC OR LATINO              58               863
[1] 2 2
[1] FALSE

Clustering(7) Variable = 4P GAIN MUTATION ANALYSIS
D7V1, survival
                   sevent
clus2                 0   1
  4P GAIN MUTATED    15  33
  4P GAIN WILD-TYPE 465 565
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
               48              1030 
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
               33               565 
$`4P GAIN MUTATED`
TCGA-19-A6J4 TCGA-CS-6665 TCGA-06-5856 TCGA-06-6697 TCGA-14-1453 TCGA-14-1821 
        3.98        51.55         3.75        12.85         1.15        17.79 
TCGA-14-3477 TCGA-26-1439 TCGA-28-2506 TCGA-32-1991 TCGA-32-4210 TCGA-41-3915 
        3.78        13.87         6.74        16.93         3.72        11.84 
TCGA-41-4097 TCGA-CS-6666 TCGA-DU-A5TS TCGA-DU-A5TT TCGA-E1-A7YD TCGA-E1-A7YQ 
        0.20        46.95        31.69        24.43        14.30        51.88 
TCGA-FG-A87Q TCGA-HT-7477 TCGA-HT-7688 TCGA-HT-7857 TCGA-HT-A5R7 TCGA-S9-A6TU 
        5.72        24.26        31.69         0.23        20.22        87.12 
TCGA-S9-A7J0 TCGA-02-0011 TCGA-02-0055 TCGA-02-0074 TCGA-02-0075 TCGA-02-0113 
       20.02        20.71         2.50        10.19        20.84        92.65 
TCGA-06-0130 TCGA-06-0174 TCGA-06-0192 TCGA-06-0195 TCGA-06-0409 TCGA-06-0410 
       12.95         3.22        38.96         7.40        72.36         4.70 
TCGA-06-0879 TCGA-08-0245 TCGA-08-0246 TCGA-08-0510 TCGA-08-0514 TCGA-08-0516 
       40.41        37.84         4.18         4.27        11.08        19.59 
TCGA-08-0531 TCGA-12-0616 TCGA-12-0691 TCGA-12-0826 TCGA-16-0846 TCGA-28-5215 
        7.56        14.73        12.13        27.78         3.91        11.01 

$`4P GAIN WILD-TYPE`
TCGA-06-6391 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B TCGA-DU-7300 
        1.48        46.88        46.72        31.82        42.05        62.01 
TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 TCGA-FG-A87N 
       17.16        23.90        20.09        17.82        20.45        18.64 
TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 TCGA-06-5408 
       21.40        45.60        42.77        59.38        15.32        11.74 
TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 
        3.55         8.35         4.54         8.81         8.98         8.55 
TCGA-06-5416 TCGA-06-5418 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 
        6.71         2.73         6.15         4.57         5.23         8.32 
TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 
        4.77         1.55         4.77         4.96        26.79         1.87 
TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 
        3.12         2.56        14.60        17.72        15.35        21.73 
TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 
       15.65        25.68        14.73         6.77        59.77        44.02 
TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 
       26.93        15.22        10.95        12.69        34.92        14.53 
TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 
       14.93         3.22         2.04        15.12        11.97         0.95 
TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 
        6.21        23.05        13.78         3.25         2.89        16.50 
TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 
       26.33        15.95         1.38         1.12         3.75        32.05 
TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 
       58.78        23.11         7.10        30.18         0.92        40.96 
TCGA-14-1458 TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 TCGA-14-1823 TCGA-14-1825 
        6.67        12.43         0.99         1.97        17.85         7.63 
TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-4157 TCGA-16-0848 
        5.88         7.17        17.49         7.96         3.42        17.59 
TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 
       29.03         4.57        10.29        14.01         9.14        21.24 
TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 
       13.97         6.41         8.61        14.27         3.39        25.38 
TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 
        3.65         7.17        12.66         3.25         0.13         9.67 
TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 
        4.87         1.08         7.53         0.16         4.08        24.23 
TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 
        7.00         7.04         6.64        17.19         8.02        18.90 
TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 
        4.73        12.10         1.78        22.49        14.07        16.80 
TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1440 TCGA-26-1443 
       14.96        17.79        28.54        10.03         9.73         7.13 
TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 
        9.37         9.40         8.88        18.97        19.33         5.06 
TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 
       16.60         9.86        24.23        40.54        21.30        30.05 
TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 
       14.04        11.51        24.76        18.08        16.77        16.08 
TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 
        7.59         2.86        14.40        15.78         0.20         2.53 
TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 
        9.21         8.35         7.63         8.48         1.22         1.55 
TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2509 TCGA-32-1970 TCGA-32-1973 
        2.83         0.13         0.66         4.77        15.39        21.07 
TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 
        0.49         0.10        15.85        19.50         1.18         4.67 
TCGA-32-1986 TCGA-32-1987 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 
       12.69        14.86        12.23        20.78        15.02        15.95 
TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 TCGA-32-4211 TCGA-32-4213 
        8.84        22.78        25.18        21.14        12.59        19.86 
TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 
       10.85        19.23         0.85        13.35         8.94         9.53 
TCGA-41-3392 TCGA-41-3393 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S 
        0.99         4.44        15.12        12.46         4.08         1.45 
TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 
       25.58         3.45        20.91         4.34        14.33         8.22 
TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 
        7.50         4.80         4.54         3.09         3.65         9.17 
TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 
        2.53        36.85        16.70         3.29         2.70        17.06 
TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 
        8.35        20.98         4.83         5.03        23.90        34.45 
TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 
       18.64        36.20         5.92         6.28        20.55       117.50 
TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 
        7.69        43.89        36.36        60.10        40.18         0.26 
TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 
       21.01        53.62         6.38        17.69        26.76        37.38 
TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 
       48.30        49.94        49.12       122.73        81.96        75.25 
TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 
       47.93        72.92        50.86        91.13        44.52        36.56 
TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE 
       78.28        46.42        18.84        30.21        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        30.12 
TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W 
        5.98        31.40        27.45        27.81        29.23        14.40 
TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D 
       19.96        63.88        46.06        24.59        30.21        27.81 
TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU 
       17.19        17.19        54.25        23.21        17.46        13.71 
TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 
       18.61        18.02        14.56        17.46         6.74        13.38 
TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 
        8.45         6.81       182.33        18.94        17.49        15.16 
TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 
      211.17        52.11        22.42        49.02        75.16        46.06 
TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       65.75         1.22        87.45         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 
       19.89        16.83        94.52       114.08         7.96         2.40 
TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 
       11.47        62.96       156.23       154.36        14.99       105.21 
TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
        6.54         8.84       117.40        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 
       10.36         7.96        94.32        18.94        44.02        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 
       60.30        23.31        41.98         2.76         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 
       14.60        20.68        21.40        19.13        16.96        15.48 
TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY 
       14.17        33.27        29.85        26.17        24.99        33.96 
TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K 
       25.55        21.57        95.11        20.98        22.29        11.41 
TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB 
       26.76        21.30        17.98       139.04        84.33        51.52 
TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 
       37.38         7.50        44.42        38.89         0.56        50.14 
TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 
       67.46        41.13        79.99        57.93       134.27        78.21 
TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ 
       95.57       130.78        29.13        93.21         3.65        19.46 
TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YS TCGA-E1-A7YU 
       12.43        16.18        21.30        75.02        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       18.44        15.35        17.88        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 
       28.34        13.68        14.24        16.01        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY 
       32.61        38.27        10.72        18.38        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y 
       14.76        21.53        15.02        16.44        22.26        28.54 
TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 
       10.78        36.66        48.69        27.52         0.10         6.67 
TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
       11.54        40.11         0.13         0.03        16.54         3.75 
TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
       17.42         6.54         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7689 
        0.76        44.68         6.05        42.74         0.10        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
        0.10         0.10         2.96        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 
       39.48        19.23        39.09        50.63         0.49        23.61 
TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
       37.15         0.33         0.13         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 
        3.72        11.28        31.43         1.64        16.24         9.40 
TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 
       63.55         0.10        37.87        33.01        12.23         6.25 
TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 
        0.10         0.46         2.50         5.56        13.78         0.23 
TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV 
       29.59        34.19        28.27        15.72         0.23        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 
        0.13         0.07        27.35         0.10         5.33         2.70 
TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C 
       16.93         1.81        16.14        16.83        17.52        17.65 
TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
        2.43        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 
       45.44        41.49        68.32        69.27        35.44        39.75 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL 
       40.01        42.54        24.92        31.63        12.76        28.87 
TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW 
       20.71        19.00        14.40        14.40         0.23         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        7.99         2.37         2.30         9.44         5.88         7.96 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        7.59         1.28         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       19.20         3.45         2.37         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV 
       12.62        15.85        14.04        19.33        14.83        14.53 
TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 
       13.61        12.23        13.41         9.17        10.29        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       16.34        16.73         1.91        16.50        16.70        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y 
       12.99        88.83        94.03        32.65        30.87         5.46 
TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS 
        9.90        28.08         2.07        19.59        30.67        62.17 
TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       18.77        41.10        40.93        35.38        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 
       25.81        29.85        32.61        35.15        98.24        95.93 
TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH 
        5.85       123.65        75.25       135.22        85.55        38.56 
TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP 
       84.99        31.10        19.86        26.47        18.61        18.64 
TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ 
       14.07        36.13         7.92        26.93        23.51        19.99 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY 
        8.19         2.04        20.68        15.06        18.54        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 
       27.16       169.84        10.39        99.06        30.05        98.63 
TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 
       31.59        18.71        20.48        54.77        48.33        49.32 
TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G 
       34.78        65.39        24.92        16.18        59.05        40.64 
TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O 
       30.44        28.08        24.16        40.83        24.79        33.24 
TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG 
       25.38        18.61        14.93        23.80        21.37        19.69 
TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN 
       15.98         2.04        40.41        44.09        36.69        33.73 
TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV 
       31.20        30.05        26.14        25.87        33.93        61.41 
TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB 
       26.99        31.36        45.93        43.20        13.51         0.10 
TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M 
        7.89        39.16        20.02        23.47        37.05        16.01 
TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 
       23.21         8.05        51.06        13.32        43.96        39.88 
TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 
       43.40        45.80        46.88        37.71        20.81         7.63 
TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 
       11.77         4.73        18.35        23.18        10.59        35.41 
TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 
       82.59        20.61        87.06        77.65        20.12        53.10 
TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 
       42.74        24.59        12.16        90.58         2.83        14.14 
TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 
        3.62        10.72        10.52        18.31         6.87        14.73 
TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0057 TCGA-02-0058 
        3.22        15.09        12.59         6.54        19.86         8.35 
TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 
        9.57         6.02        19.73        26.43        28.70        25.05 
TCGA-02-0071 TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 
        5.49        27.25        89.72        22.72        12.62        51.32 
TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 
        8.81        57.76        16.96         3.48        27.02        65.00 
TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 
       11.67        17.65        23.18        99.98        15.65        48.95 
TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 TCGA-02-0281 
       16.54        16.93        17.72        10.75        14.47         3.98 
TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 
       13.87        14.20        15.95        12.23         9.90         7.73 
TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 
       10.62         7.33        15.91        25.71         4.37        25.12 
TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 
       10.59        12.39        14.50        10.55        47.11        11.34 
TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 
        9.27        16.21         3.35        16.80        12.92        15.32 
TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 
       15.45        20.32         2.70         6.15        20.38        47.61 
TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 TCGA-06-0132 TCGA-06-0133 
        6.94         3.98        22.72        33.67        25.35        14.30 
TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 
       26.70        24.23        11.90         0.20        10.29         2.20 
TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 
       11.74         2.33        20.09        17.79        10.09         8.61 
TCGA-06-0150 TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 
       19.46        46.59        12.33        13.94        10.45         3.19 
TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 
       10.82         9.44        11.80         3.42        56.91        10.65 
TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0175 
        5.85        19.66         3.29        13.12         4.47         4.04 
TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 
       91.00         4.18        88.14        20.25         3.65        69.90 
TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 TCGA-06-0190 TCGA-06-0194 
       73.84        27.22        44.58        15.42        10.42         4.67 
TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 
        5.56         0.39         7.66         8.42         7.40        11.84 
TCGA-06-0213 TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 
        0.53        15.02        24.16         0.72        19.82        13.64 
TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 
       13.32        20.42        48.69        10.82         9.01         0.26 
TCGA-06-0412 TCGA-06-0413 TCGA-06-0414 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 
        9.57         3.16        35.11        12.62         5.75         5.75 
TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 
        9.80         2.10        23.57        14.20        26.40        46.88 
TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 
        7.86         2.70         2.70         0.92        43.46        46.19 
TCGA-06-0878 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 
        7.17        16.57        20.78        26.76        23.93         6.84 
TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 
        4.04        26.79        11.84        15.32        13.61        33.90 
TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 
        1.08        12.49         4.93        17.65        12.56        30.64 
TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 
        5.95        16.64         5.98         4.37         0.43        31.50 
TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 TCGA-08-0344 
        7.79         5.39       120.56         7.36        22.68       115.86 
TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 
        1.74         8.42        25.71        12.16         9.80        29.23 
TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 
       65.33         1.28         8.42        17.95        24.56        31.10 
TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 
       37.58        22.29         3.39        12.23        14.93        18.02 
TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 TCGA-08-0512 TCGA-08-0517 
       15.35        13.97         0.72        12.56        42.15        58.68 
TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 
       19.33        10.75         4.80         7.27        15.98        18.41 
TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 
       12.99        34.92        10.45         7.59        94.78         0.10 
TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 
       38.17        25.97        26.66         3.65        20.38        28.41 
TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 
       15.06        53.85        43.23         7.63         9.73        14.93 
TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 
       14.86        91.76        24.79        18.48        10.62        23.51 
TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 
       38.76         8.94        20.58       127.59         5.82         7.59 
TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 
       33.21        15.98        12.23        15.85         9.11        14.53 
TCGA-12-1098 TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 
        3.98         4.14         2.24        11.24         1.35         5.39 
TCGA-14-0867 TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 
        2.04        28.93        19.30         0.79        13.78        50.53 
TCGA-15-1446 TCGA-15-1447 TCGA-15-1449 TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 
       19.10        53.19        13.28        26.07        16.37        11.77 
TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1388 
       21.90         0.66        10.75         9.07         5.95        12.95 
TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 
        4.64        31.33        14.86         5.49         1.58         7.92 
TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 
        2.33         7.30         5.26        14.93        11.28        17.88 
TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5216 TCGA-28-5218 
       14.53        11.77        31.27        23.44        13.64         5.16 
TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 
       22.68        12.76         5.42         7.36        11.38         5.42 
TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        3.75         1.61        17.72        26.30 

  4P GAIN MUTATED 4P GAIN WILD-TYPE 
             0.20              0.03 
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
            92.65            211.17 
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
           13.410            16.045 
[1] "0.2 - 92.7 (13.4)"  "0.0 - 211.2 (16.0)"
[1] "hr=" "1.4"
D7V2, continuous
D7V3, binary
                   cls
clus                  0   1
  4P GAIN MUTATED    35  13
  4P GAIN WILD-TYPE 538 499
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4P GAIN MUTATED     35   13
  4P GAIN WILD-TYPE  538  499
                        clus
vv                       4P GAIN MUTATED 4P GAIN WILD-TYPE
  BRAIN                               35               538
  CENTRAL NERVOUS SYSTEM              13               499
[1] 2 2
[1] FALSE
D7V4, binary
                   cls
clus                  0   1
  4P GAIN MUTATED    20  28
  4P GAIN WILD-TYPE 433 604
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4P GAIN MUTATED     20   28
  4P GAIN WILD-TYPE  433  604
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  FEMALE              20               433
  MALE                28               604
[1] 2 2
[1] FALSE
D7V5, binary
                   cls
clus                  0   1
  4P GAIN MUTATED     7  39
  4P GAIN WILD-TYPE 251 731
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4P GAIN MUTATED      7   39
  4P GAIN WILD-TYPE  251  731
     clus
vv    4P GAIN MUTATED 4P GAIN WILD-TYPE
  NO                7               251
  YES              39               731
[1] 2 2
[1] FALSE
D7V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  4P GAIN MUTATED             8                             1                0
  4P GAIN WILD-TYPE         186                            29              129
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  4P GAIN MUTATED                   5                   1
  4P GAIN WILD-TYPE               184                  17
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  4P GAIN MUTATED                                33
  4P GAIN WILD-TYPE                             492
D7V7, multiclass
                                 clus
vv                                4P GAIN MUTATED 4P GAIN WILD-TYPE
  ASTROCYTOMA                                   8               186
  GLIOBLASTOMA MULTIFORME (GBM)                 1                29
  OLIGOASTROCYTOMA                              0               129
  OLIGODENDROGLIOMA                             5               184
  TREATED PRIMARY GBM                           1                17
  UNTREATED PRIMARY (DE NOVO) GBM              33               492
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  4P GAIN MUTATED                                  0     0
  4P GAIN WILD-TYPE                                1    21
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  4P GAIN MUTATED                           6    42
  4P GAIN WILD-TYPE                        65   917
D7V8, multiclass
                                  clus
vv                                 4P GAIN MUTATED 4P GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                21
  BLACK OR AFRICAN AMERICAN                      6                65
  WHITE                                         42               917
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D7V9, binary
                   cls
clus                  0   1
  4P GAIN MUTATED     1  44
  4P GAIN WILD-TYPE  43 877
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4P GAIN MUTATED      1   44
  4P GAIN WILD-TYPE   43  877
                        clus
vv                       4P GAIN MUTATED 4P GAIN WILD-TYPE
  HISPANIC OR LATINO                   1                43
  NOT HISPANIC OR LATINO              44               877
[1] 2 2
[1] FALSE

Clustering(8) Variable = 4Q GAIN MUTATION ANALYSIS
D8V1, survival
                   sevent
clus2                 0   1
  4Q GAIN MUTATED    12  31
  4Q GAIN WILD-TYPE 468 567
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
               43              1035 
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
               31               567 
$`4Q GAIN MUTATED`
TCGA-19-A6J4 TCGA-06-5856 TCGA-06-6697 TCGA-14-1821 TCGA-14-3477 TCGA-19-0960 
        3.98         3.75        12.85        17.79         3.78         8.61 
TCGA-19-5956 TCGA-26-1439 TCGA-28-2506 TCGA-32-1991 TCGA-32-4210 TCGA-41-4097 
       22.49        13.87         6.74        16.93         3.72         0.20 
TCGA-DU-A5TT TCGA-E1-A7YD TCGA-E1-A7YQ TCGA-FG-A87Q TCGA-HT-7477 TCGA-HT-7688 
       24.43        14.30        51.88         5.72        24.26        31.69 
TCGA-HT-7857 TCGA-HT-A5R7 TCGA-VW-A8FI TCGA-02-0055 TCGA-02-0069 TCGA-02-0074 
        0.23        20.22         8.05         2.50        28.70        10.19 
TCGA-02-0075 TCGA-02-0113 TCGA-06-0130 TCGA-06-0174 TCGA-06-0192 TCGA-06-0195 
       20.84        92.65        12.95         3.22        38.96         7.40 
TCGA-06-0409 TCGA-06-0410 TCGA-06-0879 TCGA-08-0245 TCGA-08-0246 TCGA-08-0510 
       72.36         4.70        40.41        37.84         4.18         4.27 
TCGA-08-0514 TCGA-08-0516 TCGA-08-0531 TCGA-12-0616 TCGA-12-0826 TCGA-16-0846 
       11.08        19.59         7.56        14.73        27.78         3.91 
TCGA-28-5215 
       11.01 

$`4Q GAIN WILD-TYPE`
TCGA-06-6391 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        1.48        51.55        46.88        46.72        31.82        42.05 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       62.01        17.16        23.90        20.09        17.82        20.45 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 
       18.64        21.40        45.60        42.77        59.38        15.32 
TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 
       11.74         3.55         8.35         4.54         8.81         8.98 
TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 
        8.55         6.71         2.73         6.15         4.57         5.23 
TCGA-06-6695 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 
        8.32         4.77         1.55         4.77         4.96        26.79 
TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 
        1.87         3.12         2.56        14.60        17.72        15.35 
TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 TCGA-12-1602 TCGA-12-3644 
       21.73        15.65        25.68        14.73         6.77        59.77 
TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 
       44.02        26.93        15.22        10.95        12.69        34.92 
TCGA-12-3653 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 
       14.53        14.93         3.22         2.04        15.12        11.97 
TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 
        0.95         6.21        23.05        13.78         3.25         2.89 
TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 
       16.50        26.33        15.95         1.38         1.12         3.75 
TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 TCGA-14-1454 
       32.05        58.78        23.11         7.10         1.15        30.18 
TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 
        0.92        40.96         6.67        12.43         0.99         1.97 
TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 
       17.85         7.63         5.88         7.17        17.49         7.96 
TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 
        3.42        17.59        29.03         4.57        10.29        14.01 
TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0963 TCGA-19-0964 
        9.14        21.24        13.97         6.41        14.27         3.39 
TCGA-19-1390 TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 
       25.38         3.65         7.17        12.66         3.25         0.13 
TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 
        9.67         4.87         1.08         7.53         0.16         4.08 
TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 
       24.23         7.00         7.04         6.64        17.19         8.02 
TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5958 TCGA-19-5959 
       18.90         4.73        12.10         1.78        14.07        16.80 
TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1440 TCGA-26-1443 
       14.96        17.79        28.54        10.03         9.73         7.13 
TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 
        9.37         9.40         8.88        18.97        19.33         5.06 
TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 
       16.60         9.86        24.23        40.54        21.30        30.05 
TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 
       14.04        11.51        24.76        18.08        16.77        16.08 
TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 
        7.59         2.86        14.40        15.78         0.20         2.53 
TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 
        9.21         8.35         7.63         8.48         1.22         1.55 
TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2509 TCGA-32-1970 TCGA-32-1973 
        2.83         0.13         0.66         4.77        15.39        21.07 
TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 
        0.49         0.10        15.85        19.50         1.18         4.67 
TCGA-32-1986 TCGA-32-1987 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 
       12.69        14.86        12.23        20.78        15.02        15.95 
TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 TCGA-32-4211 TCGA-32-4213 
        8.84        22.78        25.18        21.14        12.59        19.86 
TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 
       10.85        19.23         0.85        13.35         8.94         9.53 
TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R 
        0.99         4.44        11.84        15.12        12.46         4.08 
TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 
        1.45        25.58         3.45        20.91         4.34        14.33 
TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 
        8.22         7.50         4.80         4.54         3.09         3.65 
TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 
        9.17         2.53        36.85        16.70         3.29         2.70 
TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 
       17.06         8.35        20.98         4.83         5.03        23.90 
TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC 
       34.45        18.64        36.20         5.92         6.28        20.55 
TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 
      117.50         7.69        43.89        36.36        60.10        40.18 
TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 
        0.26        21.01        53.62         6.38        17.69        26.76 
TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 
       37.38        46.95        48.30        49.94        49.12       122.73 
TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 
       81.96        75.25        47.93        72.92        50.86        91.13 
TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB 
       44.52        36.56        78.28        46.42        18.84        30.21 
TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L 
       39.78        37.45        33.57        72.95        31.63        24.20 
TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U 
       25.48        30.12         5.98        31.40        27.45        27.81 
TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M 
       29.23        14.40        18.51        12.10        11.24        17.88 
TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 
       30.74        16.18        19.96        63.88        46.06        24.59 
TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       30.21        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 
       17.49        15.16       211.17        52.11        22.42        49.02 
TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 
       75.16        46.06        65.75         1.22        87.45         7.04 
TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 
       11.64       133.74        19.89        16.83        94.52       114.08 
TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 
        7.96         2.40        11.47        62.96       156.23       154.36 
TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 
       14.99       105.21         6.54         8.84       117.40        90.77 
TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 
       30.67        26.30        10.36         7.96        94.32        18.94 
TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 
       44.02        25.91        60.30        23.31        41.98         2.76 
TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 
        5.10        23.74        14.60        20.68        21.40        19.13 
TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS 
       16.96        15.48        14.17        33.27        29.85        31.69 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 
       20.98        22.29        11.41        26.76        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
      139.04        84.33        51.52        37.38         7.50        44.42 
TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
       38.89         0.56        50.14        67.46        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YE 
       57.93       134.27        78.21        95.57       130.78        29.13 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       93.21         3.65        19.46        12.43        16.18        21.30 
TCGA-E1-A7YO TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY 
       75.02        15.32         0.76        32.45        36.82       146.14 
TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 
       13.08        73.48       145.05        32.35        39.48         0.23 
TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 
        0.20        47.77        25.48        52.21        36.82        18.77 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 
       14.93        42.54        41.33        18.44        15.35        17.88 
TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 
       22.55        20.61        20.09        28.34        13.68        14.24 
TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU 
       16.01        14.96        22.52        32.61        38.27        10.72 
TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ 
       18.38        18.71        23.70        14.76        21.53        15.02 
TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 
       16.44        22.26        28.54        10.78        36.66        48.69 
TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 
       27.52         0.10         6.67        11.54        40.11         0.13 
TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7478 
        0.03        16.54         3.75        17.42         6.54         6.38 
TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 
       40.34        75.19        95.93       106.95       172.77         4.01 
TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 
        5.03        29.85        23.18       122.47         4.57        17.29 
TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 
        3.16        22.06        45.99        56.09        57.60         0.23 
TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 
       14.27         0.16        16.24         0.76        44.68         6.05 
TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 
       42.74         0.10        14.96         0.10         0.10         2.96 
TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 
       17.52         6.90        14.53        39.48        19.23        39.09 
TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 
       50.63         0.49        23.61        37.15         0.33         0.13 
TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 
        3.68         5.33        35.47         3.72        11.28        31.43 
TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 
        1.64        16.24         9.40        63.55         0.10        37.87 
TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 
       33.01        12.23         6.25         0.10         0.46         2.50 
TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 
        5.56        13.78         0.23        29.59        34.19        28.27 
TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R9 TCGA-HT-A5RA 
       15.72         0.23        26.04         0.13         0.07        27.35 
TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 
        0.10         5.33         2.70        16.93         1.81        16.14 
TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K 
       16.83        17.52        17.65         2.43        10.52        15.35 
TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 
       11.05         0.10        56.58        45.44        41.49        68.32 
TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 
       69.27        35.44        39.75        40.01        42.54        24.92 
TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X 
       31.63        12.76        28.87        20.71        19.00        14.40 
TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ 
       14.40         0.23         6.71         7.99         2.37         2.30 
TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U 
        9.44         5.88         7.96         7.59         1.28         0.23 
TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 
       10.42        13.25        11.64        10.95         9.01        13.61 
TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 
        9.60         7.56        12.23        19.20         3.45         2.37 
TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z 
        4.41        15.16         2.53        12.62        15.85        14.04 
TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY 
       19.33        14.83        14.53        13.61        12.23        13.41 
TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 
        9.17        10.29        14.53        16.34        16.73         1.91 
TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML 
       16.50        16.70        11.08        12.99        88.83        94.03 
TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 
       32.65        30.87         5.46         9.90        28.08         2.07 
TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW 
       19.59        30.67        62.17        87.12        18.77        41.10 
TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 
       40.93        35.38        36.82        24.39        25.81        29.85 
TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB 
       32.61        35.15        98.24        95.93         5.85       123.65 
TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL 
       75.25       135.22        85.55        38.56        84.99        31.10 
TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ 
       19.86        26.47        18.61        18.64        14.07        36.13 
TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 
        7.92        26.93        23.51        19.99        20.02         8.19 
TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ 
        2.04        20.68        15.06        18.54        28.37        27.16 
TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 
      169.84        10.39        99.06        30.05        98.63        31.59 
TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA 
       18.71        20.48        54.77        48.33        49.32        34.78 
TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H 
       65.39        24.92        16.18        59.05        40.64        30.44 
TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q 
       28.08        24.16        40.83        24.79        33.24        25.38 
TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH 
       18.61        14.93        23.80        21.37        19.69        15.98 
TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO 
        2.04        40.41        44.09        36.69        33.73        31.20 
TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW 
       30.05        26.14        25.87        33.93        61.41        26.99 
TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD 
       31.36        45.93        43.20        13.51         0.10         7.89 
TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS 
       39.16        20.02        23.47        37.05        16.01        23.21 
TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B 
       51.06        13.32        43.96        39.88        43.40        45.80 
TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 TCGA-02-0001 TCGA-02-0003 
       46.88        37.71        20.81         7.63        11.77         4.73 
TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 
       18.35        23.18        10.59        35.41        20.71        82.59 
TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 
       20.61        87.06        77.65        20.12        53.10        42.74 
TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 
       24.59        12.16        90.58         2.83        14.14         3.62 
TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 
       10.72        10.52        18.31         6.87        14.73         3.22 
TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 
       15.09        12.59         6.54        19.86         8.35         9.57 
TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0070 TCGA-02-0071 TCGA-02-0079 
        6.02        19.73        26.43        25.05         5.49        27.25 
TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 
       89.72        22.72        12.62        51.32         8.81        57.76 
TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0106 TCGA-02-0107 
       16.96         3.48        27.02        65.00        11.67        17.65 
TCGA-02-0111 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 
       23.18        99.98        15.65        48.95        16.54        16.93 
TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 
       17.72        10.75        14.47         3.98        13.87        14.20 
TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 
       15.95        12.23         9.90         7.73        10.62         7.33 
TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 
       15.91        25.71         4.37        25.12        10.59        12.39 
TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 
       14.50        10.55        47.11        11.34         9.27        16.21 
TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 
        3.35        16.80        12.92        15.32        15.45        20.32 
TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 
        2.70         6.15        20.38        47.61         6.94         3.98 
TCGA-06-0128 TCGA-06-0129 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 
       22.72        33.67        25.35        14.30        26.70        24.23 
TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 
       11.90         0.20        10.29         2.20        11.74         2.33 
TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 
       20.09        17.79        10.09         8.61        19.46        46.59 
TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 
       12.33        13.94        10.45         3.19        10.82         9.44 
TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 
       11.80         3.42        56.91        10.65         5.85        19.66 
TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 
        3.29        13.12         4.47         4.04        91.00         4.18 
TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 
       88.14        20.25         3.65        69.90        73.84        27.22 
TCGA-06-0188 TCGA-06-0189 TCGA-06-0190 TCGA-06-0194 TCGA-06-0197 TCGA-06-0201 
       44.58        15.42        10.42         4.67         5.56         0.39 
TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 
        7.66         8.42         7.40        11.84         0.53        15.02 
TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 
       24.16         0.72        19.82        13.64        13.32        20.42 
TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0412 TCGA-06-0413 
       48.69        10.82         9.01         0.26         9.57         3.16 
TCGA-06-0414 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 
       35.11        12.62         5.75         5.75         9.80         2.10 
TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 
       23.57        14.20        26.40        46.88         7.86         2.70 
TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0881 
        2.70         0.92        43.46        46.19         7.17        16.57 
TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1087 TCGA-06-1800 
       20.78        26.76        23.93         6.84         4.04        26.79 
TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 
       11.84        15.32        13.61        33.90         1.08        12.49 
TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 
        4.93        17.65        12.56        30.64         5.95        16.64 
TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 
        5.98         4.37         0.43        31.50         7.79         5.39 
TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 
      120.56         7.36        22.68       115.86         1.74         8.42 
TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 
       25.71        12.16         9.80        29.23        65.33         1.28 
TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 
        8.42        17.95        24.56        31.10        37.58        22.29 
TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 
        3.39        12.23        14.93        18.02        15.35        13.97 
TCGA-08-0392 TCGA-08-0509 TCGA-08-0512 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 
        0.72        12.56        42.15        58.68        19.33        10.75 
TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-12-0618 TCGA-12-0619 
        4.80         7.27        15.98        18.41        12.99        34.92 
TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 
       10.45         7.59        94.78         0.10        38.17        25.97 
TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 
       26.66        12.13         3.65        20.38        28.41        15.06 
TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 
       53.85        43.23         7.63         9.73        14.93        14.86 
TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0827 
       91.76        24.79        18.48        10.62        23.51        38.76 
TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 
        8.94        20.58       127.59         5.82         7.59        33.21 
TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 
       15.98        12.23        15.85         9.11        14.53         3.98 
TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 TCGA-14-0867 
        4.14         2.24        11.24         1.35         5.39         2.04 
TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 
       28.93        19.30         0.79        13.78        50.53        19.10 
TCGA-15-1447 TCGA-15-1449 TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 
       53.19        13.28        26.07        16.37        11.77        21.90 
TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1388 TCGA-19-1389 
        0.66        10.75         9.07         5.95        12.95         4.64 
TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 
       31.33        14.86         5.49         1.58         7.92         2.33 
TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 
        7.30         5.26        14.93        11.28        17.88        14.53 
TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 
       11.77        31.27        23.44        13.64         5.16        22.68 
TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 
       12.76         5.42         7.36        11.38         5.42         3.75 
TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        1.61        17.72        26.30 

  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
             0.20              0.03 
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
            92.65            211.17 
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
            12.85             16.14 
[1] "0.2 - 92.7 (12.8)"  "0.0 - 211.2 (16.1)"
[1] "hr=" "1.7"
D8V2, continuous
D8V3, binary
                   cls
clus                  0   1
  4Q GAIN MUTATED    34   9
  4Q GAIN WILD-TYPE 539 503
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4Q GAIN MUTATED     34    9
  4Q GAIN WILD-TYPE  539  503
                        clus
vv                       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  BRAIN                               34               539
  CENTRAL NERVOUS SYSTEM               9               503
[1] 2 2
[1] FALSE
D8V4, binary
                   cls
clus                  0   1
  4Q GAIN MUTATED    20  23
  4Q GAIN WILD-TYPE 433 609
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4Q GAIN MUTATED     20   23
  4Q GAIN WILD-TYPE  433  609
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  FEMALE              20               433
  MALE                23               609
[1] 2 2
[1] FALSE
D8V5, binary
                   cls
clus                  0   1
  4Q GAIN MUTATED     5  36
  4Q GAIN WILD-TYPE 253 734
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4Q GAIN MUTATED      5   36
  4Q GAIN WILD-TYPE  253  734
     clus
vv    4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  NO                5               253
  YES              36               734
[1] 2 2
[1] FALSE
D8V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  4Q GAIN MUTATED             6                             1                0
  4Q GAIN WILD-TYPE         188                            29              129
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  4Q GAIN MUTATED                   3                   1
  4Q GAIN WILD-TYPE               186                  17
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  4Q GAIN MUTATED                                32
  4Q GAIN WILD-TYPE                             493
D8V7, multiclass
                                 clus
vv                                4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  ASTROCYTOMA                                   6               188
  GLIOBLASTOMA MULTIFORME (GBM)                 1                29
  OLIGOASTROCYTOMA                              0               129
  OLIGODENDROGLIOMA                             3               186
  TREATED PRIMARY GBM                           1                17
  UNTREATED PRIMARY (DE NOVO) GBM              32               493
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  4Q GAIN MUTATED                                  0     1
  4Q GAIN WILD-TYPE                                1    20
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  4Q GAIN MUTATED                           5    37
  4Q GAIN WILD-TYPE                        66   922
D8V8, multiclass
                                  clus
vv                                 4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          1                20
  BLACK OR AFRICAN AMERICAN                      5                66
  WHITE                                         37               922
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D8V9, binary
                   cls
clus                  0   1
  4Q GAIN MUTATED     0  41
  4Q GAIN WILD-TYPE  44 880
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4Q GAIN MUTATED      0   41
  4Q GAIN WILD-TYPE   44  880
                        clus
vv                       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  HISPANIC OR LATINO                   0                44
  NOT HISPANIC OR LATINO              41               880
[1] 2 2
[1] FALSE

Clustering(9) Variable = 5P GAIN MUTATION ANALYSIS
D9V1, survival
                   sevent
clus2                 0   1
  5P GAIN MUTATED    11  49
  5P GAIN WILD-TYPE 469 549
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
               60              1018 
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
               49               549 
$`5P GAIN MUTATED`
TCGA-19-A6J4 TCGA-06-1806 TCGA-06-5856 TCGA-12-1602 TCGA-12-3646 TCGA-14-1396 
        3.98        15.32         3.75         6.77        44.02         1.12 
TCGA-14-1823 TCGA-19-1787 TCGA-28-2506 TCGA-28-2509 TCGA-32-1973 TCGA-32-2495 
       17.85        12.66         6.74         4.77        21.07        15.02 
TCGA-32-2632 TCGA-32-4210 TCGA-76-4934 TCGA-DU-A5TT TCGA-E1-5304 TCGA-E1-A7YD 
        8.84         3.72         2.53        24.43        41.13        14.30 
TCGA-E1-A7YQ TCGA-HT-7477 TCGA-QH-A65S TCGA-QH-A6CV TCGA-S9-A6TS TCGA-TM-A7C3 
       51.88        24.26         2.53        14.53        62.17        54.77 
TCGA-VM-A8C9 TCGA-VW-A8FI TCGA-06-0209 TCGA-02-0024 TCGA-02-0028 TCGA-02-0051 
       43.20         8.05         7.63        53.10        90.58        15.09 
TCGA-02-0054 TCGA-02-0075 TCGA-02-0086 TCGA-02-0106 TCGA-02-0113 TCGA-02-0324 
        6.54        20.84         8.81        11.67        92.65         7.73 
TCGA-02-0456 TCGA-06-0151 TCGA-06-0195 TCGA-06-0237 TCGA-06-0397 TCGA-06-0409 
        3.35        46.59         7.40        13.64         9.01        72.36 
TCGA-06-0410 TCGA-06-0645 TCGA-06-0649 TCGA-06-2557 TCGA-08-0350 TCGA-08-0510 
        4.70         5.75         2.10         1.08        29.23         4.27 
TCGA-08-0518 TCGA-08-0524 TCGA-12-0691 TCGA-12-0778 TCGA-12-0826 TCGA-12-1096 
       19.33         7.27        12.13        14.93        27.78         9.11 
TCGA-12-1098 TCGA-15-1447 TCGA-19-0955 TCGA-19-1388 TCGA-28-5216 TCGA-32-2616 
        3.98        53.19        11.77        12.95        13.64         7.36 

$`5P GAIN WILD-TYPE`
TCGA-06-6391 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        1.48        51.55        46.88        46.72        31.82        42.05 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       62.01        17.16        23.90        20.09        17.82        20.45 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-5408 
       18.64        21.40        45.60        42.77        59.38        11.74 
TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 
        3.55         8.35         4.54         8.81         8.98         8.55 
TCGA-06-5416 TCGA-06-5418 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 
        6.71         2.73         6.15         4.57         5.23         8.32 
TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 
       12.85         4.77         1.55         4.77         4.96        26.79 
TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 
        1.87         3.12         2.56        14.60        17.72        15.35 
TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 TCGA-12-3644 TCGA-12-3648 
       21.73        15.65        25.68        14.73        59.77        26.93 
TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 
       15.22        10.95        12.69        34.92        14.53        14.93 
TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 
        3.22         2.04        15.12        11.97         0.95         6.21 
TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 
       23.05        13.78         3.25         2.89        16.50        26.33 
TCGA-14-1034 TCGA-14-1395 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 
       15.95         1.38         3.75        32.05        58.78        23.11 
TCGA-14-1452 TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 
        7.10         1.15        30.18         0.92        40.96         6.67 
TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 TCGA-14-1825 TCGA-14-1827 
       12.43         0.99         1.97        17.79         7.63         5.88 
TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-3477 TCGA-14-4157 TCGA-16-0848 
        7.17        17.49         7.96         3.78         3.42        17.59 
TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 
       29.03         4.57        10.29        14.01         9.14        21.24 
TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 
       13.97         6.41         8.61        14.27         3.39        25.38 
TCGA-19-1392 TCGA-19-1786 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 
        3.65         7.17         3.25         0.13         9.67         4.87 
TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 
        1.08         7.53         0.16         4.08        24.23         7.00 
TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 
        7.04         6.64        17.19         8.02        18.90         4.73 
TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 
       12.10         1.78        22.49        14.07        16.80        14.96 
TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 
       17.79        28.54        10.03        13.87         9.73         7.13 
TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 
        9.37         9.40         8.88        18.97        19.33         5.06 
TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 
       16.60         9.86        24.23        40.54        21.30        30.05 
TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 
       14.04        11.51        24.76        18.08        16.77        16.08 
TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 
        7.59         2.86        14.40        15.78         0.20         2.53 
TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 
        9.21         8.35         7.63         8.48         1.22         1.55 
TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-32-1970 TCGA-32-1976 TCGA-32-1977 
        2.83         0.13         0.66        15.39         0.49         0.10 
TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 
       15.85        19.50         1.18         4.67        12.69        14.86 
TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2615 TCGA-32-2634 TCGA-32-2638 
       16.93        12.23        20.78        15.95        22.78        25.18 
TCGA-32-4208 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 
       21.14        12.59        19.86        10.85        19.23         0.85 
TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 
       13.35         8.94         9.53         0.99         4.44        11.84 
TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T 
        0.20        15.12        12.46         4.08         1.45        25.58 
TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 
        3.45        20.91         4.34        14.33         8.22         7.50 
TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4935 
        4.80         4.54         3.09         3.65         9.17        36.85 
TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 
       16.70         3.29         2.70        17.06         8.35        20.98 
TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 
        4.83         5.03        23.90        34.45        18.64        36.20 
TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 
        5.92         6.28        20.55       117.50         7.69        43.89 
TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 
       36.36        60.10        40.18         0.26        21.01        53.62 
TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 
        6.38        17.69        26.76        37.38        46.95        48.30 
TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.94        49.12       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       46.42        18.84        30.21        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       12.10        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F 
       63.88        46.06        24.59        30.21        27.81        17.19 
TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV 
       17.19        54.25        23.21        17.46        13.71        18.61 
TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 
       18.02        14.56        17.46         6.74        13.38         8.45 
TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 
        6.81       182.33        18.94        17.49        15.16       211.17 
TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
       52.11        22.42        49.02        75.16        46.06        65.75 
TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
        1.22        87.45         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 
       16.83        94.52       114.08         7.96         2.40        11.47 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 
       62.96       156.23       154.36        14.99       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        8.84       117.40        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 
        7.96        94.32        18.94        44.02        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       20.68        21.40        19.13        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY 
       33.27        29.85        31.69        26.17        24.99        33.96 
TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K 
       25.55        21.57        95.11        20.98        22.29        11.41 
TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB 
       26.76        21.30        17.98       139.04        84.33        51.52 
TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 
       37.38         7.50        44.42        38.89         0.56        50.14 
TCGA-E1-5303 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 
       67.46        79.99        57.93       134.27        78.21        95.57 
TCGA-E1-5322 TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK 
      130.78        29.13        93.21         3.65        19.46        12.43 
TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV 
       16.18        21.30        75.02        15.32         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       36.82       146.14        13.08        73.48       145.05        32.35 
TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 
       39.48         0.23         0.20        47.77        25.48        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 
       15.35        17.88        22.55        20.61        20.09        28.34 
TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 
       13.68        14.24        16.01        14.96        22.52        32.61 
TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J 
       38.27        10.72        18.38        18.71        23.70        14.76 
TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z 
       21.53        15.02        16.44        22.26        28.54        10.78 
TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 
       36.66        48.69         5.72        27.52         0.10         6.67 
TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
       11.54        40.11         0.13         0.03        16.54         3.75 
TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
       17.42         6.54         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 
        0.76        44.68         6.05        42.74         0.10        31.69 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 
       14.96         0.10         0.10         2.96        17.52         6.90 
TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 
       14.53        39.48        19.23        39.09         0.23        50.63 
TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 
        0.49        23.61        37.15         0.33         0.13         3.68 
TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 
        5.33        35.47         3.72        11.28        31.43         1.64 
TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
       16.24         9.40        63.55         0.10        37.87        33.01 
TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 
       12.23         6.25         0.10         0.46         2.50         5.56 
TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 
       13.78         0.23        29.59        34.19        28.27        15.72 
TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA 
        0.23        26.04         0.13        20.22         0.07        27.35 
TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 
        0.10         5.33         2.70        16.93         1.81        16.14 
TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K 
       16.83        17.52        17.65         2.43        10.52        15.35 
TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 
       11.05         0.10        56.58        45.44        41.49        68.32 
TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 
       69.27        35.44        39.75        40.01        42.54        24.92 
TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X 
       31.63        12.76        28.87        20.71        19.00        14.40 
TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ 
       14.40         0.23         6.71         7.99         2.37         2.30 
TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U 
        9.44         5.88         7.96         7.59         1.28         0.23 
TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 
       10.42        13.25        11.64        10.95         9.01        13.61 
TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 
        9.60         7.56        12.23        19.20         3.45         2.37 
TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS 
        4.41        15.16        12.62        15.85        14.04        19.33 
TCGA-QH-A6CU TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 
       14.83        13.61        12.23        13.41         9.17        10.29 
TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC 
       14.53        16.34        16.73         1.91        16.50        16.70 
TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X 
       11.08        12.99        88.83        94.03        32.65        30.87 
TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
        5.46         9.90        28.08         2.07        19.59        30.67 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ 
       87.12        18.77        41.10        40.93        35.38        36.82 
TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       24.39        25.81        29.85        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       95.93         5.85       123.65        75.25       135.22        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO 
       38.56        84.99        31.10        19.86        26.47        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.64        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       18.54        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C4 
       30.05        98.63        31.59        18.71        20.48        48.33 
TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F 
       49.32        34.78        65.39        24.92        16.18        59.05 
TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M 
       40.64        30.44        28.08        24.16        40.83        24.79 
TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF 
       33.24        25.38        18.61        14.93        23.80        21.37 
TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM 
       19.69        15.98         2.04        40.41        44.09        36.69 
TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU 
       33.73        31.20        30.05        26.14        25.87        33.93 
TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8CA TCGA-VM-A8CB 
       61.41        26.99        31.36        45.93        13.51         0.10 
TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M 
        7.89        39.16        20.02        23.47        37.05        16.01 
TCGA-VW-A7QS TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A 
       23.21        51.06        13.32        43.96        39.88        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-02-0001 TCGA-02-0003 
       45.80        46.88        37.71        20.81        11.77         4.73 
TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 
       18.35        23.18        10.59        35.41        20.71        82.59 
TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0025 TCGA-02-0026 
       20.61        87.06        77.65        20.12        42.74        24.59 
TCGA-02-0027 TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 
       12.16         2.83        14.14         3.62        10.72        10.52 
TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 TCGA-02-0052 TCGA-02-0055 
       18.31         6.87        14.73         3.22        12.59         2.50 
TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 
       19.86         8.35         9.57         6.02        19.73        26.43 
TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0079 TCGA-02-0080 
       28.70        25.05         5.49        10.19        27.25        89.72 
TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 
       22.72        12.62        51.32        57.76        16.96         3.48 
TCGA-02-0102 TCGA-02-0104 TCGA-02-0107 TCGA-02-0111 TCGA-02-0114 TCGA-02-0115 
       27.02        65.00        17.65        23.18        99.98        15.65 
TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 
       48.95        16.54        16.93        17.72        10.75        14.47 
TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 
        3.98        13.87        14.20        15.95        12.23         9.90 
TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 
       10.62         7.33        15.91        25.71         4.37        25.12 
TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 
       10.59        12.39        14.50        10.55        47.11        11.34 
TCGA-02-0446 TCGA-02-0451 TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 
        9.27        16.21        16.80        12.92        15.32        15.45 
TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 
       20.32         2.70         6.15        20.38        47.61         6.94 
TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 
        3.98        22.72        33.67        12.95        25.35        14.30 
TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 
       26.70        24.23        11.90         0.20        10.29         2.20 
TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 
       11.74         2.33        20.09        17.79        10.09         8.61 
TCGA-06-0150 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 
       19.46        12.33        13.94        10.45         3.19        10.82 
TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 
        9.44        11.80         3.42        56.91        10.65         5.85 
TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 
       19.66         3.29        13.12         4.47         3.22         4.04 
TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 
       91.00         4.18        88.14        20.25         3.65        69.90 
TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 
       73.84        27.22        44.58        15.42        10.42        38.96 
TCGA-06-0194 TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 
        4.67         5.56         0.39         7.66         8.42         7.40 
TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 
       11.84         0.53        15.02        24.16         0.72        19.82 
TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0402 TCGA-06-0412 
       13.32        20.42        48.69        10.82         0.26         9.57 
TCGA-06-0413 TCGA-06-0414 TCGA-06-0644 TCGA-06-0646 TCGA-06-0648 TCGA-06-0650 
        3.16        35.11        12.62         5.75         9.80        23.57 
TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 
       14.20        26.40        46.88         7.86         2.70         2.70 
TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 
        0.92        43.46        46.19         7.17        40.41        16.57 
TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1087 TCGA-06-1800 
       20.78        26.76        23.93         6.84         4.04        26.79 
TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 TCGA-06-2558 TCGA-06-2559 
       11.84        15.32        13.61        33.90        12.49         4.93 
TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 
       17.65        12.56        30.64         5.95        16.64         5.98 
TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 
        4.37         0.43        31.50         7.79         5.39       120.56 
TCGA-06-6694 TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 
        7.36        22.68        37.84         4.18       115.86         1.74 
TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0351 TCGA-08-0352 
        8.42        25.71        12.16         9.80        65.33         1.28 
TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 
        8.42        17.95        24.56        31.10        37.58        22.29 
TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 
        3.39        12.23        14.93        18.02        15.35        13.97 
TCGA-08-0392 TCGA-08-0509 TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 
        0.72        12.56        42.15        11.08        19.59        58.68 
TCGA-08-0520 TCGA-08-0521 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 
       10.75         4.80        15.98        18.41         7.56        14.73 
TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 
       12.99        34.92        10.45         7.59        94.78         0.10 
TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 
       38.17        25.97        26.66         3.65        20.38        28.41 
TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0780 
       15.06        53.85        43.23         7.63         9.73        14.86 
TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0827 
       91.76        24.79        18.48        10.62        23.51        38.76 
TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 
        8.94        20.58       127.59         5.82         7.59        33.21 
TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1097 TCGA-12-1099 TCGA-14-0787 
       15.98        12.23        15.85        14.53         4.14         2.24 
TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 TCGA-14-0867 TCGA-14-0871 TCGA-14-1037 
       11.24         1.35         5.39         2.04        28.93        19.30 
TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 TCGA-15-1449 TCGA-16-0846 
        0.79        13.78        50.53        19.10        13.28         3.91 
TCGA-16-0849 TCGA-16-0850 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 
       26.07        16.37        21.90         0.66        10.75         9.07 
TCGA-19-1387 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 
        5.95         4.64        31.33        14.86         5.49         1.58 
TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 TCGA-28-5207 
        7.92         2.33         7.30         5.26        14.93        11.28 
TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5215 
       17.88        14.53        11.77        31.27        23.44        11.01 
TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-76-6280 TCGA-76-6283 
        5.16        22.68        12.76         5.42        11.38         5.42 
TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        3.75         1.61        17.72        26.30 

  5P GAIN MUTATED 5P GAIN WILD-TYPE 
             1.08              0.03 
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
            92.65            211.17 
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
           12.395            16.240 
[1] "1.1 - 92.7 (12.4)"  "0.0 - 211.2 (16.2)"
[1] "hr=" "1.8"
D9V2, continuous
D9V3, binary
                   cls
clus                  0   1
  5P GAIN MUTATED    49  11
  5P GAIN WILD-TYPE 524 501
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5P GAIN MUTATED     49   11
  5P GAIN WILD-TYPE  524  501
                        clus
vv                       5P GAIN MUTATED 5P GAIN WILD-TYPE
  BRAIN                               49               524
  CENTRAL NERVOUS SYSTEM              11               501
[1] 2 2
[1] FALSE
D9V4, binary
                   cls
clus                  0   1
  5P GAIN MUTATED    29  31
  5P GAIN WILD-TYPE 424 601
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5P GAIN MUTATED     29   31
  5P GAIN WILD-TYPE  424  601
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  FEMALE              29               424
  MALE                31               601
[1] 2 2
[1] FALSE
D9V5, binary
                   cls
clus                  0   1
  5P GAIN MUTATED    11  46
  5P GAIN WILD-TYPE 247 724
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5P GAIN MUTATED     11   46
  5P GAIN WILD-TYPE  247  724
     clus
vv    5P GAIN MUTATED 5P GAIN WILD-TYPE
  NO               11               247
  YES              46               724
[1] 2 2
[1] FALSE
D9V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  5P GAIN MUTATED             7                             3                2
  5P GAIN WILD-TYPE         187                            27              127
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  5P GAIN MUTATED                   2                   4
  5P GAIN WILD-TYPE               187                  14
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  5P GAIN MUTATED                                42
  5P GAIN WILD-TYPE                             483
D9V7, multiclass
                                 clus
vv                                5P GAIN MUTATED 5P GAIN WILD-TYPE
  ASTROCYTOMA                                   7               187
  GLIOBLASTOMA MULTIFORME (GBM)                 3                27
  OLIGOASTROCYTOMA                              2               127
  OLIGODENDROGLIOMA                             2               187
  TREATED PRIMARY GBM                           4                14
  UNTREATED PRIMARY (DE NOVO) GBM              42               483
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  5P GAIN MUTATED                                  0     2
  5P GAIN WILD-TYPE                                1    19
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  5P GAIN MUTATED                           5    51
  5P GAIN WILD-TYPE                        66   908
D9V8, multiclass
                                  clus
vv                                 5P GAIN MUTATED 5P GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          2                19
  BLACK OR AFRICAN AMERICAN                      5                66
  WHITE                                         51               908
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D9V9, binary
                   cls
clus                  0   1
  5P GAIN MUTATED     2  52
  5P GAIN WILD-TYPE  42 869
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5P GAIN MUTATED      2   52
  5P GAIN WILD-TYPE   42  869
                        clus
vv                       5P GAIN MUTATED 5P GAIN WILD-TYPE
  HISPANIC OR LATINO                   2                42
  NOT HISPANIC OR LATINO              52               869
[1] 2 2
[1] FALSE

Clustering(10) Variable = 5Q GAIN MUTATION ANALYSIS
D10V1, survival
                   sevent
clus2                 0   1
  5Q GAIN MUTATED    10  40
  5Q GAIN WILD-TYPE 470 558
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
               50              1028 
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
               40               558 
$`5Q GAIN MUTATED`
TCGA-19-A6J4 TCGA-06-1806 TCGA-06-5416 TCGA-06-5856 TCGA-12-1602 TCGA-12-3646 
        3.98        15.32         6.71         3.75         6.77        44.02 
TCGA-14-1396 TCGA-14-1823 TCGA-19-1787 TCGA-28-2506 TCGA-28-2509 TCGA-32-2495 
        1.12        17.85        12.66         6.74         4.77        15.02 
TCGA-32-2632 TCGA-32-4210 TCGA-76-4934 TCGA-DU-A5TT TCGA-E1-A7YD TCGA-E1-A7YQ 
        8.84         3.72         2.53        24.43        14.30        51.88 
TCGA-QH-A65S TCGA-QH-A6CV TCGA-S9-A6TS TCGA-TM-A7C3 TCGA-VM-A8C9 TCGA-VW-A8FI 
        2.53        14.53        62.17        54.77        43.20         8.05 
TCGA-06-0209 TCGA-02-0028 TCGA-02-0054 TCGA-02-0075 TCGA-02-0086 TCGA-02-0106 
        7.63        90.58         6.54        20.84         8.81        11.67 
TCGA-02-0113 TCGA-02-0324 TCGA-02-0456 TCGA-06-0151 TCGA-06-0195 TCGA-06-0397 
       92.65         7.73         3.35        46.59         7.40         9.01 
TCGA-06-0409 TCGA-06-0410 TCGA-06-0645 TCGA-06-0649 TCGA-06-2557 TCGA-08-0510 
       72.36         4.70         5.75         2.10         1.08         4.27 
TCGA-08-0518 TCGA-12-0778 TCGA-12-0826 TCGA-12-1096 TCGA-12-1098 TCGA-19-0955 
       19.33        14.93        27.78         9.11         3.98        11.77 
TCGA-19-1388 TCGA-28-5216 
       12.95        13.64 

$`5Q GAIN WILD-TYPE`
TCGA-06-6391 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        1.48        51.55        46.88        46.72        31.82        42.05 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       62.01        17.16        23.90        20.09        17.82        20.45 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-5408 
       18.64        21.40        45.60        42.77        59.38        11.74 
TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 
        3.55         8.35         4.54         8.81         8.98         8.55 
TCGA-06-5418 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 
        2.73         6.15         4.57         5.23         8.32        12.85 
TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 
        4.77         1.55         4.77         4.96        26.79         1.87 
TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 
        3.12         2.56        14.60        17.72        15.35        21.73 
TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 TCGA-12-3644 TCGA-12-3648 TCGA-12-3649 
       15.65        25.68        14.73        59.77        26.93        15.22 
TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 TCGA-12-5299 
       10.95        12.69        34.92        14.53        14.93         3.22 
TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 
        2.04        15.12        11.97         0.95         6.21        23.05 
TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 
       13.78         3.25         2.89        16.50        26.33        15.95 
TCGA-14-1395 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 
        1.38         3.75        32.05        58.78        23.11         7.10 
TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 
        1.15        30.18         0.92        40.96         6.67        12.43 
TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 
        0.99         1.97        17.79         7.63         5.88         7.17 
TCGA-14-2554 TCGA-14-2555 TCGA-14-3477 TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 
       17.49         7.96         3.78         3.42        17.59        29.03 
TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 
        4.57        10.29        14.01         9.14        21.24        13.97 
TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 TCGA-19-1392 
        6.41         8.61        14.27         3.39        25.38         3.65 
TCGA-19-1786 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 
        7.17         3.25         0.13         9.67         4.87         1.08 
TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 
        7.53         0.16         4.08        24.23         7.00         7.04 
TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 
        6.64        17.19         8.02        18.90         4.73        12.10 
TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I 
        1.78        22.49        14.07        16.80        14.96        17.79 
TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 
       28.54        10.03        13.87         9.73         7.13         9.37 
TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 
        9.40         8.88        18.97        19.33         5.06        16.60 
TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 
        9.86        24.23        40.54        21.30        30.05        14.04 
TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 TCGA-27-2524 
       11.51        24.76        18.08        16.77        16.08         7.59 
TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 
        2.86        14.40        15.78         0.20         2.53         9.21 
TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 
        8.35         7.63         8.48         1.22         1.55         2.83 
TCGA-28-1757 TCGA-28-2502 TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 
        0.13         0.66        15.39        21.07         0.49         0.10 
TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 
       15.85        19.50         1.18         4.67        12.69        14.86 
TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2615 TCGA-32-2634 TCGA-32-2638 
       16.93        12.23        20.78        15.95        22.78        25.18 
TCGA-32-4208 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 
       21.14        12.59        19.86        10.85        19.23         0.85 
TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 
       13.35         8.94         9.53         0.99         4.44        11.84 
TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T 
        0.20        15.12        12.46         4.08         1.45        25.58 
TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 
        3.45        20.91         4.34        14.33         8.22         7.50 
TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4935 
        4.80         4.54         3.09         3.65         9.17        36.85 
TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 
       16.70         3.29         2.70        17.06         8.35        20.98 
TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 
        4.83         5.03        23.90        34.45        18.64        36.20 
TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 
        5.92         6.28        20.55       117.50         7.69        43.89 
TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 
       36.36        60.10        40.18         0.26        21.01        53.62 
TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 
        6.38        17.69        26.76        37.38        46.95        48.30 
TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.94        49.12       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       46.42        18.84        30.21        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       12.10        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F 
       63.88        46.06        24.59        30.21        27.81        17.19 
TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV 
       17.19        54.25        23.21        17.46        13.71        18.61 
TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 
       18.02        14.56        17.46         6.74        13.38         8.45 
TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 
        6.81       182.33        18.94        17.49        15.16       211.17 
TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
       52.11        22.42        49.02        75.16        46.06        65.75 
TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
        1.22        87.45         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 
       16.83        94.52       114.08         7.96         2.40        11.47 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 
       62.96       156.23       154.36        14.99       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        8.84       117.40        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 
        7.96        94.32        18.94        44.02        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       20.68        21.40        19.13        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY 
       33.27        29.85        31.69        26.17        24.99        33.96 
TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K 
       25.55        21.57        95.11        20.98        22.29        11.41 
TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB 
       26.76        21.30        17.98       139.04        84.33        51.52 
TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 
       37.38         7.50        44.42        38.89         0.56        50.14 
TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 
       67.46        41.13        79.99        57.93       134.27        78.21 
TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ 
       95.57       130.78        29.13        93.21         3.65        19.46 
TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YS TCGA-E1-A7YU 
       12.43        16.18        21.30        75.02        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       18.44        15.35        17.88        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 
       28.34        13.68        14.24        16.01        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY 
       32.61        38.27        10.72        18.38        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y 
       14.76        21.53        15.02        16.44        22.26        28.54 
TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 
       10.78        36.66        48.69         5.72        27.52         0.10 
TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 
        6.67        11.54        40.11         0.13         0.03        16.54 
TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 
        3.75        17.42         6.54        24.26         6.38        40.34 
TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 
       75.19        95.93       106.95       172.77         4.01         5.03 
TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 
       29.85        23.18       122.47         4.57        17.29         3.16 
TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 
       22.06        45.99        56.09        57.60         0.23        14.27 
TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 
        0.16        16.24         0.76        44.68         6.05        42.74 
TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 
        0.10        31.69        14.96         0.10         0.10         2.96 
TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 
       17.52         6.90        14.53        39.48        19.23        39.09 
TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 
        0.23        50.63         0.49        23.61        37.15         0.33 
TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 
        0.13         3.68         5.33        35.47         3.72        11.28 
TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 
       31.43         1.64        16.24         9.40        63.55         0.10 
TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 
       37.87        33.01        12.23         6.25         0.10         0.46 
TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 
        2.50         5.56        13.78         0.23        29.59        34.19 
TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 
       28.27        15.72         0.23        26.04         0.13        20.22 
TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 
        0.07        27.35         0.10         5.33         2.70        16.93 
TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H 
        1.81        16.14        16.83        17.52        17.65         2.43 
TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 
       10.52        15.35        11.05         0.10        56.58        45.44 
TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 
       41.49        68.32        69.27        35.44        39.75        40.01 
TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       42.54        24.92        31.63        12.76        28.87        20.71 
TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX 
       19.00        14.40        14.40         0.23         6.71         7.99 
TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 
        2.37         2.30         9.44         5.88         7.96         7.59 
TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 
        1.28         0.23        10.42        13.25        11.64        10.95 
TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W 
        9.01        13.61         9.60         7.56        12.23        19.20 
TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65V TCGA-QH-A65X 
        3.45         2.37         4.41        15.16        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY 
       14.04        19.33        14.83        13.61        12.23        13.41 
TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 
        9.17        10.29        14.53        16.34        16.73         1.91 
TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML 
       16.50        16.70        11.08        12.99        88.83        94.03 
TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 
       32.65        30.87         5.46         9.90        28.08         2.07 
TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX 
       19.59        30.67        87.12        18.77        41.10        40.93 
TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 
       35.38        36.82        24.39        25.81        29.85        32.61 
TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD 
       35.15        98.24        95.93         5.85       123.65        75.25 
TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM 
      135.22        85.55        38.56        84.99        31.10        19.86 
TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS 
       26.47        18.61        18.64        14.07        36.13         7.92 
TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 
       26.93        23.51        19.99        20.02         8.19         2.04 
TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 
       20.68        15.06        18.54        28.37        27.16       169.84 
TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V 
       10.39        99.06        30.05        98.63        31.59        18.71 
TCGA-S9-A89Z TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B 
       20.48        48.33        49.32        34.78        65.39        24.92 
TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J 
       16.18        59.05        40.64        30.44        28.08        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ 
       23.80        21.37        19.69        15.98         2.04        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ 
       44.09        36.69        33.73        31.20        30.05        26.14 
TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 
       25.87        33.93        61.41        26.99        31.36        45.93 
TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH 
       13.51         0.10         7.89        39.16        20.02        23.47 
TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       37.05        16.01        23.21        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 
TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 
       11.77         4.73        18.35        23.18        10.59        35.41 
TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 
       20.71        82.59        20.61        87.06        77.65        20.12 
TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 TCGA-02-0033 TCGA-02-0034 
       53.10        42.74        24.59        12.16         2.83        14.14 
TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 
        3.62        10.72        10.52        18.31         6.87        14.73 
TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 TCGA-02-0055 TCGA-02-0057 TCGA-02-0058 
        3.22        15.09        12.59         2.50        19.86         8.35 
TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 
        9.57         6.02        19.73        26.43        28.70        25.05 
TCGA-02-0071 TCGA-02-0074 TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 
        5.49        10.19        27.25        89.72        22.72        12.62 
TCGA-02-0085 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 
       51.32        57.76        16.96         3.48        27.02        65.00 
TCGA-02-0107 TCGA-02-0111 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 
       17.65        23.18        99.98        15.65        48.95        16.54 
TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 TCGA-02-0281 TCGA-02-0285 
       16.93        17.72        10.75        14.47         3.98        13.87 
TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0325 TCGA-02-0326 
       14.20        15.95        12.23         9.90        10.62         7.33 
TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 
       15.91        25.71         4.37        25.12        10.59        12.39 
TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 
       14.50        10.55        47.11        11.34         9.27        16.21 
TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 
       16.80        12.92        15.32        15.45        20.32         2.70 
TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 
        6.15        20.38        47.61         6.94         3.98        22.72 
TCGA-06-0129 TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 
       33.67        12.95        25.35        14.30        26.70        24.23 
TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 
       11.90         0.20        10.29         2.20        11.74         2.33 
TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0152 
       20.09        17.79        10.09         8.61        19.46        12.33 
TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 
       13.94        10.45         3.19        10.82         9.44        11.80 
TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 
        3.42        56.91        10.65         5.85        19.66         3.29 
TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 
       13.12         4.47         3.22         4.04        91.00         4.18 
TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 
       88.14        20.25         3.65        69.90        73.84        27.22 
TCGA-06-0188 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0197 
       44.58        15.42        10.42        38.96         4.67         5.56 
TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 
        0.39         7.66         8.42         7.40        11.84         0.53 
TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 TCGA-06-0238 
       15.02        24.16         0.72        19.82        13.64        13.32 
TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0402 TCGA-06-0412 TCGA-06-0413 
       20.42        48.69        10.82         0.26         9.57         3.16 
TCGA-06-0414 TCGA-06-0644 TCGA-06-0646 TCGA-06-0648 TCGA-06-0650 TCGA-06-0686 
       35.11        12.62         5.75         9.80        23.57        14.20 
TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 
       26.40        46.88         7.86         2.70         2.70         0.92 
TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 
       43.46        46.19         7.17        40.41        16.57        20.78 
TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 
       26.76        23.93         6.84         4.04        26.79        11.84 
TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 
       15.32        13.61        33.90        12.49         4.93        17.65 
TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 
       12.56        30.64         5.95        16.64         5.98         4.37 
TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 
        0.43        31.50         7.79         5.39       120.56         7.36 
TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 
       22.68        37.84         4.18       115.86         1.74         8.42 
TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 
       25.71        12.16         9.80        29.23        65.33         1.28 
TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 
        8.42        17.95        24.56        31.10        37.58        22.29 
TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 
        3.39        12.23        14.93        18.02        15.35        13.97 
TCGA-08-0392 TCGA-08-0509 TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 
        0.72        12.56        42.15        11.08        19.59        58.68 
TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 
       10.75         4.80         7.27        15.98        18.41         7.56 
TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 
       14.73        12.99        34.92        10.45         7.59        94.78 
TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 
        0.10        38.17        25.97        26.66        12.13         3.65 
TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 
       20.38        28.41        15.06        53.85        43.23         7.63 
TCGA-12-0776 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 
        9.73        14.86        91.76        24.79        18.48        10.62 
TCGA-12-0822 TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 
       23.51        38.76         8.94        20.58       127.59         5.82 
TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1097 
        7.59        33.21        15.98        12.23        15.85        14.53 
TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 TCGA-14-0867 
        4.14         2.24        11.24         1.35         5.39         2.04 
TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 
       28.93        19.30         0.79        13.78        50.53        19.10 
TCGA-15-1447 TCGA-15-1449 TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 TCGA-19-0957 
       53.19        13.28         3.91        26.07        16.37        21.90 
TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1389 TCGA-26-1442 
        0.66        10.75         9.07         5.95         4.64        31.33 
TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 
       14.86         5.49         1.58         7.92         2.33         7.30 
TCGA-28-2514 TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 
        5.26        14.93        11.28        17.88        14.53        11.77 
TCGA-28-5213 TCGA-28-5214 TCGA-28-5215 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 
       31.27        23.44        11.01         5.16        22.68        12.76 
TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 
        5.42         7.36        11.38         5.42         3.75         1.61 
TCGA-81-5911 TCGA-87-5896 
       17.72        26.30 

  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
             1.08              0.03 
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
            92.65            211.17 
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
             9.06             16.29 
[1] "1.1 - 92.7 (9.1)"   "0.0 - 211.2 (16.3)"
[1] "hr=" "1.9"
D10V2, continuous
D10V3, binary
                   cls
clus                  0   1
  5Q GAIN MUTATED    41   9
  5Q GAIN WILD-TYPE 532 503
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5Q GAIN MUTATED     41    9
  5Q GAIN WILD-TYPE  532  503
                        clus
vv                       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  BRAIN                               41               532
  CENTRAL NERVOUS SYSTEM               9               503
[1] 2 2
[1] FALSE
D10V4, binary
                   cls
clus                  0   1
  5Q GAIN MUTATED    26  24
  5Q GAIN WILD-TYPE 427 608
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5Q GAIN MUTATED     26   24
  5Q GAIN WILD-TYPE  427  608
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  FEMALE              26               427
  MALE                24               608
[1] 2 2
[1] FALSE
D10V5, binary
                   cls
clus                  0   1
  5Q GAIN MUTATED    11  36
  5Q GAIN WILD-TYPE 247 734
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5Q GAIN MUTATED     11   36
  5Q GAIN WILD-TYPE  247  734
     clus
vv    5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  NO               11               247
  YES              36               734
[1] 2 2
[1] FALSE
D10V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  5Q GAIN MUTATED             5                             3                2
  5Q GAIN WILD-TYPE         189                            27              127
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  5Q GAIN MUTATED                   2                   3
  5Q GAIN WILD-TYPE               187                  15
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  5Q GAIN MUTATED                                35
  5Q GAIN WILD-TYPE                             490
D10V7, multiclass
                                 clus
vv                                5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  ASTROCYTOMA                                   5               189
  GLIOBLASTOMA MULTIFORME (GBM)                 3                27
  OLIGOASTROCYTOMA                              2               127
  OLIGODENDROGLIOMA                             2               187
  TREATED PRIMARY GBM                           3                15
  UNTREATED PRIMARY (DE NOVO) GBM              35               490
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  5Q GAIN MUTATED                                  0     2
  5Q GAIN WILD-TYPE                                1    19
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  5Q GAIN MUTATED                           5    41
  5Q GAIN WILD-TYPE                        66   918
D10V8, multiclass
                                  clus
vv                                 5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          2                19
  BLACK OR AFRICAN AMERICAN                      5                66
  WHITE                                         41               918
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D10V9, binary
                   cls
clus                  0   1
  5Q GAIN MUTATED     0  45
  5Q GAIN WILD-TYPE  44 876
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5Q GAIN MUTATED      0   45
  5Q GAIN WILD-TYPE   44  876
                        clus
vv                       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  HISPANIC OR LATINO                   0                44
  NOT HISPANIC OR LATINO              45               876
[1] 2 2
[1] FALSE

Clustering(11) Variable = 6P GAIN MUTATION ANALYSIS
D11V1, survival
                   sevent
clus2                 0   1
  6P GAIN MUTATED    11  24
  6P GAIN WILD-TYPE 469 574
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
               35              1043 
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
               24               574 
$`6P GAIN MUTATED`
TCGA-CS-6665 TCGA-06-A5U0 TCGA-12-1092 TCGA-12-1598 TCGA-14-1454 TCGA-14-1794 
       51.55        26.79        21.73        15.65        30.18         0.99 
TCGA-27-1831 TCGA-76-4934 TCGA-DB-5277 TCGA-DU-6408 TCGA-DU-6542 TCGA-E1-5304 
       16.60         2.53        50.86       114.08         2.40        41.13 
TCGA-FG-A6J3 TCGA-HT-7469 TCGA-HT-7606 TCGA-HT-8563 TCGA-P5-A5EZ TCGA-02-0052 
       22.26        11.54        17.29        28.27         2.30        12.59 
TCGA-02-0069 TCGA-02-0324 TCGA-06-0177 TCGA-06-0237 TCGA-06-0410 TCGA-06-0414 
       28.70         7.73         4.18        13.64         4.70        35.11 
TCGA-08-0386 TCGA-08-0516 TCGA-12-0619 TCGA-12-0662 TCGA-12-0776 TCGA-15-1447 
       18.02        19.59        34.92        38.17         9.73        53.19 
TCGA-15-1449 TCGA-19-1388 TCGA-28-5216 TCGA-76-6280 TCGA-81-5911 
       13.28        12.95        13.64        11.38        17.72 

$`6P GAIN WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        1.48         3.98        46.88        46.72        31.82        42.05 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       62.01        17.16        23.90        20.09        17.82        20.45 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 
       18.64        21.40        45.60        42.77        59.38        15.32 
TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 
       11.74         3.55         8.35         4.54         8.81         8.98 
TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 
        8.55         6.71         2.73         3.75         6.15         4.57 
TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 
        5.23         8.32        12.85         4.77         1.55         4.77 
TCGA-06-6701 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL 
        4.96         1.87         3.12         2.56        14.60        17.72 
TCGA-12-0615 TCGA-12-1599 TCGA-12-1600 TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 
       15.35        25.68        14.73         6.77        59.77        44.02 
TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 
       26.93        15.22        10.95        12.69        34.92        14.53 
TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 
       14.93         3.22         2.04        15.12        11.97         0.95 
TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 
        6.21        23.05        13.78         3.25         2.89        16.50 
TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 
       26.33        15.95         1.38         1.12         3.75        32.05 
TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 TCGA-14-1455 TCGA-14-1456 
       58.78        23.11         7.10         1.15         0.92        40.96 
TCGA-14-1458 TCGA-14-1459 TCGA-14-1795 TCGA-14-1821 TCGA-14-1823 TCGA-14-1825 
        6.67        12.43         1.97        17.79        17.85         7.63 
TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-3477 TCGA-14-4157 
        5.88         7.17        17.49         7.96         3.78         3.42 
TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 
       17.59        29.03         4.57        10.29        14.01         9.14 
TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 
       21.24        13.97         6.41         8.61        14.27         3.39 
TCGA-19-1390 TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 
       25.38         3.65         7.17        12.66         3.25         0.13 
TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 
        9.67         4.87         1.08         7.53         0.16         4.08 
TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 
       24.23         7.00         7.04         6.64        17.19         8.02 
TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 
       18.90         4.73        12.10         1.78        22.49        14.07 
TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 
       16.80        14.96        17.79        28.54        10.03        13.87 
TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 
        9.73         7.13         9.37         9.40         8.88        18.97 
TCGA-26-A7UX TCGA-27-1830 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 
       19.33         5.06         9.86        24.23        40.54        21.30 
TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 
       30.05        14.04        11.51        24.76        18.08        16.77 
TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 
       16.08         7.59         2.86        14.40        15.78         0.20 
TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 
        2.53         9.21         8.35         7.63         8.48         1.22 
TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 
        1.55         2.83         0.13         0.66         6.74         4.77 
TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 
       15.39        21.07         0.49         0.10        15.85        19.50 
TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 
        1.18         4.67        12.69        14.86        16.93        12.23 
TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 
       20.78        15.02        15.95         8.84        22.78        25.18 
TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 
       21.14         3.72        12.59        19.86        10.85        19.23 
TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 
        0.85        13.35         8.94         9.53         0.99         4.44 
TCGA-41-3915 TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S 
       11.84         0.20        15.12        12.46         4.08         1.45 
TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 
       25.58         3.45        20.91         4.34        14.33         8.22 
TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 
        7.50         4.80         4.54         3.09         3.65         9.17 
TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 
       36.85        16.70         3.29         2.70        17.06         8.35 
TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 
       20.98         4.83         5.03        23.90        34.45        18.64 
TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 
       36.20         5.92         6.28        20.55       117.50         7.69 
TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 
       43.89        36.36        60.10        40.18         0.26        21.01 
TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 
       53.62         6.38        17.69        26.76        37.38        46.95 
TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 
       48.30        49.94        49.12       122.73        81.96        75.25 
TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       47.93        72.92        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       46.42        18.84        30.21        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       12.10        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F 
       63.88        46.06        24.59        30.21        27.81        17.19 
TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV 
       17.19        54.25        23.21        17.46        13.71        18.61 
TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 
       18.02        14.56        17.46         6.74        13.38         8.45 
TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 
        6.81       182.33        18.94        17.49        15.16       211.17 
TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
       52.11        22.42        49.02        75.16        46.06        65.75 
TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
        1.22        87.45         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6410 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 
       16.83        94.52         7.96        11.47        62.96       156.23 
TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 
      154.36        14.99       105.21         6.54         8.84       117.40 
TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 
       90.77        30.67        26.30        10.36         7.96        94.32 
TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 
       18.94        44.02        25.91        60.30        23.31        41.98 
TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 
        2.76         5.10        23.74        14.60        20.68        21.40 
TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR 
       19.13        16.96        15.48        14.17        33.27        29.85 
TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 
       31.69        24.43        26.17        24.99        33.96        25.55 
TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L 
       21.57        95.11        20.98        22.29        11.41        26.76 
TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC 
       21.30        17.98       139.04        84.33        51.52        37.38 
TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 
        7.50        44.42        38.89         0.56        50.14        67.46 
TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 
       79.99        57.93       134.27        78.21        95.57       130.78 
TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK 
       14.30        29.13        93.21         3.65        19.46        12.43 
TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU 
       16.18        21.30        75.02        51.88        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       18.44        15.35        17.88        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 
       28.34        13.68        14.24        16.01        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY 
       32.61        38.27        10.72        18.38        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A70Y TCGA-FG-A70Z 
       14.76        21.53        15.02        16.44        28.54        10.78 
TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 
       36.66        48.69         5.72        27.52         0.10         6.67 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
        6.54        24.26         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
      122.47         4.57         3.16        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       57.60         0.23        14.27         0.16        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 
       44.68         6.05        42.74         0.10        31.69        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
        0.10         0.10         2.96        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 
       39.48        19.23        39.09         0.23        50.63         0.49 
TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
       23.61        37.15         0.33         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 
       35.47         3.72        11.28        31.43         1.64        16.24 
TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 
        9.40        63.55         0.10        37.87        33.01        12.23 
TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 
        6.25         0.10         0.46         2.50         5.56        13.78 
TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV 
        0.23        29.59        34.19        15.72         0.23        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC 
        0.13        20.22         0.07        27.35         0.10         5.33 
TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B 
        2.70        16.93         1.81        16.14        16.83        17.52 
TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O 
       17.65         2.43        10.52        15.35        11.05         0.10 
TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 
       56.58        45.44        41.49        68.32        69.27        35.44 
TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK 
       39.75        40.01        42.54        24.92        31.63        12.76 
TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV 
       28.87        20.71        19.00        14.40        14.40         0.23 
TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        6.71         7.99         2.37         9.44         5.88         7.96 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        7.59         1.28         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       19.20         3.45         2.37         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV 
       12.62        15.85        14.04        19.33        14.83        14.53 
TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 
       13.61        12.23        13.41         9.17        10.29        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       16.34        16.73         1.91        16.50        16.70        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y 
       12.99        88.83        94.03        32.65        30.87         5.46 
TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS 
        9.90        28.08         2.07        19.59        30.67        62.17 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ 
       87.12        18.77        41.10        40.93        35.38        36.82 
TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       24.39        25.81        29.85        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       95.93         5.85       123.65        75.25       135.22        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO 
       38.56        84.99        31.10        19.86        26.47        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.64        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       18.54        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       30.05        98.63        31.59        18.71        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       48.33        49.32        34.78        65.39        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       59.05        40.64        30.44        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       36.69        33.73        31.20        30.05        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 
       33.93        61.41        26.99        31.36        45.93        43.20 
TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH 
       13.51         0.10         7.89        39.16        20.02        23.47 
TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K 
       37.05        16.01        23.21         8.05        51.06        13.32 
TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D 
       43.96        39.88        43.40        45.80        46.88        37.71 
TCGA-WY-A85E TCGA-06-0209 TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 
       20.81         7.63        11.77         4.73        18.35        23.18 
TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 
       10.59        35.41        20.71        82.59        20.61        87.06 
TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 
       77.65        20.12        53.10        42.74        24.59        12.16 
TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 
       90.58         2.83        14.14         3.62        10.72        10.52 
TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 TCGA-02-0051 TCGA-02-0054 
       18.31         6.87        14.73         3.22        15.09         6.54 
TCGA-02-0055 TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 
        2.50        19.86         8.35         9.57         6.02        19.73 
TCGA-02-0068 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 TCGA-02-0079 
       26.43        25.05         5.49        10.19        20.84        27.25 
TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 
       89.72        22.72        12.62        51.32         8.81        57.76 
TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0106 TCGA-02-0107 
       16.96         3.48        27.02        65.00        11.67        17.65 
TCGA-02-0111 TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 
       23.18        92.65        99.98        15.65        48.95        16.54 
TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 TCGA-02-0281 TCGA-02-0285 
       16.93        17.72        10.75        14.47         3.98        13.87 
TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0325 TCGA-02-0326 
       14.20        15.95        12.23         9.90        10.62         7.33 
TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 
       15.91        25.71         4.37        25.12        10.59        12.39 
TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 
       14.50        10.55        47.11        11.34         9.27        16.21 
TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 
        3.35        16.80        12.92        15.32        15.45        20.32 
TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 
        2.70         6.15        20.38        47.61         6.94         3.98 
TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 
       22.72        33.67        12.95        25.35        14.30        26.70 
TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 
       24.23        11.90         0.20        10.29         2.20        11.74 
TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 
        2.33        20.09        17.79        10.09         8.61        19.46 
TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 
       46.59        12.33        13.94        10.45         3.19        10.82 
TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 
        9.44        11.80         3.42        56.91        10.65         5.85 
TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 
       19.66         3.29        13.12         4.47         3.22         4.04 
TCGA-06-0176 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 
       91.00        88.14        20.25         3.65        69.90        73.84 
TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 
       27.22        44.58        15.42        10.42        38.96         4.67 
TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 
        7.40         5.56         0.39         7.66         8.42         7.40 
TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 
       11.84         0.53        15.02        24.16         0.72        19.82 
TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 
       13.32        20.42        48.69        10.82         9.01         0.26 
TCGA-06-0409 TCGA-06-0412 TCGA-06-0413 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 
       72.36         9.57         3.16        12.62         5.75         5.75 
TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 
        9.80         2.10        23.57        14.20        26.40        46.88 
TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 
        7.86         2.70         2.70         0.92        43.46        46.19 
TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 
        7.17        40.41        16.57        20.78        26.76        23.93 
TCGA-06-1086 TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 
        6.84         4.04        26.79        11.84        15.32        13.61 
TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 
       33.90         1.08        12.49         4.93        17.65        12.56 
TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 
       30.64         5.95        16.64         5.98         4.37         0.43 
TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 
       31.50         7.79         5.39       120.56         7.36        22.68 
TCGA-08-0245 TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 
       37.84         4.18       115.86         1.74         8.42        25.71 
TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 
       12.16         9.80        29.23        65.33         1.28         8.42 
TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 
       17.95        24.56        31.10        37.58        22.29         3.39 
TCGA-08-0375 TCGA-08-0380 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 
       12.23        14.93        15.35        13.97         0.72        12.56 
TCGA-08-0510 TCGA-08-0512 TCGA-08-0514 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 
        4.27        42.15        11.08        58.68        19.33        10.75 
TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 
        4.80         7.27        15.98        18.41         7.56        14.73 
TCGA-12-0618 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0670 
       12.99        10.45         7.59        94.78         0.10        25.97 
TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 
       26.66        12.13         3.65        20.38        28.41        15.06 
TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 
       53.85        43.23         7.63        14.93        14.86        91.76 
TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0826 TCGA-12-0827 
       24.79        18.48        10.62        23.51        27.78        38.76 
TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 
        8.94        20.58       127.59         5.82         7.59        33.21 
TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 
       15.98        12.23        15.85         9.11        14.53         3.98 
TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 TCGA-14-0867 
        4.14         2.24        11.24         1.35         5.39         2.04 
TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 
       28.93        19.30         0.79        13.78        50.53        19.10 
TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 
        3.91        26.07        16.37        11.77        21.90         0.66 
TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 
       10.75         9.07         5.95         4.64        31.33        14.86 
TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 
        5.49         1.58         7.92         2.33         7.30         5.26 
TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 
       14.93        11.28        17.88        14.53        11.77        31.27 
TCGA-28-5214 TCGA-28-5215 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 
       23.44        11.01         5.16        22.68        12.76         5.42 
TCGA-32-2616 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-87-5896 
        7.36         5.42         3.75         1.61        26.30 

  6P GAIN MUTATED 6P GAIN WILD-TYPE 
             0.99              0.03 
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
           114.08            211.17 
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
            17.29             15.98 
[1] "1.0 - 114.1 (17.3)" "0.0 - 211.2 (16.0)"
[1] "hr=" "1.2"
D11V2, continuous
D11V3, binary
                   cls
clus                  0   1
  6P GAIN MUTATED    25  10
  6P GAIN WILD-TYPE 548 502
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6P GAIN MUTATED     25   10
  6P GAIN WILD-TYPE  548  502
                        clus
vv                       6P GAIN MUTATED 6P GAIN WILD-TYPE
  BRAIN                               25               548
  CENTRAL NERVOUS SYSTEM              10               502
[1] 2 2
[1] FALSE
D11V4, binary
                   cls
clus                  0   1
  6P GAIN MUTATED    14  21
  6P GAIN WILD-TYPE 439 611
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6P GAIN MUTATED     14   21
  6P GAIN WILD-TYPE  439  611
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  FEMALE              14               439
  MALE                21               611
[1] 2 2
[1] FALSE
D11V5, binary
                   cls
clus                  0   1
  6P GAIN MUTATED     3  31
  6P GAIN WILD-TYPE 255 739
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6P GAIN MUTATED      3   31
  6P GAIN WILD-TYPE  255  739
     clus
vv    6P GAIN MUTATED 6P GAIN WILD-TYPE
  NO                3               255
  YES              31               739
[1] 2 2
[1] FALSE
D11V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  6P GAIN MUTATED             7                             1                1
  6P GAIN WILD-TYPE         187                            29              128
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  6P GAIN MUTATED                   2                   0
  6P GAIN WILD-TYPE               187                  18
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  6P GAIN MUTATED                                24
  6P GAIN WILD-TYPE                             501
D11V7, multiclass
                                 clus
vv                                6P GAIN MUTATED 6P GAIN WILD-TYPE
  ASTROCYTOMA                                   7               187
  GLIOBLASTOMA MULTIFORME (GBM)                 1                29
  OLIGOASTROCYTOMA                              1               128
  OLIGODENDROGLIOMA                             2               187
  TREATED PRIMARY GBM                           0                18
  UNTREATED PRIMARY (DE NOVO) GBM              24               501
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  6P GAIN MUTATED                                  0     1
  6P GAIN WILD-TYPE                                1    20
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  6P GAIN MUTATED                           1    31
  6P GAIN WILD-TYPE                        70   928
D11V8, multiclass
                                  clus
vv                                 6P GAIN MUTATED 6P GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          1                20
  BLACK OR AFRICAN AMERICAN                      1                70
  WHITE                                         31               928
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D11V9, binary
                   cls
clus                  0   1
  6P GAIN MUTATED     0  28
  6P GAIN WILD-TYPE  44 893
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6P GAIN MUTATED      0   28
  6P GAIN WILD-TYPE   44  893
                        clus
vv                       6P GAIN MUTATED 6P GAIN WILD-TYPE
  HISPANIC OR LATINO                   0                44
  NOT HISPANIC OR LATINO              28               893
[1] 2 2
[1] FALSE

Clustering(12) Variable = 6Q GAIN MUTATION ANALYSIS
D12V1, survival
                   sevent
clus2                 0   1
  6Q GAIN MUTATED     7  21
  6Q GAIN WILD-TYPE 473 577
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
               28              1050 
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
               21               577 
$`6Q GAIN MUTATED`
TCGA-CS-6665 TCGA-06-A5U0 TCGA-12-1092 TCGA-12-1598 TCGA-14-1454 TCGA-14-1794 
       51.55        26.79        21.73        15.65        30.18         0.99 
TCGA-76-4934 TCGA-DB-5277 TCGA-DU-6408 TCGA-E1-5304 TCGA-HT-7469 TCGA-02-0052 
        2.53        50.86       114.08        41.13        11.54        12.59 
TCGA-02-0069 TCGA-06-0177 TCGA-06-0237 TCGA-06-0410 TCGA-06-0414 TCGA-06-2569 
       28.70         4.18        13.64         4.70        35.11         0.43 
TCGA-08-0386 TCGA-08-0516 TCGA-12-0619 TCGA-12-0662 TCGA-12-0776 TCGA-15-1447 
       18.02        19.59        34.92        38.17         9.73        53.19 
TCGA-15-1449 TCGA-19-1388 TCGA-28-5216 TCGA-81-5911 
       13.28        12.95        13.64        17.72 

$`6Q GAIN WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        1.48         3.98        46.88        46.72        31.82        42.05 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       62.01        17.16        23.90        20.09        17.82        20.45 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 
       18.64        21.40        45.60        42.77        59.38        15.32 
TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 
       11.74         3.55         8.35         4.54         8.81         8.98 
TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 
        8.55         6.71         2.73         3.75         6.15         4.57 
TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 
        5.23         8.32        12.85         4.77         1.55         4.77 
TCGA-06-6701 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL 
        4.96         1.87         3.12         2.56        14.60        17.72 
TCGA-12-0615 TCGA-12-1599 TCGA-12-1600 TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 
       15.35        25.68        14.73         6.77        59.77        44.02 
TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 
       26.93        15.22        10.95        12.69        34.92        14.53 
TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 
       14.93         3.22         2.04        15.12        11.97         0.95 
TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 
        6.21        23.05        13.78         3.25         2.89        16.50 
TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 
       26.33        15.95         1.38         1.12         3.75        32.05 
TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 TCGA-14-1455 TCGA-14-1456 
       58.78        23.11         7.10         1.15         0.92        40.96 
TCGA-14-1458 TCGA-14-1459 TCGA-14-1795 TCGA-14-1821 TCGA-14-1823 TCGA-14-1825 
        6.67        12.43         1.97        17.79        17.85         7.63 
TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-3477 TCGA-14-4157 
        5.88         7.17        17.49         7.96         3.78         3.42 
TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 
       17.59        29.03         4.57        10.29        14.01         9.14 
TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 
       21.24        13.97         6.41         8.61        14.27         3.39 
TCGA-19-1390 TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 
       25.38         3.65         7.17        12.66         3.25         0.13 
TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 
        9.67         4.87         1.08         7.53         0.16         4.08 
TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 
       24.23         7.00         7.04         6.64        17.19         8.02 
TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 
       18.90         4.73        12.10         1.78        22.49        14.07 
TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 
       16.80        14.96        17.79        28.54        10.03        13.87 
TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 
        9.73         7.13         9.37         9.40         8.88        18.97 
TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 
       19.33         5.06        16.60         9.86        24.23        40.54 
TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 
       21.30        30.05        14.04        11.51        24.76        18.08 
TCGA-27-2521 TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 
       16.77        16.08         7.59         2.86        14.40        15.78 
TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 
        0.20         2.53         9.21         8.35         7.63         8.48 
TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 
        1.22         1.55         2.83         0.13         0.66         6.74 
TCGA-28-2509 TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 
        4.77        15.39        21.07         0.49         0.10        15.85 
TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 
       19.50         1.18         4.67        12.69        14.86        16.93 
TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 TCGA-32-2632 TCGA-32-2634 
       12.23        20.78        15.02        15.95         8.84        22.78 
TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 
       25.18        21.14         3.72        12.59        19.86        10.85 
TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 
       19.23         0.85        13.35         8.94         9.53         0.99 
TCGA-41-3393 TCGA-41-3915 TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R 
        4.44        11.84         0.20        15.12        12.46         4.08 
TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 
        1.45        25.58         3.45        20.91         4.34        14.33 
TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 
        8.22         7.50         4.80         4.54         3.09         3.65 
TCGA-76-4931 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 
        9.17        36.85        16.70         3.29         2.70        17.06 
TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 
        8.35        20.98         4.83         5.03        23.90        34.45 
TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 
       18.64        36.20         5.92         6.28        20.55       117.50 
TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 
        7.69        43.89        36.36        60.10        40.18         0.26 
TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 
       21.01        53.62         6.38        17.69        26.76        37.38 
TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 
       46.95        48.30        49.94        49.12       122.73        81.96 
TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 
       75.25        47.93        72.92        91.13        44.52        36.56 
TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE 
       78.28        46.42        18.84        30.21        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        30.12 
TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W 
        5.98        31.40        27.45        27.81        29.23        14.40 
TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D 
       19.96        63.88        46.06        24.59        30.21        27.81 
TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU 
       17.19        17.19        54.25        23.21        17.46        13.71 
TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 
       18.61        18.02        14.56        17.46         6.74        13.38 
TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 
        8.45         6.81       182.33        18.94        17.49        15.16 
TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 
      211.17        52.11        22.42        49.02        75.16        46.06 
TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       65.75         1.22        87.45         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 
       19.89        16.83        94.52         7.96         2.40        11.47 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 
       62.96       156.23       154.36        14.99       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        8.84       117.40        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 
        7.96        94.32        18.94        44.02        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       20.68        21.40        19.13        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       33.27        29.85        31.69        24.43        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       33.96        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA 
       11.41        26.76        21.30        17.98       139.04        84.33 
TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ 
       51.52        37.38         7.50        44.42        38.89         0.56 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 
       50.14        67.46        79.99        57.93       134.27        78.21 
TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI 
       95.57       130.78        14.30        29.13        93.21         3.65 
TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ 
       19.46        12.43        16.18        21.30        75.02        51.88 
TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 
       15.32         0.76        32.45        36.82       146.14        13.08 
TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 
       73.48       145.05        32.35        39.48         0.23         0.20 
TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 
       47.77        25.48        52.21        36.82        18.77        14.93 
TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 
       42.54        41.33        18.44        15.35        17.88        22.55 
TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 
       20.61        20.09        28.34        13.68        14.24        16.01 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       14.96        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 
       18.71        23.70        14.76        21.53        15.02        16.44 
TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q 
       22.26        28.54        10.78        36.66        48.69         5.72 
TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 
       27.52         0.10         6.67        40.11         0.13         0.03 
TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 
       16.54         3.75        17.42         6.54        24.26         6.38 
TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 
       40.34        75.19        95.93       106.95       172.77         4.01 
TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 
        5.03        29.85        23.18       122.47         4.57        17.29 
TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 
        3.16        22.06        45.99        56.09        57.60         0.23 
TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 
       14.27         0.16        16.24         0.76        44.68         6.05 
TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 
       42.74         0.10        31.69        14.96         0.10         0.10 
TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 
        2.96        17.52         6.90        14.53        39.48        19.23 
TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 
       39.09         0.23        50.63         0.49        23.61        37.15 
TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 
        0.33         0.13         3.68         5.33        35.47         3.72 
TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 
       11.28        31.43         1.64        16.24         9.40        63.55 
TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 
        0.10        37.87        33.01        12.23         6.25         0.10 
TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 
        0.46         2.50         5.56        13.78         0.23        29.59 
TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 
       34.19        28.27        15.72         0.23        26.04         0.13 
TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 
       20.22         0.07        27.35         0.10         5.33         2.70 
TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C 
       16.93         1.81        16.14        16.83        17.52        17.65 
TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
        2.43        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 
       45.44        41.49        68.32        69.27        35.44        39.75 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL 
       40.01        42.54        24.92        31.63        12.76        28.87 
TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW 
       20.71        19.00        14.40        14.40         0.23         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        7.99         2.37         2.30         9.44         5.88         7.96 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        7.59         1.28         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       19.20         3.45         2.37         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV 
       12.62        15.85        14.04        19.33        14.83        14.53 
TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 
       13.61        12.23        13.41         9.17        10.29        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       16.34        16.73         1.91        16.50        16.70        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y 
       12.99        88.83        94.03        32.65        30.87         5.46 
TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS 
        9.90        28.08         2.07        19.59        30.67        62.17 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ 
       87.12        18.77        41.10        40.93        35.38        36.82 
TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       24.39        25.81        29.85        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       95.93         5.85       123.65        75.25       135.22        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO 
       38.56        84.99        31.10        19.86        26.47        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.64        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       18.54        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       30.05        98.63        31.59        18.71        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       48.33        49.32        34.78        65.39        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       59.05        40.64        30.44        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       36.69        33.73        31.20        30.05        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 
       33.93        61.41        26.99        31.36        45.93        43.20 
TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH 
       13.51         0.10         7.89        39.16        20.02        23.47 
TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K 
       37.05        16.01        23.21         8.05        51.06        13.32 
TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D 
       43.96        39.88        43.40        45.80        46.88        37.71 
TCGA-WY-A85E TCGA-06-0209 TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 
       20.81         7.63        11.77         4.73        18.35        23.18 
TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 
       10.59        35.41        20.71        82.59        20.61        87.06 
TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 
       77.65        20.12        53.10        42.74        24.59        12.16 
TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 
       90.58         2.83        14.14         3.62        10.72        10.52 
TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 TCGA-02-0051 TCGA-02-0054 
       18.31         6.87        14.73         3.22        15.09         6.54 
TCGA-02-0055 TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 
        2.50        19.86         8.35         9.57         6.02        19.73 
TCGA-02-0068 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 TCGA-02-0079 
       26.43        25.05         5.49        10.19        20.84        27.25 
TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 
       89.72        22.72        12.62        51.32         8.81        57.76 
TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0106 TCGA-02-0107 
       16.96         3.48        27.02        65.00        11.67        17.65 
TCGA-02-0111 TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 
       23.18        92.65        99.98        15.65        48.95        16.54 
TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 TCGA-02-0281 TCGA-02-0285 
       16.93        17.72        10.75        14.47         3.98        13.87 
TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 
       14.20        15.95        12.23         9.90         7.73        10.62 
TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 
        7.33        15.91        25.71         4.37        25.12        10.59 
TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 
       12.39        14.50        10.55        47.11        11.34         9.27 
TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 
       16.21         3.35        16.80        12.92        15.32        15.45 
TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 
       20.32         2.70         6.15        20.38        47.61         6.94 
TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 
        3.98        22.72        33.67        12.95        25.35        14.30 
TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 
       26.70        24.23        11.90         0.20        10.29         2.20 
TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 
       11.74         2.33        20.09        17.79        10.09         8.61 
TCGA-06-0150 TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 
       19.46        46.59        12.33        13.94        10.45         3.19 
TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 
       10.82         9.44        11.80         3.42        56.91        10.65 
TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 
        5.85        19.66         3.29        13.12         4.47         3.22 
TCGA-06-0175 TCGA-06-0176 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 
        4.04        91.00        88.14        20.25         3.65        69.90 
TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 
       73.84        27.22        44.58        15.42        10.42        38.96 
TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 
        4.67         7.40         5.56         0.39         7.66         8.42 
TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 
        7.40        11.84         0.53        15.02        24.16         0.72 
TCGA-06-0221 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 
       19.82        13.32        20.42        48.69        10.82         9.01 
TCGA-06-0402 TCGA-06-0409 TCGA-06-0412 TCGA-06-0413 TCGA-06-0644 TCGA-06-0645 
        0.26        72.36         9.57         3.16        12.62         5.75 
TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 
        5.75         9.80         2.10        23.57        14.20        26.40 
TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 
       46.88         7.86         2.70         2.70         0.92        43.46 
TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 
       46.19         7.17        40.41        16.57        20.78        26.76 
TCGA-06-1084 TCGA-06-1086 TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 
       23.93         6.84         4.04        26.79        11.84        15.32 
TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 
       13.61        33.90         1.08        12.49         4.93        17.65 
TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 
       12.56        30.64         5.95        16.64         5.98         4.37 
TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 
       31.50         7.79         5.39       120.56         7.36        22.68 
TCGA-08-0245 TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 
       37.84         4.18       115.86         1.74         8.42        25.71 
TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 
       12.16         9.80        29.23        65.33         1.28         8.42 
TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 
       17.95        24.56        31.10        37.58        22.29         3.39 
TCGA-08-0375 TCGA-08-0380 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 
       12.23        14.93        15.35        13.97         0.72        12.56 
TCGA-08-0510 TCGA-08-0512 TCGA-08-0514 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 
        4.27        42.15        11.08        58.68        19.33        10.75 
TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 
        4.80         7.27        15.98        18.41         7.56        14.73 
TCGA-12-0618 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0670 
       12.99        10.45         7.59        94.78         0.10        25.97 
TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 
       26.66        12.13         3.65        20.38        28.41        15.06 
TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 
       53.85        43.23         7.63        14.93        14.86        91.76 
TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0826 TCGA-12-0827 
       24.79        18.48        10.62        23.51        27.78        38.76 
TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 
        8.94        20.58       127.59         5.82         7.59        33.21 
TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 
       15.98        12.23        15.85         9.11        14.53         3.98 
TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 TCGA-14-0867 
        4.14         2.24        11.24         1.35         5.39         2.04 
TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 
       28.93        19.30         0.79        13.78        50.53        19.10 
TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 
        3.91        26.07        16.37        11.77        21.90         0.66 
TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 
       10.75         9.07         5.95         4.64        31.33        14.86 
TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 
        5.49         1.58         7.92         2.33         7.30         5.26 
TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 
       14.93        11.28        17.88        14.53        11.77        31.27 
TCGA-28-5214 TCGA-28-5215 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 
       23.44        11.01         5.16        22.68        12.76         5.42 
TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-87-5896 
        7.36        11.38         5.42         3.75         1.61        26.30 

  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
             0.43              0.03 
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
           114.08            211.17 
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
            17.87             15.98 
[1] "0.4 - 114.1 (17.9)" "0.0 - 211.2 (16.0)"
[1] "hr=" "1.3"
D12V2, continuous
D12V3, binary
                   cls
clus                  0   1
  6Q GAIN MUTATED    23   5
  6Q GAIN WILD-TYPE 550 507
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6Q GAIN MUTATED     23    5
  6Q GAIN WILD-TYPE  550  507
                        clus
vv                       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  BRAIN                               23               550
  CENTRAL NERVOUS SYSTEM               5               507
[1] 2 2
[1] FALSE
D12V4, binary
                   cls
clus                  0   1
  6Q GAIN MUTATED    11  17
  6Q GAIN WILD-TYPE 442 615
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6Q GAIN MUTATED     11   17
  6Q GAIN WILD-TYPE  442  615
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  FEMALE              11               442
  MALE                17               615
[1] 2 2
[1] FALSE
D12V5, binary
                   cls
clus                  0   1
  6Q GAIN MUTATED     3  24
  6Q GAIN WILD-TYPE 255 746
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6Q GAIN MUTATED      3   24
  6Q GAIN WILD-TYPE  255  746
     clus
vv    6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  NO                3               255
  YES              24               746
[1] 2 2
[1] FALSE
D12V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  6Q GAIN MUTATED             3                             1                0
  6Q GAIN WILD-TYPE         191                            29              129
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  6Q GAIN MUTATED                   2                   0
  6Q GAIN WILD-TYPE               187                  18
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  6Q GAIN MUTATED                                22
  6Q GAIN WILD-TYPE                             503
D12V7, multiclass
                                 clus
vv                                6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  ASTROCYTOMA                                   3               191
  GLIOBLASTOMA MULTIFORME (GBM)                 1                29
  OLIGOASTROCYTOMA                              0               129
  OLIGODENDROGLIOMA                             2               187
  TREATED PRIMARY GBM                           0                18
  UNTREATED PRIMARY (DE NOVO) GBM              22               503
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  6Q GAIN MUTATED                                  0     1
  6Q GAIN WILD-TYPE                                1    20
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  6Q GAIN MUTATED                           2    24
  6Q GAIN WILD-TYPE                        69   935
D12V8, multiclass
                                  clus
vv                                 6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          1                20
  BLACK OR AFRICAN AMERICAN                      2                69
  WHITE                                         24               935
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D12V9, binary
                   cls
clus                  0   1
  6Q GAIN MUTATED     0  21
  6Q GAIN WILD-TYPE  44 900
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6Q GAIN MUTATED      0   21
  6Q GAIN WILD-TYPE   44  900
                        clus
vv                       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  HISPANIC OR LATINO                   0                44
  NOT HISPANIC OR LATINO              21               900
[1] 2 2
[1] FALSE

Clustering(13) Variable = 7P GAIN MUTATION ANALYSIS
D13V1, survival
                   sevent
clus2                 0   1
  7P GAIN MUTATED   143 445
  7P GAIN WILD-TYPE 337 153
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
              588               490 
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
              445               153 
$`7P GAIN MUTATED`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-E1-A7YN TCGA-HT-A619 
        1.48         3.98        51.55        46.88        23.90        21.40 
TCGA-06-1806 TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 
       15.32        11.74         3.55         8.35         4.54         8.81 
TCGA-06-5414 TCGA-06-5415 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 
        8.98         8.55         2.73         3.75         6.15         4.57 
TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-A5U1 
        5.23         8.32        12.85         4.77         1.55         1.87 
TCGA-06-A6S1 TCGA-06-A7TK TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 
        2.56        14.60        21.73        15.65        25.68        14.73 
TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 
        6.77        59.77        44.02        26.93        15.22        10.95 
TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 
       12.69        34.92        14.53        14.93         3.22         2.04 
TCGA-14-0736 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 
       15.12         0.95         6.21        23.05        13.78         3.25 
TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 TCGA-14-1450 
       26.33        15.95         1.38         1.12         3.75        58.78 
TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 TCGA-14-1458 
       23.11         7.10         1.15        30.18         0.92         6.67 
TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 
       12.43         0.99         1.97        17.85         7.63         5.88 
TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 
        7.17        17.49         7.96         3.42        17.59        29.03 
TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1062 TCGA-16-1063 TCGA-19-0963 
        4.57        10.29        14.01        21.24        13.97        14.27 
TCGA-19-1390 TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 TCGA-19-1791 TCGA-19-2619 
       25.38         3.65         7.17        12.66         0.13         9.67 
TCGA-19-2623 TCGA-19-2624 TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 
        7.53         0.16        24.23         7.00         7.04         6.64 
TCGA-19-5950 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5958 
       17.19        18.90         4.73        12.10         1.78        14.07 
TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 
       16.80        14.96        17.79        28.54        10.03        13.87 
TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 
        9.73         7.13         9.37         9.40         8.88        18.97 
TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 
       19.33         5.06        16.60         9.86        24.23        40.54 
TCGA-27-1835 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2523 TCGA-27-2524 
       21.30        11.51        24.76        18.08        16.08         7.59 
TCGA-27-2526 TCGA-27-2527 TCGA-28-1746 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 
        2.86        14.40         0.20         9.21         8.35         7.63 
TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 
        8.48         1.22         1.55         0.13         0.66         6.74 
TCGA-28-2509 TCGA-32-1970 TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 
        4.77        15.39         0.49         0.10        15.85        19.50 
TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-2491 TCGA-32-2494 
        1.18         4.67        12.69        14.86        12.23        20.78 
TCGA-32-2632 TCGA-32-2638 TCGA-32-4210 TCGA-32-4211 TCGA-32-5222 TCGA-41-2571 
        8.84        25.18         3.72        12.59        19.23         0.85 
TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 
       13.35         8.94         9.53         0.99         4.44        11.84 
TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 
       15.12        12.46         4.08         1.45        25.58         3.45 
TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 
       20.91         4.34        14.33         8.22         7.50         4.80 
TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 
        4.54         3.09         3.65         9.17         2.53        36.85 
TCGA-76-6191 TCGA-76-6192 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6657 
       16.70         3.29        17.06         8.35        20.98         5.03 
TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA 
       23.90        34.45        18.64        36.20         5.92         6.28 
TCGA-RR-A6KC TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-5393 TCGA-CS-5395 TCGA-CS-5396 
       20.55         7.69        43.89        40.18        21.01        53.62 
TCGA-CS-5397 TCGA-CS-6186 TCGA-DB-5270 TCGA-DB-A4X9 TCGA-DB-A4XE TCGA-DB-A64O 
        6.38        17.69       122.73        46.42        37.45        25.48 
TCGA-DB-A75O TCGA-DH-A669 TCGA-DH-A66G TCGA-DH-A7UT TCGA-DH-A7UV TCGA-DU-5854 
       30.74        30.21        17.19        17.46        18.61         8.45 
TCGA-DU-6392 TCGA-DU-6395 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6402 TCGA-DU-6403 
      211.17        49.02        65.75         1.22         7.04        11.64 
TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6410 TCGA-DU-7006 
      133.74        19.89        16.83        94.52         7.96        11.47 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7301 
      105.21         6.54         8.84       117.40        90.77        25.91 
TCGA-DU-8161 TCGA-DU-8163 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-A5TR TCGA-DU-A5TT 
       23.74        20.68        19.13        16.96        29.85        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R 
       26.17        24.99        33.96        11.41        26.76        21.30 
TCGA-DU-A7TA TCGA-DU-A7TD TCGA-DU-A7TJ TCGA-E1-5304 TCGA-E1-5322 TCGA-E1-A7YD 
       84.33         7.50         0.56        41.13       130.78        14.30 
TCGA-E1-A7YJ TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YQ TCGA-E1-A7Z2 TCGA-FG-5962 
       19.46        16.18        21.30        51.88        13.08        47.77 
TCGA-FG-6688 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7643 TCGA-FG-8182 
       18.77        41.33        18.44        15.35        20.09        13.68 
TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A70Z TCGA-FG-A711 TCGA-FG-A87Q TCGA-HT-7473 
       10.72        18.38        10.78        48.69         5.72        16.54 
TCGA-HT-7477 TCGA-HT-7688 TCGA-HT-7860 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-8011 
       24.26        31.69         0.49         3.72        11.28        16.24 
TCGA-HT-8013 TCGA-HT-8104 TCGA-HT-8110 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A5R5 
       63.55        12.23        13.78        15.72         0.23         0.13 
TCGA-HT-A5R9 TCGA-HT-A5RC TCGA-HT-A617 TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J 
        0.07         5.33        16.14        17.65         2.43        10.52 
TCGA-HT-A74K TCGA-KT-A7W1 TCGA-P5-A5F0 TCGA-P5-A72U TCGA-P5-A731 TCGA-P5-A736 
       15.35        14.40         9.44         0.23         9.01         7.56 
TCGA-QH-A6CS TCGA-QH-A6CV TCGA-QH-A6X9 TCGA-QH-A6XC TCGA-RY-A845 TCGA-S9-A6TY 
       19.33        14.53         1.91        16.70        19.59        35.38 
TCGA-S9-A6U0 TCGA-S9-A6WM TCGA-S9-A7IQ TCGA-S9-A7IX TCGA-S9-A7IZ TCGA-S9-A7J0 
       24.39        19.86        36.13        26.93        19.99        20.02 
TCGA-S9-A7QW TCGA-S9-A7R2 TCGA-TM-A7C3 TCGA-TM-A7CA TCGA-TM-A84B TCGA-TM-A84H 
       15.06        10.39        54.77        34.78        24.92        30.44 
TCGA-TM-A84M TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RM TCGA-TQ-A7RP TCGA-VW-A8FI 
       24.79        15.98         2.04        36.69        30.05         8.05 
TCGA-WY-A85E TCGA-06-0209 TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 
       20.81         7.63        11.77         4.73        18.35        23.18 
TCGA-02-0009 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0025 TCGA-02-0027 
       10.59        87.06        77.65        20.12        42.74        12.16 
TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0043 TCGA-02-0046 
        2.83        14.14         3.62        10.72        18.31         6.87 
TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0055 TCGA-02-0057 TCGA-02-0059 
       15.09        12.59         6.54         2.50        19.86         9.57 
TCGA-02-0064 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 TCGA-02-0079 
       19.73        25.05         5.49        10.19        20.84        27.25 
TCGA-02-0083 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 
       22.72        51.32         8.81        57.76        16.96         3.48 
TCGA-02-0102 TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 TCGA-02-0113 TCGA-02-0115 
       27.02        11.67        17.65        23.18        92.65        15.65 
TCGA-02-0116 TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 TCGA-02-0281 
       48.95        16.93        17.72        10.75        14.47         3.98 
TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 
       13.87        14.20        15.95        12.23         9.90         7.73 
TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 
       10.62         7.33        15.91        25.71         4.37        25.12 
TCGA-02-0430 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 
       10.55        11.34         9.27        16.21         3.35        16.80 
TCGA-02-2470 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 
       12.92        15.45        20.32         2.70         6.15        20.38 
TCGA-06-0125 TCGA-06-0126 TCGA-06-0128 TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 
       47.61         6.94        22.72        12.95        25.35        14.30 
TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0143 
       26.70        24.23        11.90         0.20        10.29        11.74 
TCGA-06-0145 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 
        2.33        17.79        10.09         8.61        19.46        46.59 
TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 
       12.33        13.94        10.45         3.19        10.82         9.44 
TCGA-06-0164 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 
       56.91         5.85        19.66         3.29        13.12         4.47 
TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 TCGA-06-0179 TCGA-06-0182 
        3.22         4.04        91.00         4.18        20.25         3.65 
TCGA-06-0184 TCGA-06-0185 TCGA-06-0188 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 
       69.90        73.84        44.58        15.42        10.42        38.96 
TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 
        4.67         7.40         5.56         0.39         7.66         8.42 
TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 TCGA-06-0216 TCGA-06-0237 
        7.40        11.84         0.53        15.02        24.16        13.64 
TCGA-06-0238 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 
       13.32        48.69        10.82         9.01         0.26        72.36 
TCGA-06-0412 TCGA-06-0413 TCGA-06-0414 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 
        9.57         3.16        35.11        12.62         5.75         5.75 
TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 
        9.80         2.10        23.57        14.20        26.40        46.88 
TCGA-06-0745 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 
        7.86         2.70         0.92        43.46        46.19         7.17 
TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 
       40.41        16.57        20.78        26.76        23.93         6.84 
TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-2557 
        4.04        26.79        11.84        15.32        13.61         1.08 
TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 
       12.49         4.93        17.65        12.56        30.64         5.95 
TCGA-06-2567 TCGA-06-6390 TCGA-06-6694 TCGA-08-0244 TCGA-08-0245 TCGA-08-0345 
        4.37         5.39         7.36        22.68        37.84         1.74 
TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0352 TCGA-08-0353 
        8.42        25.71        12.16         9.80         1.28         8.42 
TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 
       17.95        24.56        31.10        37.58        22.29         3.39 
TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 
       12.23        14.93        18.02        15.35        13.97         0.72 
TCGA-08-0509 TCGA-08-0510 TCGA-08-0518 TCGA-08-0520 TCGA-08-0525 TCGA-08-0529 
       12.56         4.27        19.33        10.75        15.98        18.41 
TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 
        7.56        14.73        12.99        34.92        10.45         7.59 
TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 
       94.78         0.10        38.17        25.97        26.66        12.13 
TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 
        3.65        20.38        28.41        15.06        53.85        43.23 
TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 TCGA-12-0819 TCGA-12-0820 
        7.63         9.73        14.93        14.86        24.79        18.48 
TCGA-12-0821 TCGA-12-0822 TCGA-12-0826 TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 
       10.62        23.51        27.78        38.76         8.94        20.58 
TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 
      127.59         5.82         7.59        33.21        15.98        12.23 
TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 TCGA-14-0787 
       15.85         9.11        14.53         3.98         4.14         2.24 
TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 TCGA-14-0867 TCGA-14-0871 TCGA-14-1037 
       11.24         1.35         5.39         2.04        28.93        19.30 
TCGA-14-1043 TCGA-15-0742 TCGA-15-1446 TCGA-15-1449 TCGA-16-0846 TCGA-19-0955 
        0.79        13.78        19.10        13.28         3.91        11.77 
TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1388 
       21.90         0.66        10.75         9.07         5.95        12.95 
TCGA-19-1389 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-5204 
        4.64         1.58         7.92         2.33         7.30        14.93 
TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 
       11.28        17.88        14.53        11.77        31.27        23.44 
TCGA-28-5215 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 
       11.01         5.16        22.68        12.76         5.42         7.36 
TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
       11.38         5.42         3.75         1.61        17.72        26.30 

$`7P GAIN WILD-TYPE`
TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-FG-8187 
       46.72        31.82        42.05        62.01        17.16        20.09 
TCGA-FG-A60K TCGA-FG-A713 TCGA-FG-A87N TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M 
       17.82        20.45        18.64        45.60        42.77        59.38 
TCGA-06-5416 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A6S0 TCGA-06-A7TL 
        6.71         4.77         4.96        26.79         3.12        17.72 
TCGA-12-0615 TCGA-14-0740 TCGA-14-0862 TCGA-14-0865 TCGA-14-1402 TCGA-14-1456 
       15.35        11.97         2.89        16.50        32.05        40.96 
TCGA-14-1821 TCGA-14-3477 TCGA-16-1060 TCGA-16-1460 TCGA-19-0960 TCGA-19-0964 
       17.79         3.78         9.14         6.41         8.61         3.39 
TCGA-19-1789 TCGA-19-2620 TCGA-19-2621 TCGA-19-2625 TCGA-19-5951 TCGA-19-5956 
        3.25         4.87         1.08         4.08         8.02        22.49 
TCGA-27-1836 TCGA-27-1837 TCGA-27-2521 TCGA-27-2528 TCGA-28-1747 TCGA-28-1756 
       30.05        14.04        16.77        15.78         2.53         2.83 
TCGA-32-1973 TCGA-32-1991 TCGA-32-2495 TCGA-32-2615 TCGA-32-2634 TCGA-32-4208 
       21.07        16.93        15.02        15.95        22.78        21.14 
TCGA-32-4213 TCGA-32-4719 TCGA-41-4097 TCGA-76-6193 TCGA-76-6656 TCGA-CS-4938 
       19.86        10.85         0.20         2.70         4.83       117.50 
TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5394 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 
       36.36        60.10         0.26        26.76        37.38        46.95 
TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       48.30        49.94        49.12        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH 
       18.84        30.21        39.78        33.57        72.95        31.63 
TCGA-DB-A64L TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U 
       24.20        30.12         5.98        31.40        27.45        27.81 
TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M 
       29.23        14.40        18.51        12.10        11.24        17.88 
TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A66D 
       16.18        19.96        63.88        46.06        24.59        27.81 
TCGA-DH-A66F TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UU TCGA-DU-5847 TCGA-DU-5849 
       17.19        54.25        23.21        13.71        18.02        14.56 
TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
       17.46         6.74        13.38         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6396 TCGA-DU-6397 
       17.49        15.16        52.11        22.42        75.16        46.06 
TCGA-DU-6401 TCGA-DU-6408 TCGA-DU-6542 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 
       87.45       114.08         2.40        62.96       156.23       154.36 
TCGA-DU-7010 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 
       14.99        30.67        26.30        10.36         7.96        94.32 
TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 
       18.94        44.02        60.30        23.31        41.98         2.76 
TCGA-DU-8158 TCGA-DU-8162 TCGA-DU-8164 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP 
        5.10        14.60        21.40        15.48        14.17        33.27 
TCGA-DU-A5TS TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       31.69        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TG TCGA-DU-A7TI 
       17.98       139.04        51.52        37.38        44.42        38.89 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 
       50.14        67.46        79.99        57.93       134.27        78.21 
TCGA-E1-5319 TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YK TCGA-E1-A7YO 
       95.57        29.13        93.21         3.65        12.43        75.02 
TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z3 
       15.32         0.76        32.45        36.82       146.14        73.48 
TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5963 
      145.05        32.35        39.48         0.23         0.20        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-7636 TCGA-FG-7638 
       52.21        36.82        14.93        42.54        17.88        22.55 
TCGA-FG-7641 TCGA-FG-8181 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 
       20.61        28.34        14.24        16.01        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L 
       32.61        38.27        18.71        23.70        14.76        21.53 
TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A710 TCGA-FN-7833 
       15.02        16.44        22.26        28.54        36.66        27.52 
TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 
        0.10         6.67        11.54        40.11         0.13         0.03 
TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 
        3.75        17.42         6.54         6.38        40.34        75.19 
TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 
       95.93       106.95       172.77         4.01         5.03        29.85 
TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 
       23.18       122.47         4.57        17.29         3.16        22.06 
TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 
       45.99        56.09        57.60         0.23        14.27         0.16 
TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 
       16.24         0.76        44.68         6.05        42.74         0.10 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 
       14.96         0.10         0.10         2.96        17.52         6.90 
TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 
       14.53        39.48        19.23        39.09         0.23        50.63 
TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
       23.61        37.15         0.33         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8012 TCGA-HT-8015 TCGA-HT-8018 
       35.47        31.43         1.64         9.40         0.10        37.87 
TCGA-HT-8019 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 
       33.01         6.25         0.10         0.46         2.50         5.56 
TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-A4DV TCGA-HT-A5R7 
        0.23        29.59        34.19        28.27        26.04        20.22 
TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A618 
       27.35         0.10         2.70        16.93         1.81        16.83 
TCGA-HT-A61B TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 
       17.52        11.05         0.10        56.58        45.44        41.49 
TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       68.32        69.27        35.44        39.75        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 
       24.92        31.63        12.76        28.87        20.71        19.00 
TCGA-KT-A74X TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ 
       14.40         0.23         6.71         7.99         2.37         2.30 
TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72W TCGA-P5-A72X 
        5.88         7.96         7.59         1.28        10.42        13.25 
TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A737 TCGA-P5-A77W 
       11.64        10.95        13.61         9.60        12.23        19.20 
TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V 
        3.45         2.37         4.41        15.16         2.53        12.62 
TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CU TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY 
       15.85        14.04        14.83        13.61        12.23        13.41 
TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6XA 
        9.17        10.29        14.53        16.34        16.73        16.50 
TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X 
       11.08        12.99        88.83        94.03        32.65        30.87 
TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A847 TCGA-S9-A6TS 
        5.46         9.90        28.08         2.07        30.67        62.17 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TZ TCGA-S9-A6U1 
       87.12        18.77        41.10        40.93        36.82        25.81 
TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA 
       29.85        32.61        35.15        98.24        95.93         5.85 
TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI 
      123.65        75.25       135.22        85.55        38.56        84.99 
TCGA-S9-A6WL TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IS 
       31.10        26.47        18.61        18.64        14.07         7.92 
TCGA-S9-A7IY TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QX TCGA-S9-A7QY 
       23.51         8.19         2.04        20.68        18.54        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 
       27.16       169.84        99.06        30.05        98.63        31.59 
TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CF TCGA-TM-A84C 
       18.71        20.48        48.33        49.32        65.39        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84O 
       59.05        40.64        28.08        24.16        40.83        33.24 
TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG 
       25.38        18.61        14.93        23.80        21.37        19.69 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       40.41        44.09        33.73        31.20        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 
       33.93        61.41        26.99        31.36        45.93        43.20 
TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH 
       13.51         0.10         7.89        39.16        20.02        23.47 
TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       37.05        16.01        23.21        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-02-0010 
       39.88        43.40        45.80        46.88        37.71        35.41 
TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0024 TCGA-02-0026 TCGA-02-0028 
       20.71        82.59        20.61        53.10        24.59        90.58 
TCGA-02-0039 TCGA-02-0047 TCGA-02-0048 TCGA-02-0058 TCGA-02-0060 TCGA-02-0068 
       10.52        14.73         3.22         8.35         6.02        26.43 
TCGA-02-0069 TCGA-02-0080 TCGA-02-0084 TCGA-02-0104 TCGA-02-0114 TCGA-02-0258 
       28.70        89.72        12.62        65.00        99.98        16.54 
TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0432 TCGA-02-2483 TCGA-06-0127 
       10.59        12.39        14.50        47.11        15.32         3.98 
TCGA-06-0129 TCGA-06-0142 TCGA-06-0146 TCGA-06-0160 TCGA-06-0162 TCGA-06-0165 
       33.67         2.20        20.09        11.80         3.42        10.65 
TCGA-06-0178 TCGA-06-0187 TCGA-06-0219 TCGA-06-0221 TCGA-06-0240 TCGA-06-0410 
       88.14        27.22         0.72        19.82        20.42         4.70 
TCGA-06-0747 TCGA-06-1805 TCGA-06-2565 TCGA-06-2566 TCGA-06-2569 TCGA-06-2570 
        2.70        33.90        16.64         5.98         0.43        31.50 
TCGA-06-6389 TCGA-06-6693 TCGA-08-0246 TCGA-08-0344 TCGA-08-0350 TCGA-08-0351 
        7.79       120.56         4.18       115.86        29.23        65.33 
TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 TCGA-08-0521 TCGA-08-0524 
       42.15        11.08        19.59        58.68         4.80         7.27 
TCGA-12-0818 TCGA-15-1444 TCGA-15-1447 TCGA-16-0849 TCGA-16-0850 TCGA-26-1442 
       91.76        50.53        53.19        26.07        16.37        31.33 
TCGA-26-5133 TCGA-26-5134 TCGA-28-2514 TCGA-28-5216 
       14.86         5.49         5.26        13.64 

  7P GAIN MUTATED 7P GAIN WILD-TYPE 
             0.07              0.03 
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
           211.17            182.33 
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
           13.035            21.255 
[1] "0.1 - 211.2 (13.0)" "0.0 - 182.3 (21.3)"
[1] "hr=" "4.2"
D13V2, continuous
D13V3, binary
                   cls
clus                  0   1
  7P GAIN MUTATED   467 124
  7P GAIN WILD-TYPE 106 388
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7P GAIN MUTATED    467  124
  7P GAIN WILD-TYPE  106  388
                        clus
vv                       7P GAIN MUTATED 7P GAIN WILD-TYPE
  BRAIN                              467               106
  CENTRAL NERVOUS SYSTEM             124               388
[1] 2 2
[1] FALSE
D13V4, binary
                   cls
clus                  0   1
  7P GAIN MUTATED   243 348
  7P GAIN WILD-TYPE 210 284
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7P GAIN MUTATED    243  348
  7P GAIN WILD-TYPE  210  284
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  FEMALE             243               210
  MALE               348               284
[1] 2 2
[1] FALSE
D13V5, binary
                   cls
clus                  0   1
  7P GAIN MUTATED    93 466
  7P GAIN WILD-TYPE 165 304
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7P GAIN MUTATED     93  466
  7P GAIN WILD-TYPE  165  304
     clus
vv    7P GAIN MUTATED 7P GAIN WILD-TYPE
  NO               93               165
  YES             466               304
[1] 2 2
[1] FALSE
D13V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  7P GAIN MUTATED            52                            22               31
  7P GAIN WILD-TYPE         142                             8               98
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  7P GAIN MUTATED                  41                  12
  7P GAIN WILD-TYPE               148                   6
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  7P GAIN MUTATED                               433
  7P GAIN WILD-TYPE                              92
D13V7, multiclass
                                 clus
vv                                7P GAIN MUTATED 7P GAIN WILD-TYPE
  ASTROCYTOMA                                  52               142
  GLIOBLASTOMA MULTIFORME (GBM)                22                 8
  OLIGOASTROCYTOMA                             31                98
  OLIGODENDROGLIOMA                            41               148
  TREATED PRIMARY GBM                          12                 6
  UNTREATED PRIMARY (DE NOVO) GBM             433                92
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  7P GAIN MUTATED                                  1     9
  7P GAIN WILD-TYPE                                0    12
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  7P GAIN MUTATED                          52   508
  7P GAIN WILD-TYPE                        19   451
D13V8, multiclass
                                  clus
vv                                 7P GAIN MUTATED 7P GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               1                 0
  ASIAN                                          9                12
  BLACK OR AFRICAN AMERICAN                     52                19
  WHITE                                        508               451
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D13V9, binary
                   cls
clus                  0   1
  7P GAIN MUTATED    16 494
  7P GAIN WILD-TYPE  28 427
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7P GAIN MUTATED     16  494
  7P GAIN WILD-TYPE   28  427
                        clus
vv                       7P GAIN MUTATED 7P GAIN WILD-TYPE
  HISPANIC OR LATINO                  16                28
  NOT HISPANIC OR LATINO             494               427
[1] 2 2
[1] FALSE

Clustering(14) Variable = 7Q GAIN MUTATION ANALYSIS
D14V1, survival
                   sevent
clus2                 0   1
  7Q GAIN MUTATED   168 456
  7Q GAIN WILD-TYPE 312 142
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
              624               454 
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
              456               142 
$`7Q GAIN MUTATED`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-E1-A7YN TCGA-HT-A619 
        1.48         3.98        51.55        46.88        23.90        21.40 
TCGA-06-1806 TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 
       15.32        11.74         3.55         8.35         4.54         8.81 
TCGA-06-5414 TCGA-06-5415 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 
        8.98         8.55         2.73         3.75         6.15         4.57 
TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 
        5.23         8.32        12.85         4.77         1.55         4.77 
TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-12-1092 TCGA-12-1598 
        1.87         3.12         2.56        14.60        21.73        15.65 
TCGA-12-1599 TCGA-12-1600 TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 
       25.68        14.73         6.77        59.77        44.02        26.93 
TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3653 TCGA-12-5295 TCGA-12-5299 
       15.22        10.95        12.69        14.53        14.93         3.22 
TCGA-12-5301 TCGA-14-0736 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 
        2.04        15.12         0.95         6.21        23.05        13.78 
TCGA-14-0812 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 
        3.25        26.33        15.95         1.38         1.12         3.75 
TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 
       58.78        23.11         7.10         1.15        30.18         0.92 
TCGA-14-1458 TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 TCGA-14-1823 TCGA-14-1825 
        6.67        12.43         0.99         1.97        17.85         7.63 
TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-4157 TCGA-16-0848 
        5.88         7.17        17.49         7.96         3.42        17.59 
TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 
       29.03         4.57        10.29        21.24        13.97         6.41 
TCGA-19-0963 TCGA-19-1390 TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 TCGA-19-1791 
       14.27        25.38         3.65         7.17        12.66         0.13 
TCGA-19-2619 TCGA-19-2623 TCGA-19-2624 TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 
        9.67         7.53         0.16        24.23         7.00         7.04 
TCGA-19-5947 TCGA-19-5950 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 
        6.64        17.19        18.90         4.73        12.10         1.78 
TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 
       14.07        16.80        14.96        17.79        28.54        10.03 
TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 
       13.87         9.73         7.13         9.37         9.40         8.88 
TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 
       18.97        19.33         5.06        16.60         9.86        24.23 
TCGA-27-1834 TCGA-27-1835 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 
       40.54        21.30        14.04        11.51        24.76        18.08 
TCGA-27-2521 TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-28-1746 TCGA-28-1747 
       16.77        16.08         7.59         2.86         0.20         2.53 
TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 
        9.21         8.35         7.63         8.48         1.22         1.55 
TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 TCGA-32-1970 TCGA-32-1976 
        0.13         0.66         6.74         4.77        15.39         0.49 
TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 
        0.10        15.85        19.50         1.18         4.67        12.69 
TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 TCGA-32-2632 
       14.86        16.93        12.23        20.78        15.02         8.84 
TCGA-32-2638 TCGA-32-4210 TCGA-32-4211 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 
       25.18         3.72        12.59        19.23         0.85        13.35 
TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 TCGA-41-5651 
        8.94         9.53         0.99         4.44        11.84        15.12 
TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 
       12.46         4.08         1.45        25.58         3.45        20.91 
TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 
        4.34        14.33         8.22         7.50         4.80         4.54 
TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 
        3.09         3.65         9.17         2.53        36.85        16.70 
TCGA-76-6192 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 
        3.29        17.06         8.35        20.98         4.83         5.03 
TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA 
       23.90        34.45        18.64        36.20         5.92         6.28 
TCGA-RR-A6KC TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 
       20.55         7.69        43.89        21.01        53.62         6.38 
TCGA-CS-6186 TCGA-CS-6188 TCGA-DB-5270 TCGA-DB-A4X9 TCGA-DB-A4XB TCGA-DB-A4XE 
       17.69        26.76       122.73        46.42        30.21        37.45 
TCGA-DB-A64O TCGA-DB-A64X TCGA-DB-A75O TCGA-DH-A669 TCGA-DH-A66G TCGA-DH-A7UT 
       25.48        18.51        30.74        30.21        17.19        17.46 
TCGA-DH-A7UV TCGA-DU-5849 TCGA-DU-5854 TCGA-DU-6392 TCGA-DU-6395 TCGA-DU-6399 
       18.61        14.56         8.45       211.17        49.02        65.75 
TCGA-DU-6400 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 
        1.22         7.04        11.64       133.74        19.89        16.83 
TCGA-DU-6407 TCGA-DU-6410 TCGA-DU-7006 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 
       94.52         7.96        11.47       105.21         6.54         8.84 
TCGA-DU-7014 TCGA-DU-7292 TCGA-DU-7301 TCGA-DU-7306 TCGA-DU-8161 TCGA-DU-8163 
      117.40         7.96        25.91        41.98        23.74        20.68 
TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-A5TR TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       19.13        16.96        29.85        24.43        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S6 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T8 
       33.96        95.11        11.41        26.76        21.30       139.04 
TCGA-DU-A7TA TCGA-DU-A7TD TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5304 TCGA-E1-5322 
       84.33         7.50         0.56        50.14        41.13       130.78 
TCGA-E1-A7YD TCGA-E1-A7YJ TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YQ TCGA-E1-A7Z2 
       14.30        19.46        16.18        21.30        51.88        13.08 
TCGA-E1-A7Z3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6690 
       73.48         0.20        47.77        36.82        18.77        42.54 
TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7643 TCGA-FG-8182 TCGA-FG-8186 
       41.33        18.44        15.35        20.09        13.68        16.01 
TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A70Z TCGA-FG-A711 TCGA-FG-A87Q TCGA-HT-7473 
       10.72        18.38        10.78        48.69         5.72        16.54 
TCGA-HT-7475 TCGA-HT-7477 TCGA-HT-7604 TCGA-HT-7610 TCGA-HT-7688 TCGA-HT-7693 
       17.42        24.26       122.47        56.09        31.69        17.52 
TCGA-HT-7860 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-8011 TCGA-HT-8013 TCGA-HT-8104 
        0.49         3.72        11.28        16.24        63.55        12.23 
TCGA-HT-8108 TCGA-HT-8110 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A5R5 TCGA-HT-A5R9 
        2.50        13.78        15.72         0.23         0.13         0.07 
TCGA-HT-A5RA TCGA-HT-A5RC TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A61C TCGA-HT-A74H 
       27.35         5.33         1.81        16.14        17.65         2.43 
TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74O TCGA-HW-7495 TCGA-HW-8322 TCGA-HW-A5KJ 
       10.52        15.35         0.10        35.44        24.92        31.63 
TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A72U TCGA-P5-A731 
       14.40         0.23         2.30         9.44         0.23         9.01 
TCGA-P5-A736 TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CX TCGA-QH-A6X9 
        7.56        19.33        14.83        14.53        12.23         1.91 
TCGA-QH-A6XA TCGA-QH-A6XC TCGA-RY-A845 TCGA-S9-A6TY TCGA-S9-A6U0 TCGA-S9-A6WM 
       16.50        16.70        19.59        35.38        24.39        19.86 
TCGA-S9-A6WO TCGA-S9-A7IQ TCGA-S9-A7IX TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7QW 
       18.61        36.13        26.93        19.99        20.02        15.06 
TCGA-S9-A7QY TCGA-S9-A7R2 TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7CA TCGA-TM-A84B 
       28.37        10.39        54.77        48.33        34.78        24.92 
TCGA-TM-A84H TCGA-TM-A84M TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RP TCGA-VW-A8FI 
       30.44        24.79        15.98         2.04        30.05         8.05 
TCGA-WY-A85E TCGA-06-0209 TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0009 
       20.81         7.63        11.77         4.73        18.35        10.59 
TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0025 TCGA-02-0027 TCGA-02-0033 
       87.06        77.65        20.12        42.74        12.16         2.83 
TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0043 TCGA-02-0046 TCGA-02-0051 
       14.14         3.62        10.72        18.31         6.87        15.09 
TCGA-02-0052 TCGA-02-0054 TCGA-02-0055 TCGA-02-0057 TCGA-02-0059 TCGA-02-0064 
       12.59         6.54         2.50        19.86         9.57        19.73 
TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 TCGA-02-0079 TCGA-02-0080 
       25.05         5.49        10.19        20.84        27.25        89.72 
TCGA-02-0083 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 
       22.72        51.32         8.81        57.76        16.96         3.48 
TCGA-02-0102 TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 TCGA-02-0113 TCGA-02-0115 
       27.02        11.67        17.65        23.18        92.65        15.65 
TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 
       48.95        16.54        16.93        17.72        10.75        14.47 
TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 
        3.98        13.87        14.20        15.95        12.23         9.90 
TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 TCGA-02-0337 
        7.73        10.62         7.33        15.91        25.71        25.12 
TCGA-02-0422 TCGA-02-0430 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 
       14.50        10.55        11.34         9.27        16.21         3.35 
TCGA-02-2466 TCGA-02-2470 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 
       16.80        12.92        15.45        20.32         2.70         6.15 
TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0128 TCGA-06-0130 TCGA-06-0132 
       20.38        47.61         6.94        22.72        12.95        25.35 
TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 
       14.30        26.70        24.23        11.90         0.20        10.29 
TCGA-06-0143 TCGA-06-0145 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 
       11.74         2.33        17.79        10.09         8.61        19.46 
TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 
       46.59        12.33        13.94        10.45         3.19        10.82 
TCGA-06-0159 TCGA-06-0164 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 
        9.44        56.91         5.85        19.66         3.29        13.12 
TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 TCGA-06-0179 
        4.47         3.22         4.04        91.00         4.18        20.25 
TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 
        3.65        69.90        73.84        27.22        44.58        15.42 
TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 
       10.42        38.96         4.67         7.40         5.56         0.39 
TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 
        7.66         8.42         7.40        11.84         0.53        15.02 
TCGA-06-0216 TCGA-06-0237 TCGA-06-0238 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 
       24.16        13.64        13.32        48.69        10.82         9.01 
TCGA-06-0402 TCGA-06-0409 TCGA-06-0412 TCGA-06-0413 TCGA-06-0414 TCGA-06-0644 
        0.26        72.36         9.57         3.16        35.11        12.62 
TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 
        5.75         5.75         9.80         2.10        23.57        14.20 
TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 
       26.40        46.88         7.86         2.70         2.70         0.92 
TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 
       43.46        46.19         7.17        40.41        16.57        20.78 
TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 
       26.76        23.93         6.84         4.04        26.79        11.84 
TCGA-06-1802 TCGA-06-1804 TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 
       15.32        13.61         1.08        12.49         4.93        17.65 
TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2567 TCGA-06-6390 TCGA-06-6694 
       12.56        30.64         5.95         4.37         5.39         7.36 
TCGA-08-0244 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 
       22.68         1.74         8.42        25.71        12.16         9.80 
TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 
        1.28         8.42        17.95        31.10        37.58        22.29 
TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 
        3.39        12.23        14.93        18.02        15.35        13.97 
TCGA-08-0392 TCGA-08-0509 TCGA-08-0510 TCGA-08-0518 TCGA-08-0520 TCGA-08-0525 
        0.72        12.56         4.27        19.33        10.75        15.98 
TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 
       18.41         7.56        14.73        12.99        34.92        10.45 
TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 
        7.59        94.78         0.10        38.17        25.97        26.66 
TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 
       12.13         3.65        20.38        28.41        15.06        53.85 
TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 
       43.23         7.63         9.73        14.93        14.86        91.76 
TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0826 TCGA-12-0828 
       24.79        18.48        10.62        23.51        27.78         8.94 
TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1093 TCGA-12-1094 
       20.58       127.59         5.82         7.59        15.98        12.23 
TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 TCGA-14-0787 
       15.85         9.11        14.53         3.98         4.14         2.24 
TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 TCGA-14-0867 TCGA-14-0871 TCGA-14-1037 
       11.24         1.35         5.39         2.04        28.93        19.30 
TCGA-14-1043 TCGA-15-0742 TCGA-15-1446 TCGA-15-1449 TCGA-16-0846 TCGA-19-0955 
        0.79        13.78        19.10        13.28         3.91        11.77 
TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1388 
       21.90         0.66        10.75         9.07         5.95        12.95 
TCGA-19-1389 TCGA-26-1442 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 
        4.64        31.33         1.58         7.92         2.33         7.30 
TCGA-28-5204 TCGA-28-5207 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 
       14.93        11.28        14.53        11.77        31.27        23.44 
TCGA-28-5215 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 
       11.01         5.16        22.68        12.76         5.42         7.36 
TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
       11.38         5.42         3.75         1.61        17.72        26.30 

$`7Q GAIN WILD-TYPE`
TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-FG-8187 
       46.72        31.82        42.05        62.01        17.16        20.09 
TCGA-FG-A60K TCGA-FG-A713 TCGA-FG-A87N TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M 
       17.82        20.45        18.64        45.60        42.77        59.38 
TCGA-06-5416 TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A7TL TCGA-12-0615 TCGA-12-3652 
        6.71         4.96        26.79        17.72        15.35        34.92 
TCGA-14-0740 TCGA-14-0862 TCGA-14-0865 TCGA-14-1402 TCGA-14-1456 TCGA-14-1821 
       11.97         2.89        16.50        32.05        40.96        17.79 
TCGA-14-3477 TCGA-16-1056 TCGA-16-1060 TCGA-19-0960 TCGA-19-0964 TCGA-19-1789 
        3.78        14.01         9.14         8.61         3.39         3.25 
TCGA-19-2620 TCGA-19-2621 TCGA-19-2625 TCGA-19-5951 TCGA-19-5956 TCGA-27-1836 
        4.87         1.08         4.08         8.02        22.49        30.05 
TCGA-27-2527 TCGA-27-2528 TCGA-28-1756 TCGA-32-1973 TCGA-32-2615 TCGA-32-2634 
       14.40        15.78         2.83        21.07        15.95        22.78 
TCGA-32-4208 TCGA-32-4213 TCGA-32-4719 TCGA-41-4097 TCGA-76-6193 TCGA-CS-4938 
       21.14        19.86        10.85         0.20         2.70       117.50 
TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-6290 TCGA-CS-6666 
       36.36        60.10        40.18         0.26        37.38        46.95 
TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       48.30        49.94        49.12        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4XA TCGA-DB-A4XD TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L 
       18.84        39.78        33.57        72.95        31.63        24.20 
TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V 
       30.12         5.98        31.40        27.45        27.81        29.23 
TCGA-DB-A64W TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75P TCGA-DH-5140 
       14.40        12.10        11.24        17.88        16.18        19.96 
TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A7UR 
       63.88        46.06        24.59        27.81        17.19        54.25 
TCGA-DH-A7US TCGA-DH-A7UU TCGA-DU-5847 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 
       23.21        13.71        18.02        17.46         6.74        13.38 
TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 
        6.81       182.33        18.94        17.49        15.16        52.11 
TCGA-DU-6394 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6401 TCGA-DU-6408 TCGA-DU-6542 
       22.42        75.16        46.06        87.45       114.08         2.40 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7015 TCGA-DU-7018 
       62.96       156.23       154.36        14.99        90.77        30.67 
TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7302 
       26.30        10.36        94.32        18.94        44.02        60.30 
TCGA-DU-7304 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8162 TCGA-DU-8164 TCGA-DU-8167 
       23.31         2.76         5.10        14.60        21.40        15.48 
TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TS TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S7 
       14.17        33.27        31.69        25.55        21.57        20.98 
TCGA-DU-A6S8 TCGA-DU-A7T6 TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TG TCGA-DU-A7TI 
       22.29        17.98        51.52        37.38        44.42        38.89 
TCGA-E1-5303 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 
       67.46        79.99        57.93       134.27        78.21        95.57 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YK TCGA-E1-A7YO TCGA-E1-A7YS 
       29.13        93.21         3.65        12.43        75.02        15.32 
TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z4 TCGA-E1-A7Z6 
        0.76        32.45        36.82       146.14       145.05        32.35 
TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-6689 TCGA-FG-7636 
       39.48         0.23        25.48        52.21        14.93        17.88 
TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-8181 TCGA-FG-8185 TCGA-FG-8188 TCGA-FG-8189 
       22.55        20.61        28.34        14.24        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L 
       32.61        38.27        18.71        23.70        14.76        21.53 
TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A710 TCGA-FN-7833 
       15.02        16.44        22.26        28.54        36.66        27.52 
TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 
        0.10         6.67        11.54        40.11         0.13         0.03 
TCGA-HT-7474 TCGA-HT-7476 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
        3.75         6.54         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7611 
        4.57        17.29         3.16        22.06        45.99        57.60 
TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
        0.23        14.27         0.16        16.24         0.76        44.68 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 
        6.05        42.74         0.10        14.96         0.10         0.10 
TCGA-HT-7692 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 
        2.96         6.90        14.53        39.48        19.23        39.09 
TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 
        0.23        50.63        23.61        37.15         0.33         0.13 
TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8012 
        3.68         5.33        35.47        31.43         1.64         9.40 
TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 
        0.10        37.87        33.01         6.25         0.10         0.46 
TCGA-HT-8109 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-A4DV 
        5.56         0.23        29.59        34.19        28.27        26.04 
TCGA-HT-A5R7 TCGA-HT-A5RB TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A618 TCGA-HT-A61B 
       20.22         0.10         2.70        16.93        16.83        17.52 
TCGA-HT-A74L TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 
       11.05        56.58        45.44        41.49        68.32        69.27 
TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       39.75        40.01        42.54        12.76        28.87        20.71 
TCGA-IK-7675 TCGA-KT-A74X TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5F1 
       19.00        14.40         6.71         7.99         2.37         5.88 
TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        7.96         7.59         1.28        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X 
       10.95        13.61         9.60        12.23        19.20         3.45 
TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X 
        2.37         4.41        15.16         2.53        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CW TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 
       14.04        13.61        13.41         9.17        10.29        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML 
       16.34        16.73        11.08        12.99        88.83        94.03 
TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 
       32.65        30.87         5.46         9.90        28.08         2.07 
TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX 
       30.67        62.17        87.12        18.77        41.10        40.93 
TCGA-S9-A6TZ TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       36.82        25.81        29.85        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       95.93         5.85       123.65        75.25       135.22        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WN TCGA-S9-A6WP TCGA-S9-A6WQ 
       38.56        84.99        31.10        26.47        18.64        14.07 
TCGA-S9-A7IS TCGA-S9-A7IY TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QX 
        7.92        23.51         8.19         2.04        20.68        18.54 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 
       27.16       169.84        99.06        30.05        98.63        31.59 
TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C5 TCGA-TM-A7CF TCGA-TM-A84C TCGA-TM-A84F 
       18.71        20.48        49.32        65.39        16.18        59.05 
TCGA-TM-A84G TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84O TCGA-TM-A84Q 
       40.64        28.08        24.16        40.83        33.24        25.38 
TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RJ 
       18.61        14.93        23.80        21.37        19.69        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       44.09        36.69        33.73        31.20        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 
       33.93        61.41        26.99        31.36        45.93        43.20 
TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH 
       13.51         0.10         7.89        39.16        20.02        23.47 
TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       37.05        16.01        23.21        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-02-0007 
       39.88        43.40        45.80        46.88        37.71        23.18 
TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0024 TCGA-02-0026 
       35.41        20.71        82.59        20.61        53.10        24.59 
TCGA-02-0028 TCGA-02-0039 TCGA-02-0047 TCGA-02-0048 TCGA-02-0058 TCGA-02-0060 
       90.58        10.52        14.73         3.22         8.35         6.02 
TCGA-02-0068 TCGA-02-0069 TCGA-02-0084 TCGA-02-0104 TCGA-02-0114 TCGA-02-0333 
       26.43        28.70        12.62        65.00        99.98         4.37 
TCGA-02-0338 TCGA-02-0339 TCGA-02-0432 TCGA-02-2483 TCGA-06-0127 TCGA-06-0129 
       10.59        12.39        47.11        15.32         3.98        33.67 
TCGA-06-0142 TCGA-06-0146 TCGA-06-0160 TCGA-06-0162 TCGA-06-0165 TCGA-06-0178 
        2.20        20.09        11.80         3.42        10.65        88.14 
TCGA-06-0219 TCGA-06-0221 TCGA-06-0240 TCGA-06-0410 TCGA-06-1805 TCGA-06-2565 
        0.72        19.82        20.42         4.70        33.90        16.64 
TCGA-06-2566 TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 TCGA-06-6693 TCGA-08-0245 
        5.98         0.43        31.50         7.79       120.56        37.84 
TCGA-08-0246 TCGA-08-0344 TCGA-08-0350 TCGA-08-0351 TCGA-08-0355 TCGA-08-0512 
        4.18       115.86        29.23        65.33        24.56        42.15 
TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 TCGA-08-0521 TCGA-08-0524 TCGA-12-0827 
       11.08        19.59        58.68         4.80         7.27        38.76 
TCGA-12-1091 TCGA-15-1444 TCGA-15-1447 TCGA-16-0849 TCGA-16-0850 TCGA-26-5133 
       33.21        50.53        53.19        26.07        16.37        14.86 
TCGA-26-5134 TCGA-28-2514 TCGA-28-5208 TCGA-28-5216 
        5.49         5.26        17.88        13.64 

  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
             0.07              0.03 
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
           211.17            182.33 
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
           13.480            22.275 
[1] "0.1 - 211.2 (13.5)" "0.0 - 182.3 (22.3)"
[1] "hr=" "3.9"
D14V2, continuous
D14V3, binary
                   cls
clus                  0   1
  7Q GAIN MUTATED   473 154
  7Q GAIN WILD-TYPE 100 358
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7Q GAIN MUTATED    473  154
  7Q GAIN WILD-TYPE  100  358
                        clus
vv                       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  BRAIN                              473               100
  CENTRAL NERVOUS SYSTEM             154               358
[1] 2 2
[1] FALSE
D14V4, binary
                   cls
clus                  0   1
  7Q GAIN MUTATED   254 373
  7Q GAIN WILD-TYPE 199 259
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7Q GAIN MUTATED    254  373
  7Q GAIN WILD-TYPE  199  259
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  FEMALE             254               199
  MALE               373               259
[1] 2 2
[1] FALSE
D14V5, binary
                   cls
clus                  0   1
  7Q GAIN MUTATED   104 487
  7Q GAIN WILD-TYPE 154 283
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7Q GAIN MUTATED    104  487
  7Q GAIN WILD-TYPE  154  283
     clus
vv    7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  NO              104               154
  YES             487               283
[1] 2 2
[1] FALSE
D14V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  7Q GAIN MUTATED            67                            23               39
  7Q GAIN WILD-TYPE         127                             7               90
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  7Q GAIN MUTATED                  48                  12
  7Q GAIN WILD-TYPE               141                   6
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  7Q GAIN MUTATED                               438
  7Q GAIN WILD-TYPE                              87
D14V7, multiclass
                                 clus
vv                                7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  ASTROCYTOMA                                  67               127
  GLIOBLASTOMA MULTIFORME (GBM)                23                 7
  OLIGOASTROCYTOMA                             39                90
  OLIGODENDROGLIOMA                            48               141
  TREATED PRIMARY GBM                          12                 6
  UNTREATED PRIMARY (DE NOVO) GBM             438                87
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  7Q GAIN MUTATED                                  1    10
  7Q GAIN WILD-TYPE                                0    11
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  7Q GAIN MUTATED                          55   540
  7Q GAIN WILD-TYPE                        16   419
D14V8, multiclass
                                  clus
vv                                 7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               1                 0
  ASIAN                                         10                11
  BLACK OR AFRICAN AMERICAN                     55                16
  WHITE                                        540               419
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D14V9, binary
                   cls
clus                  0   1
  7Q GAIN MUTATED    16 531
  7Q GAIN WILD-TYPE  28 390
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7Q GAIN MUTATED     16  531
  7Q GAIN WILD-TYPE   28  390
                        clus
vv                       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  HISPANIC OR LATINO                  16                28
  NOT HISPANIC OR LATINO             531               390
[1] 2 2
[1] FALSE

Clustering(15) Variable = 8P GAIN MUTATION ANALYSIS
D15V1, survival
                   sevent
clus2                 0   1
  8P GAIN MUTATED    45  56
  8P GAIN WILD-TYPE 435 542
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
              101               977 
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
               56               542 
$`8P GAIN MUTATED`
TCGA-19-A6J4 TCGA-CS-6665 TCGA-06-5856 TCGA-12-1602 TCGA-12-3646 TCGA-12-3653 
        3.98        51.55         3.75         6.77        44.02        14.53 
TCGA-14-0865 TCGA-14-1825 TCGA-14-3477 TCGA-19-1392 TCGA-27-1834 TCGA-27-2521 
       16.50         7.63         3.78         3.65        40.54        16.77 
TCGA-28-1746 TCGA-32-1970 TCGA-32-1976 TCGA-32-1978 TCGA-32-2632 TCGA-41-2573 
        0.20        15.39         0.49        15.85         8.84         8.94 
TCGA-41-4097 TCGA-41-5651 TCGA-CS-6666 TCGA-DB-5281 TCGA-DB-A64X TCGA-DH-A669 
        0.20        15.12        46.95        78.28        18.51        30.21 
TCGA-DH-A7UT TCGA-DU-5871 TCGA-DU-6407 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7304 
       17.46        18.94        94.52         8.84       117.40        23.31 
TCGA-DU-8158 TCGA-DU-8163 TCGA-DU-8167 TCGA-DU-A5TS TCGA-DU-A5TW TCGA-DU-A6S7 
        5.10        20.68        15.48        31.69        24.99        20.98 
TCGA-DU-A7T6 TCGA-DU-A7TA TCGA-E1-5303 TCGA-FG-5962 TCGA-FG-7634 TCGA-FG-A4MT 
       17.98        84.33        67.46        47.77        15.35        38.27 
TCGA-FG-A4MY TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7479 TCGA-HT-7482 TCGA-HT-7855 
       23.70         6.54        24.26        40.34       106.95        19.23 
TCGA-HT-8011 TCGA-HT-8013 TCGA-HT-8106 TCGA-HT-8111 TCGA-HT-A5R7 TCGA-HT-A74J 
       16.24        63.55         0.10         0.23        20.22        10.52 
TCGA-S9-A6TY TCGA-S9-A6WH TCGA-S9-A6WO TCGA-S9-A7QX TCGA-S9-A89Z TCGA-TM-A7CF 
       35.38        38.56        18.61        18.54        20.48        65.39 
TCGA-TM-A84H TCGA-TM-A84Q TCGA-TQ-A7RH TCGA-TQ-A7RQ TCGA-TQ-A7RV TCGA-VM-A8C8 
       30.44        25.38        15.98        26.14        61.41        45.93 
TCGA-VM-A8CA TCGA-VM-A8CF TCGA-06-0209 TCGA-02-0010 TCGA-02-0024 TCGA-02-0055 
       13.51        20.02         7.63        35.41        53.10         2.50 
TCGA-02-0074 TCGA-02-0075 TCGA-02-0084 TCGA-02-0325 TCGA-06-0128 TCGA-06-0146 
       10.19        20.84        12.62        10.62        22.72        20.09 
TCGA-06-0177 TCGA-06-0188 TCGA-06-0192 TCGA-06-0211 TCGA-06-0409 TCGA-06-0414 
        4.18        44.58        38.96        11.84        72.36        35.11 
TCGA-06-0686 TCGA-06-2557 TCGA-06-2569 TCGA-06-6389 TCGA-06-6694 TCGA-08-0350 
       14.20         1.08         0.43         7.79         7.36        29.23 
TCGA-08-0351 TCGA-12-0616 TCGA-12-0819 TCGA-12-1099 TCGA-14-0817 TCGA-14-0867 
       65.33        14.73        24.79         4.14         5.39         2.04 
TCGA-14-0871 TCGA-19-1388 TCGA-28-5215 TCGA-28-5218 TCGA-28-5219 
       28.93        12.95        11.01         5.16        22.68 

$`8P GAIN WILD-TYPE`
TCGA-06-6391 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B TCGA-DU-7300 
        1.48        46.88        46.72        31.82        42.05        62.01 
TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 TCGA-FG-A87N 
       17.16        23.90        20.09        17.82        20.45        18.64 
TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 TCGA-06-5408 
       21.40        45.60        42.77        59.38        15.32        11.74 
TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 
        3.55         8.35         4.54         8.81         8.98         8.55 
TCGA-06-5416 TCGA-06-5418 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 
        6.71         2.73         6.15         4.57         5.23         8.32 
TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 
       12.85         4.77         1.55         4.77         4.96        26.79 
TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 
        1.87         3.12         2.56        14.60        17.72        15.35 
TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 TCGA-12-3644 TCGA-12-3648 
       21.73        15.65        25.68        14.73        59.77        26.93 
TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-5295 TCGA-12-5299 
       15.22        10.95        12.69        34.92        14.93         3.22 
TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 
        2.04        15.12        11.97         0.95         6.21        23.05 
TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 
       13.78         3.25         2.89        26.33        15.95         1.38 
TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 
        1.12         3.75        32.05        58.78        23.11         7.10 
TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 
        1.15        30.18         0.92        40.96         6.67        12.43 
TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 TCGA-14-1823 TCGA-14-1827 TCGA-14-1829 
        0.99         1.97        17.79        17.85         5.88         7.17 
TCGA-14-2554 TCGA-14-2555 TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 
       17.49         7.96         3.42        17.59        29.03         4.57 
TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 
       10.29        14.01         9.14        21.24        13.97         6.41 
TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 TCGA-19-1786 TCGA-19-1787 
        8.61        14.27         3.39        25.38         7.17        12.66 
TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 
        3.25         0.13         9.67         4.87         1.08         7.53 
TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 
        0.16         4.08        24.23         7.00         7.04         6.64 
TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 
       17.19         8.02        18.90         4.73        12.10         1.78 
TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 
       22.49        14.07        16.80        14.96        17.79        28.54 
TCGA-26-1438 TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 
       10.03        13.87         9.73         7.13         9.37         9.40 
TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 
        8.88        18.97        19.33         5.06        16.60         9.86 
TCGA-27-1833 TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 
       24.23        21.30        30.05        14.04        11.51        24.76 
TCGA-27-2519 TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 
       18.08        16.08         7.59         2.86        14.40        15.78 
TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 
        2.53         9.21         8.35         7.63         8.48         1.22 
TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 
        1.55         2.83         0.13         0.66         6.74         4.77 
TCGA-32-1973 TCGA-32-1977 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 
       21.07         0.10        19.50         1.18         4.67        12.69 
TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 
       14.86        16.93        12.23        20.78        15.02        15.95 
TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 
       22.78        25.18        21.14         3.72        12.59        19.86 
TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2575 TCGA-41-3392 
       10.85        19.23         0.85        13.35         9.53         0.99 
TCGA-41-3393 TCGA-41-3915 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T 
        4.44        11.84        12.46         4.08         1.45        25.58 
TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 
        3.45        20.91         4.34        14.33         8.22         7.50 
TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4934 
        4.80         4.54         3.09         3.65         9.17         2.53 
TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 
       36.85        16.70         3.29         2.70        17.06         8.35 
TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 
       20.98         4.83         5.03        23.90        34.45        18.64 
TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 
       36.20         5.92         6.28        20.55       117.50         7.69 
TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 
       43.89        36.36        60.10        40.18         0.26        21.01 
TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6667 
       53.62         6.38        17.69        26.76        37.38        48.30 
TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.94        49.12       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-A4X9 
       72.92        50.86        91.13        44.52        36.56        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG 
       18.84        30.21        39.78        37.45        33.57        72.95 
TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R 
       31.63        24.20        25.48        30.12         5.98        31.40 
TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A75K TCGA-DB-A75L 
       27.45        27.81        29.23        14.40        12.10        11.24 
TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 
       17.88        30.74        16.18        19.96        63.88        46.06 
TCGA-DH-5144 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       24.59        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5872 TCGA-DU-5874 
       13.38         8.45         6.81       182.33        17.49        15.16 
TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 
      211.17        52.11        22.42        49.02        75.16        46.06 
TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       65.75         1.22        87.45         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 
       19.89        16.83       114.08         7.96         2.40        11.47 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 
       62.96       156.23       154.36        14.99       105.21         6.54 
TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 
       90.77        30.67        26.30        10.36         7.96        94.32 
TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7306 TCGA-DU-7309 
       18.94        44.02        25.91        60.30        41.98         2.76 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8168 
       23.74        14.60        21.40        19.13        16.96        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TY TCGA-DU-A6S2 
       33.27        29.85        24.43        26.17        33.96        25.55 
TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R 
       21.57        95.11        22.29        11.41        26.76        21.30 
TCGA-DU-A7T8 TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI 
      139.04        51.52        37.38         7.50        44.42        38.89 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 
        0.56        50.14        41.13        79.99        57.93       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH 
       78.21        95.57       130.78        14.30        29.13        93.21 
TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO 
        3.65        19.46        12.43        16.18        21.30        75.02 
TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY 
       51.88        15.32         0.76        32.45        36.82       146.14 
TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 
       13.08        73.48       145.05        32.35        39.48         0.23 
TCGA-F6-A8O4 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 
        0.20        25.48        52.21        36.82        18.77        14.93 
TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 
       42.54        41.33        18.44        17.88        22.55        20.61 
TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 
       20.09        28.34        13.68        14.24        16.01        14.96 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A60J 
       22.52        32.61        10.72        18.38        18.71        14.76 
TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z 
       21.53        15.02        16.44        22.26        28.54        10.78 
TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 
       36.66        48.69         5.72        27.52         0.10         6.67 
TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
       11.54        40.11         0.13         0.03        16.54         3.75 
TCGA-HT-7475 TCGA-HT-7478 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7483 TCGA-HT-7485 
       17.42         6.38        75.19        95.93       172.77         4.01 
TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 
        5.03        29.85        23.18       122.47         4.57        17.29 
TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 
        3.16        22.06        45.99        56.09        57.60         0.23 
TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 
       14.27         0.16        16.24         0.76        44.68         6.05 
TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 
       42.74         0.10        31.69        14.96         0.10         0.10 
TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7856 
        2.96        17.52         6.90        14.53        39.48        39.09 
TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 
        0.23        50.63         0.49        23.61        37.15         0.33 
TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 
        0.13         3.68         5.33        35.47         3.72        11.28 
TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8012 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
       31.43         1.64         9.40         0.10        37.87        33.01 
TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 
       12.23         6.25         0.46         2.50         5.56        13.78 
TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV 
       29.59        34.19        28.27        15.72         0.23        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 
        0.13         0.07        27.35         0.10         5.33         2.70 
TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C 
       16.93         1.81        16.14        16.83        17.52        17.65 
TCGA-HT-A74H TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 
        2.43        15.35        11.05         0.10        56.58        45.44 
TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 
       41.49        68.32        69.27        35.44        39.75        40.01 
TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       42.54        24.92        31.63        12.76        28.87        20.71 
TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX 
       19.00        14.40        14.40         0.23         6.71         7.99 
TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 
        2.37         2.30         9.44         5.88         7.96         7.59 
TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 
        1.28         0.23        10.42        13.25        11.64        10.95 
TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W 
        9.01        13.61         9.60         7.56        12.23        19.20 
TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V 
        3.45         2.37         4.41        15.16         2.53        12.62 
TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW 
       15.85        14.04        19.33        14.83        14.53        13.61 
TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 
       12.23        13.41         9.17        10.29        14.53        16.34 
TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 
       16.73         1.91        16.50        16.70        11.08        12.99 
TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z 
       88.83        94.03        32.65        30.87         5.46         9.90 
TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU 
       28.08         2.07        19.59        30.67        62.17        87.12 
TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 
       18.77        41.10        40.93        36.82        24.39        25.81 
TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA 
       29.85        32.61        35.15        98.24        95.93         5.85 
TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WI TCGA-S9-A6WL 
      123.65        75.25       135.22        85.55        84.99        31.10 
TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS 
       19.86        26.47        18.64        14.07        36.13         7.92 
TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 
       26.93        23.51        19.99        20.02         8.19         2.04 
TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 
       20.68        15.06        28.37        27.16       169.84        10.39 
TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-TM-A7C3 
       99.06        30.05        98.63        31.59        18.71        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F 
       48.33        49.32        34.78        24.92        16.18        59.05 
TCGA-TM-A84G TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O 
       40.64        28.08        24.16        40.83        24.79        33.24 
TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RI 
       18.61        14.93        23.80        21.37        19.69         2.04 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP 
       40.41        44.09        36.69        33.73        31.20        30.05 
TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C9 TCGA-VM-A8CB 
       25.87        33.93        26.99        31.36        43.20         0.10 
TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS 
        7.89        39.16        23.47        37.05        16.01        23.21 
TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A 
        8.05        51.06        13.32        43.96        39.88        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-02-0001 TCGA-02-0003 
       45.80        46.88        37.71        20.81        11.77         4.73 
TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 
       18.35        23.18        10.59        20.71        82.59        20.61 
TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 
       87.06        77.65        20.12        42.74        24.59        12.16 
TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 
       90.58         2.83        14.14         3.62        10.72        10.52 
TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 
       18.31         6.87        14.73         3.22        15.09        12.59 
TCGA-02-0054 TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 
        6.54        19.86         8.35         9.57         6.02        19.73 
TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 TCGA-02-0079 TCGA-02-0080 
       26.43        28.70        25.05         5.49        27.25        89.72 
TCGA-02-0083 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 
       22.72        51.32         8.81        57.76        16.96         3.48 
TCGA-02-0102 TCGA-02-0104 TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 TCGA-02-0113 
       27.02        65.00        11.67        17.65        23.18        92.65 
TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 
       99.98        15.65        48.95        16.54        16.93        17.72 
TCGA-02-0269 TCGA-02-0271 TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 
       10.75        14.47         3.98        13.87        14.20        15.95 
TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 
       12.23         9.90         7.73         7.33        15.91        25.71 
TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 
        4.37        25.12        10.59        12.39        14.50        10.55 
TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 
       47.11        11.34         9.27        16.21         3.35        16.80 
TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 
       12.92        15.32        15.45        20.32         2.70         6.15 
TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0129 TCGA-06-0130 
       20.38        47.61         6.94         3.98        33.67        12.95 
TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 
       25.35        14.30        26.70        24.23        11.90         0.20 
TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0147 TCGA-06-0148 
       10.29         2.20        11.74         2.33        17.79        10.09 
TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 
        8.61        19.46        46.59        12.33        13.94        10.45 
TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 
        3.19        10.82         9.44        11.80         3.42        56.91 
TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 
       10.65         5.85        19.66         3.29        13.12         4.47 
TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 
        3.22         4.04        91.00        88.14        20.25         3.65 
TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0189 TCGA-06-0190 TCGA-06-0194 
       69.90        73.84        27.22        15.42        10.42         4.67 
TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 
        7.40         5.56         0.39         7.66         8.42         7.40 
TCGA-06-0213 TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 
        0.53        15.02        24.16         0.72        19.82        13.64 
TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 
       13.32        20.42        48.69        10.82         9.01         0.26 
TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 
        4.70         9.57         3.16        12.62         5.75         5.75 
TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 
        9.80         2.10        23.57        26.40        46.88         7.86 
TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 
        2.70         2.70         0.92        43.46        46.19         7.17 
TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 
       40.41        16.57        20.78        26.76        23.93         6.84 
TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 
        4.04        26.79        11.84        15.32        13.61        33.90 
TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 
       12.49         4.93        17.65        12.56        30.64         5.95 
TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2570 TCGA-06-6390 TCGA-06-6693 
       16.64         5.98         4.37        31.50         5.39       120.56 
TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 
       22.68        37.84         4.18       115.86         1.74         8.42 
TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 
       25.71        12.16         9.80         1.28         8.42        17.95 
TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 
       24.56        31.10        37.58        22.29         3.39        12.23 
TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 
       14.93        18.02        15.35        13.97         0.72        12.56 
TCGA-08-0510 TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 
        4.27        42.15        11.08        19.59        58.68        19.33 
TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 
       10.75         4.80         7.27        15.98        18.41         7.56 
TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 
       12.99        34.92        10.45         7.59        94.78         0.10 
TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 
       38.17        25.97        26.66        12.13         3.65        20.38 
TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 
       28.41        15.06        53.85        43.23         7.63         9.73 
TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 
       14.93        14.86        91.76        18.48        10.62        23.51 
TCGA-12-0826 TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 
       27.78        38.76         8.94        20.58       127.59         5.82 
TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 
        7.59        33.21        15.98        12.23        15.85         9.11 
TCGA-12-1097 TCGA-12-1098 TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 TCGA-14-1037 
       14.53         3.98         2.24        11.24         1.35        19.30 
TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 TCGA-15-1447 TCGA-15-1449 
        0.79        13.78        50.53        19.10        53.19        13.28 
TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 
        3.91        26.07        16.37        11.77        21.90         0.66 
TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 
       10.75         9.07         5.95         4.64        31.33        14.86 
TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 
        5.49         1.58         7.92         2.33         7.30         5.26 
TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 
       14.93        11.28        17.88        14.53        11.77        31.27 
TCGA-28-5214 TCGA-28-5216 TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 
       23.44        13.64        12.76         5.42         7.36        11.38 
TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        5.42         3.75         1.61        17.72        26.30 

  8P GAIN MUTATED 8P GAIN WILD-TYPE 
             0.10              0.03 
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
           117.40            211.17 
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
            18.54             15.85 
[1] "0.1 - 117.4 (18.5)" "0.0 - 211.2 (15.8)"
[1] "hr=" "1.1"
D15V2, continuous
D15V3, binary
                   cls
clus                  0   1
  8P GAIN MUTATED    52  49
  8P GAIN WILD-TYPE 521 463
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8P GAIN MUTATED     52   49
  8P GAIN WILD-TYPE  521  463
                        clus
vv                       8P GAIN MUTATED 8P GAIN WILD-TYPE
  BRAIN                               52               521
  CENTRAL NERVOUS SYSTEM              49               463
[1] 2 2
[1] FALSE
D15V4, binary
                   cls
clus                  0   1
  8P GAIN MUTATED    43  58
  8P GAIN WILD-TYPE 410 574
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8P GAIN MUTATED     43   58
  8P GAIN WILD-TYPE  410  574
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  FEMALE              43               410
  MALE                58               574
[1] 2 2
[1] FALSE
D15V5, binary
                   cls
clus                  0   1
  8P GAIN MUTATED    20  73
  8P GAIN WILD-TYPE 238 697
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8P GAIN MUTATED     20   73
  8P GAIN WILD-TYPE  238  697
     clus
vv    8P GAIN MUTATED 8P GAIN WILD-TYPE
  NO               20               238
  YES              73               697
[1] 2 2
[1] FALSE
D15V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  8P GAIN MUTATED            23                             1               13
  8P GAIN WILD-TYPE         171                            29              116
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  8P GAIN MUTATED                  13                   2
  8P GAIN WILD-TYPE               176                  16
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  8P GAIN MUTATED                                49
  8P GAIN WILD-TYPE                             476
D15V7, multiclass
                                 clus
vv                                8P GAIN MUTATED 8P GAIN WILD-TYPE
  ASTROCYTOMA                                  23               171
  GLIOBLASTOMA MULTIFORME (GBM)                 1                29
  OLIGOASTROCYTOMA                             13               116
  OLIGODENDROGLIOMA                            13               176
  TREATED PRIMARY GBM                           2                16
  UNTREATED PRIMARY (DE NOVO) GBM              49               476
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  8P GAIN MUTATED                                  0     0
  8P GAIN WILD-TYPE                                1    21
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  8P GAIN MUTATED                          10    90
  8P GAIN WILD-TYPE                        61   869
D15V8, multiclass
                                  clus
vv                                 8P GAIN MUTATED 8P GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                21
  BLACK OR AFRICAN AMERICAN                     10                61
  WHITE                                         90               869
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D15V9, binary
                   cls
clus                  0   1
  8P GAIN MUTATED     6  84
  8P GAIN WILD-TYPE  38 837
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8P GAIN MUTATED      6   84
  8P GAIN WILD-TYPE   38  837
                        clus
vv                       8P GAIN MUTATED 8P GAIN WILD-TYPE
  HISPANIC OR LATINO                   6                38
  NOT HISPANIC OR LATINO              84               837
[1] 2 2
[1] FALSE

Clustering(16) Variable = 8Q GAIN MUTATION ANALYSIS
D16V1, survival
                   sevent
clus2                 0   1
  8Q GAIN MUTATED    52  65
  8Q GAIN WILD-TYPE 428 533
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
              117               961 
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
               65               533 
$`8Q GAIN MUTATED`
TCGA-19-A6J4 TCGA-CS-6665 TCGA-06-5856 TCGA-12-1602 TCGA-12-3646 TCGA-12-3653 
        3.98        51.55         3.75         6.77        44.02        14.53 
TCGA-14-0865 TCGA-14-1456 TCGA-14-1825 TCGA-14-3477 TCGA-19-1392 TCGA-27-1834 
       16.50        40.96         7.63         3.78         3.65        40.54 
TCGA-27-2521 TCGA-28-1746 TCGA-32-1970 TCGA-32-1976 TCGA-32-1978 TCGA-32-2632 
       16.77         0.20        15.39         0.49        15.85         8.84 
TCGA-41-2573 TCGA-41-4097 TCGA-41-5651 TCGA-CS-6290 TCGA-CS-6666 TCGA-DB-5277 
        8.94         0.20        15.12        37.38        46.95        50.86 
TCGA-DB-5281 TCGA-DB-A64X TCGA-DH-5143 TCGA-DH-A669 TCGA-DH-A7UT TCGA-DU-5871 
       78.28        18.51        46.06        30.21        17.46        18.94 
TCGA-DU-6407 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7304 TCGA-DU-8158 TCGA-DU-8163 
       94.52         8.84       117.40        23.31         5.10        20.68 
TCGA-DU-8167 TCGA-DU-A5TS TCGA-DU-A5TW TCGA-DU-A6S7 TCGA-DU-A7T6 TCGA-DU-A7TA 
       15.48        31.69        24.99        20.98        17.98        84.33 
TCGA-E1-5303 TCGA-E1-A7YY TCGA-FG-5962 TCGA-FG-6691 TCGA-FG-7634 TCGA-FG-A4MT 
       67.46       146.14        47.77        41.33        15.35        38.27 
TCGA-FG-A4MY TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7479 TCGA-HT-7482 TCGA-HT-7855 
       23.70         6.54        24.26        40.34       106.95        19.23 
TCGA-HT-8011 TCGA-HT-8013 TCGA-HT-8106 TCGA-HT-8111 TCGA-HT-A5R7 TCGA-HT-A74J 
       16.24        63.55         0.10         0.23        20.22        10.52 
TCGA-P5-A5F1 TCGA-S9-A6TY TCGA-S9-A6WH TCGA-S9-A6WO TCGA-S9-A7QW TCGA-S9-A7QX 
        5.88        35.38        38.56        18.61        15.06        18.54 
TCGA-S9-A89Z TCGA-TM-A7CF TCGA-TM-A84H TCGA-TM-A84Q TCGA-TQ-A7RH TCGA-TQ-A7RM 
       20.48        65.39        30.44        25.38        15.98        36.69 
TCGA-TQ-A7RQ TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-VM-A8C8 TCGA-VM-A8CA TCGA-VM-A8CF 
       26.14        61.41        26.99        45.93        13.51        20.02 
TCGA-06-0209 TCGA-02-0010 TCGA-02-0037 TCGA-02-0055 TCGA-02-0074 TCGA-02-0075 
        7.63        35.41         3.62         2.50        10.19        20.84 
TCGA-02-0084 TCGA-02-0104 TCGA-02-0325 TCGA-02-2483 TCGA-06-0128 TCGA-06-0146 
       12.62        65.00        10.62        15.32        22.72        20.09 
TCGA-06-0177 TCGA-06-0188 TCGA-06-0192 TCGA-06-0211 TCGA-06-0409 TCGA-06-0414 
        4.18        44.58        38.96        11.84        72.36        35.11 
TCGA-06-0686 TCGA-06-2557 TCGA-06-2569 TCGA-06-6389 TCGA-06-6694 TCGA-08-0350 
       14.20         1.08         0.43         7.79         7.36        29.23 
TCGA-08-0351 TCGA-08-0516 TCGA-12-0616 TCGA-12-0818 TCGA-12-0819 TCGA-12-0827 
       65.33        19.59        14.73        91.76        24.79        38.76 
TCGA-12-1099 TCGA-14-0817 TCGA-14-0867 TCGA-14-0871 TCGA-19-1388 TCGA-28-5204 
        4.14         5.39         2.04        28.93        12.95        14.93 
TCGA-28-5215 TCGA-28-5218 TCGA-28-5219 
       11.01         5.16        22.68 

$`8Q GAIN WILD-TYPE`
TCGA-06-6391 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B TCGA-DU-7300 
        1.48        46.88        46.72        31.82        42.05        62.01 
TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 TCGA-FG-A87N 
       17.16        23.90        20.09        17.82        20.45        18.64 
TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 TCGA-06-5408 
       21.40        45.60        42.77        59.38        15.32        11.74 
TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 
        3.55         8.35         4.54         8.81         8.98         8.55 
TCGA-06-5416 TCGA-06-5418 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 
        6.71         2.73         6.15         4.57         5.23         8.32 
TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 
       12.85         4.77         1.55         4.77         4.96        26.79 
TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 
        1.87         3.12         2.56        14.60        17.72        15.35 
TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 TCGA-12-3644 TCGA-12-3648 
       21.73        15.65        25.68        14.73        59.77        26.93 
TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-5295 TCGA-12-5299 
       15.22        10.95        12.69        34.92        14.93         3.22 
TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 
        2.04        15.12        11.97         0.95         6.21        23.05 
TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 
       13.78         3.25         2.89        26.33        15.95         1.38 
TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 
        1.12         3.75        32.05        58.78        23.11         7.10 
TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 TCGA-14-1458 TCGA-14-1459 TCGA-14-1794 
        1.15        30.18         0.92         6.67        12.43         0.99 
TCGA-14-1795 TCGA-14-1821 TCGA-14-1823 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 
        1.97        17.79        17.85         5.88         7.17        17.49 
TCGA-14-2555 TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 
        7.96         3.42        17.59        29.03         4.57        10.29 
TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 
       14.01         9.14        21.24        13.97         6.41         8.61 
TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 
       14.27         3.39        25.38         7.17        12.66         3.25 
TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 
        0.13         9.67         4.87         1.08         7.53         0.16 
TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 
        4.08        24.23         7.00         7.04         6.64        17.19 
TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 
        8.02        18.90         4.73        12.10         1.78        22.49 
TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 
       14.07        16.80        14.96        17.79        28.54        10.03 
TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 
       13.87         9.73         7.13         9.37         9.40         8.88 
TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 
       18.97        19.33         5.06        16.60         9.86        24.23 
TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 
       21.30        30.05        14.04        11.51        24.76        18.08 
TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1747 
       16.08         7.59         2.86        14.40        15.78         2.53 
TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 
        9.21         8.35         7.63         8.48         1.22         1.55 
TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 TCGA-32-1973 
        2.83         0.13         0.66         6.74         4.77        21.07 
TCGA-32-1977 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 
        0.10        19.50         1.18         4.67        12.69        14.86 
TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 TCGA-32-2634 
       16.93        12.23        20.78        15.02        15.95        22.78 
TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 
       25.18        21.14         3.72        12.59        19.86        10.85 
TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 
       19.23         0.85        13.35         9.53         0.99         4.44 
TCGA-41-3915 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 
       11.84        12.46         4.08         1.45        25.58         3.45 
TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 
       20.91         4.34        14.33         8.22         7.50         4.80 
TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 
        4.54         3.09         3.65         9.17         2.53        36.85 
TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 
       16.70         3.29         2.70        17.06         8.35        20.98 
TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 
        4.83         5.03        23.90        34.45        18.64        36.20 
TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 
        5.92         6.28        20.55       117.50         7.69        43.89 
TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 
       36.36        60.10        40.18         0.26        21.01        53.62 
TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 
        6.38        17.69        26.76        48.30        49.94        49.12 
TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5278 
      122.73        81.96        75.25        47.93        72.92        91.13 
TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD 
       44.52        36.56        46.42        18.84        30.21        39.78 
TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O 
       37.45        33.57        72.95        31.63        24.20        25.48 
TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V 
       30.12         5.98        31.40        27.45        27.81        29.23 
TCGA-DB-A64W TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       14.40        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5144 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G 
       19.96        63.88        24.59        27.81        17.19        17.19 
TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 
       54.25        23.21        13.71        18.61        18.02        14.56 
TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 
       17.46         6.74        13.38         8.45         6.81       182.33 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 
       17.49        15.16       211.17        52.11        22.42        49.02 
TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 
       75.16        46.06        65.75         1.22        87.45         7.04 
TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6408 TCGA-DU-6410 
       11.64       133.74        19.89        16.83       114.08         7.96 
TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
      105.21         6.54        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 
        7.96        94.32        18.94        44.02        25.91        60.30 
TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8164 TCGA-DU-8165 
       41.98         2.76        23.74        14.60        21.40        19.13 
TCGA-DU-8166 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TT TCGA-DU-A5TU 
       16.96        14.17        33.27        29.85        24.43        26.17 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S8 TCGA-DU-A76K 
       33.96        25.55        21.57        95.11        22.29        11.41 
TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T8 TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       26.76        21.30       139.04        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5304 TCGA-E1-5305 
       44.42        38.89         0.56        50.14        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       57.93       134.27        78.21        95.57       130.78        14.30 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL 
       29.13        93.21         3.65        19.46        12.43        16.18 
TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV 
       21.30        75.02        51.88        15.32         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 
       36.82        13.08        73.48       145.05        32.35        39.48 
TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 
        0.23         0.20        25.48        52.21        36.82        18.77 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6692 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 
       14.93        42.54        18.44        17.88        22.55        20.61 
TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 
       20.09        28.34        13.68        14.24        16.01        14.96 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A60J 
       22.52        32.61        10.72        18.38        18.71        14.76 
TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z 
       21.53        15.02        16.44        22.26        28.54        10.78 
TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 
       36.66        48.69         5.72        27.52         0.10         6.67 
TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
       11.54        40.11         0.13         0.03        16.54         3.75 
TCGA-HT-7475 TCGA-HT-7478 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7483 TCGA-HT-7485 
       17.42         6.38        75.19        95.93       172.77         4.01 
TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 
        5.03        29.85        23.18       122.47         4.57        17.29 
TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 
        3.16        22.06        45.99        56.09        57.60         0.23 
TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 
       14.27         0.16        16.24         0.76        44.68         6.05 
TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 
       42.74         0.10        31.69        14.96         0.10         0.10 
TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7856 
        2.96        17.52         6.90        14.53        39.48        39.09 
TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 
        0.23        50.63         0.49        23.61        37.15         0.33 
TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 
        0.13         3.68         5.33        35.47         3.72        11.28 
TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8012 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
       31.43         1.64         9.40         0.10        37.87        33.01 
TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 
       12.23         6.25         0.46         2.50         5.56        13.78 
TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV 
       29.59        34.19        28.27        15.72         0.23        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 
        0.13         0.07        27.35         0.10         5.33         2.70 
TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C 
       16.93         1.81        16.14        16.83        17.52        17.65 
TCGA-HT-A74H TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 
        2.43        15.35        11.05         0.10        56.58        45.44 
TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 
       41.49        68.32        69.27        35.44        39.75        40.01 
TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       42.54        24.92        31.63        12.76        28.87        20.71 
TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX 
       19.00        14.40        14.40         0.23         6.71         7.99 
TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 
        2.37         2.30         9.44         7.96         7.59         1.28 
TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 
        0.23        10.42        13.25        11.64        10.95         9.01 
TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X 
       13.61         9.60         7.56        12.23        19.20         3.45 
TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X 
        2.37         4.41        15.16         2.53        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX 
       14.04        19.33        14.83        14.53        13.61        12.23 
TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
       13.41         9.17        10.29        14.53        16.34        16.73 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
        1.91        16.50        16.70        11.08        12.99        88.83 
TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 
       94.03        32.65        30.87         5.46         9.90        28.08 
TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV 
        2.07        19.59        30.67        62.17        87.12        18.77 
TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 
       41.10        40.93        36.82        24.39        25.81        29.85 
TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB 
       32.61        35.15        98.24        95.93         5.85       123.65 
TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM 
       75.25       135.22        85.55        84.99        31.10        19.86 
TCGA-S9-A6WN TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX 
       26.47        18.64        14.07        36.13         7.92        26.93 
TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       23.51        19.99        20.02         8.19         2.04        20.68 
TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 
       28.37        27.16       169.84        10.39        99.06        30.05 
TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 
       98.63        31.59        18.71        54.77        48.33        49.32 
TCGA-TM-A7CA TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84I 
       34.78        24.92        16.18        59.05        40.64        28.08 
TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84R TCGA-TM-A84S 
       24.16        40.83        24.79        33.24        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       23.80        21.37        19.69         2.04        40.41        44.09 
TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A8XE 
       33.73        31.20        30.05        25.87        33.93        31.36 
TCGA-VM-A8C9 TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CH TCGA-VV-A829 
       43.20         0.10         7.89        39.16        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       16.01        23.21         8.05        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 
TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0011 
       11.77         4.73        18.35        23.18        10.59        20.71 
TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 
       82.59        20.61        87.06        77.65        20.12        53.10 
TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 
       42.74        24.59        12.16        90.58         2.83        14.14 
TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 
       10.72        10.52        18.31         6.87        14.73         3.22 
TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 
       15.09        12.59         6.54        19.86         8.35         9.57 
TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 
        6.02        19.73        26.43        28.70        25.05         5.49 
TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 
       27.25        89.72        22.72        51.32         8.81        57.76 
TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 
       16.96         3.48        27.02        11.67        17.65        23.18 
TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 
       92.65        99.98        15.65        48.95        16.54        16.93 
TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 
       17.72        10.75        14.47         3.98        13.87        14.20 
TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0326 TCGA-02-0330 
       15.95        12.23         9.90         7.73         7.33        15.91 
TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 
       25.71         4.37        25.12        10.59        12.39        14.50 
TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 
       10.55        47.11        11.34         9.27        16.21         3.35 
TCGA-02-2466 TCGA-02-2470 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 
       16.80        12.92        15.45        20.32         2.70         6.15 
TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0129 TCGA-06-0130 
       20.38        47.61         6.94         3.98        33.67        12.95 
TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 
       25.35        14.30        26.70        24.23        11.90         0.20 
TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0147 TCGA-06-0148 
       10.29         2.20        11.74         2.33        17.79        10.09 
TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 
        8.61        19.46        46.59        12.33        13.94        10.45 
TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 
        3.19        10.82         9.44        11.80         3.42        56.91 
TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 
       10.65         5.85        19.66         3.29        13.12         4.47 
TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 
        3.22         4.04        91.00        88.14        20.25         3.65 
TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0189 TCGA-06-0190 TCGA-06-0194 
       69.90        73.84        27.22        15.42        10.42         4.67 
TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 
        7.40         5.56         0.39         7.66         8.42         7.40 
TCGA-06-0213 TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 
        0.53        15.02        24.16         0.72        19.82        13.64 
TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 
       13.32        20.42        48.69        10.82         9.01         0.26 
TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 
        4.70         9.57         3.16        12.62         5.75         5.75 
TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 
        9.80         2.10        23.57        26.40        46.88         7.86 
TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 
        2.70         2.70         0.92        43.46        46.19         7.17 
TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 
       40.41        16.57        20.78        26.76        23.93         6.84 
TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 
        4.04        26.79        11.84        15.32        13.61        33.90 
TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 
       12.49         4.93        17.65        12.56        30.64         5.95 
TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2570 TCGA-06-6390 TCGA-06-6693 
       16.64         5.98         4.37        31.50         5.39       120.56 
TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 
       22.68        37.84         4.18       115.86         1.74         8.42 
TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 
       25.71        12.16         9.80         1.28         8.42        17.95 
TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 
       24.56        31.10        37.58        22.29         3.39        12.23 
TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 
       14.93        18.02        15.35        13.97         0.72        12.56 
TCGA-08-0510 TCGA-08-0512 TCGA-08-0514 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 
        4.27        42.15        11.08        58.68        19.33        10.75 
TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 TCGA-12-0618 
        4.80         7.27        15.98        18.41         7.56        12.99 
TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 
       34.92        10.45         7.59        94.78         0.10        38.17 
TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 
       25.97        26.66        12.13         3.65        20.38        28.41 
TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 
       15.06        53.85        43.23         7.63         9.73        14.93 
TCGA-12-0780 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0826 TCGA-12-0828 
       14.86        18.48        10.62        23.51        27.78         8.94 
TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 
       20.58       127.59         5.82         7.59        33.21        15.98 
TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-14-0787 
       12.23        15.85         9.11        14.53         3.98         2.24 
TCGA-14-0789 TCGA-14-0813 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 
       11.24         1.35        19.30         0.79        13.78        50.53 
TCGA-15-1446 TCGA-15-1447 TCGA-15-1449 TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 
       19.10        53.19        13.28         3.91        26.07        16.37 
TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 
       11.77        21.90         0.66        10.75         9.07         5.95 
TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 
        4.64        31.33        14.86         5.49         1.58         7.92 
TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 
        2.33         7.30         5.26        11.28        17.88        14.53 
TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5216 TCGA-28-5220 TCGA-28-6450 
       11.77        31.27        23.44        13.64        12.76         5.42 
TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 
        7.36        11.38         5.42         3.75         1.61        17.72 
TCGA-87-5896 
       26.30 

  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
             0.10              0.03 
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
           146.14            211.17 
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
            19.23             15.65 
[1] "0.1 - 146.1 (19.2)" "0.0 - 211.2 (15.7)"
[1] "hr=" "1.2"
D16V2, continuous
D16V3, binary
                   cls
clus                  0   1
  8Q GAIN MUTATED    59  58
  8Q GAIN WILD-TYPE 514 454
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8Q GAIN MUTATED     59   58
  8Q GAIN WILD-TYPE  514  454
                        clus
vv                       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  BRAIN                               59               514
  CENTRAL NERVOUS SYSTEM              58               454
[1] 2 2
[1] FALSE
D16V4, binary
                   cls
clus                  0   1
  8Q GAIN MUTATED    51  66
  8Q GAIN WILD-TYPE 402 566
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8Q GAIN MUTATED     51   66
  8Q GAIN WILD-TYPE  402  566
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  FEMALE              51               402
  MALE                66               566
[1] 2 2
[1] FALSE
D16V5, binary
                   cls
clus                  0   1
  8Q GAIN MUTATED    21  87
  8Q GAIN WILD-TYPE 237 683
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8Q GAIN MUTATED     21   87
  8Q GAIN WILD-TYPE  237  683
     clus
vv    8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  NO               21               237
  YES              87               683
[1] 2 2
[1] FALSE
D16V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  8Q GAIN MUTATED            28                             1               15
  8Q GAIN WILD-TYPE         166                            29              114
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  8Q GAIN MUTATED                  15                   1
  8Q GAIN WILD-TYPE               174                  17
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  8Q GAIN MUTATED                                57
  8Q GAIN WILD-TYPE                             468
D16V7, multiclass
                                 clus
vv                                8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  ASTROCYTOMA                                  28               166
  GLIOBLASTOMA MULTIFORME (GBM)                 1                29
  OLIGOASTROCYTOMA                             15               114
  OLIGODENDROGLIOMA                            15               174
  TREATED PRIMARY GBM                           1                17
  UNTREATED PRIMARY (DE NOVO) GBM              57               468
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  8Q GAIN MUTATED                                  0     1
  8Q GAIN WILD-TYPE                                1    20
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  8Q GAIN MUTATED                          10   104
  8Q GAIN WILD-TYPE                        61   855
D16V8, multiclass
                                  clus
vv                                 8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          1                20
  BLACK OR AFRICAN AMERICAN                     10                61
  WHITE                                        104               855
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D16V9, binary
                   cls
clus                  0   1
  8Q GAIN MUTATED     8  95
  8Q GAIN WILD-TYPE  36 826
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8Q GAIN MUTATED      8   95
  8Q GAIN WILD-TYPE   36  826
                        clus
vv                       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  HISPANIC OR LATINO                   8                36
  NOT HISPANIC OR LATINO              95               826
[1] 2 2
[1] FALSE

Clustering(17) Variable = 9P GAIN MUTATION ANALYSIS
D17V1, survival
                   sevent
clus2                 0   1
  9P GAIN MUTATED    20  44
  9P GAIN WILD-TYPE 460 554
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
               64              1014 
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
               44               554 
$`9P GAIN MUTATED`
TCGA-CS-6665 TCGA-DU-A76O TCGA-06-5408 TCGA-06-5416 TCGA-12-3646 TCGA-14-0790 
       51.55        17.16        11.74         6.71        44.02        13.78 
TCGA-14-0812 TCGA-19-1392 TCGA-19-4065 TCGA-26-5136 TCGA-27-1834 TCGA-27-1838 
        3.25         3.65         7.04        18.97        40.54        11.51 
TCGA-28-1751 TCGA-28-2509 TCGA-32-1979 TCGA-32-2615 TCGA-41-3915 TCGA-76-4934 
        7.63         4.77        19.50        15.95        11.84         2.53 
TCGA-CS-5396 TCGA-DB-A4XE TCGA-DU-7010 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8165 
       53.62        37.45        14.99         5.10        23.74        19.13 
TCGA-DU-A5TT TCGA-E1-5302 TCGA-HT-7474 TCGA-HT-7483 TCGA-HT-A61B TCGA-S9-A6WH 
       24.43        50.14         3.75       172.77        17.52        38.56 
TCGA-S9-A6WM TCGA-TM-A7C4 TCGA-TQ-A7RM TCGA-02-0001 TCGA-02-0025 TCGA-02-0051 
       19.86        48.33        36.69        11.77        42.74        15.09 
TCGA-02-0052 TCGA-02-0069 TCGA-02-0074 TCGA-02-0266 TCGA-02-0281 TCGA-02-0325 
       12.59        28.70        10.19        17.72         3.98        10.62 
TCGA-02-0332 TCGA-02-0456 TCGA-06-0129 TCGA-06-0195 TCGA-06-0216 TCGA-06-0410 
       25.71         3.35        33.67         7.40        24.16         4.70 
TCGA-06-0414 TCGA-06-0644 TCGA-06-1087 TCGA-06-2569 TCGA-08-0386 TCGA-12-0691 
       35.11        12.62         4.04         0.43        18.02        12.13 
TCGA-12-0773 TCGA-12-1096 TCGA-14-0817 TCGA-14-0867 TCGA-15-1449 TCGA-19-0962 
       43.23         9.11         5.39         2.04        13.28         0.66 
TCGA-28-5204 TCGA-28-5215 TCGA-28-5216 TCGA-76-6280 
       14.93        11.01        13.64        11.38 

$`9P GAIN WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        1.48         3.98        46.88        46.72        31.82        42.05 
TCGA-DU-7300 TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 TCGA-FG-A87N 
       62.01        23.90        20.09        17.82        20.45        18.64 
TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 TCGA-06-5410 
       21.40        45.60        42.77        59.38        15.32         3.55 
TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 TCGA-06-5418 
        8.35         4.54         8.81         8.98         8.55         2.73 
TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 
        3.75         6.15         4.57         5.23         8.32        12.85 
TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 
        4.77         1.55         4.77         4.96        26.79         1.87 
TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 
        3.12         2.56        14.60        17.72        15.35        21.73 
TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 TCGA-12-1602 TCGA-12-3644 TCGA-12-3648 
       15.65        25.68        14.73         6.77        59.77        26.93 
TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 
       15.22        10.95        12.69        34.92        14.53        14.93 
TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 
        3.22         2.04        15.12        11.97         0.95         6.21 
TCGA-14-0786 TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 
       23.05         2.89        16.50        26.33        15.95         1.38 
TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 
        1.12         3.75        32.05        58.78        23.11         7.10 
TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 
        1.15        30.18         0.92        40.96         6.67        12.43 
TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 
        0.99         1.97        17.79        17.85         7.63         5.88 
TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-3477 TCGA-14-4157 TCGA-16-0848 
        7.17        17.49         7.96         3.78         3.42        17.59 
TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 
       29.03         4.57        10.29        14.01         9.14        21.24 
TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 
       13.97         6.41         8.61        14.27         3.39        25.38 
TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 
        7.17        12.66         3.25         0.13         9.67         4.87 
TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 
        1.08         7.53         0.16         4.08        24.23         7.00 
TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 
        6.64        17.19         8.02        18.90         4.73        12.10 
TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I 
        1.78        22.49        14.07        16.80        14.96        17.79 
TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 
       28.54        10.03        13.87         9.73         7.13         9.37 
TCGA-26-5132 TCGA-26-5135 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 
        9.40         8.88        19.33         5.06        16.60         9.86 
TCGA-27-1833 TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-2518 TCGA-27-2519 
       24.23        21.30        30.05        14.04        24.76        18.08 
TCGA-27-2521 TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 
       16.77        16.08         7.59         2.86        14.40        15.78 
TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1752 TCGA-28-1753 
        0.20         2.53         9.21         8.35         8.48         1.22 
TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-32-1970 
        1.55         2.83         0.13         0.66         6.74        15.39 
TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1980 TCGA-32-1982 
       21.07         0.49         0.10        15.85         1.18         4.67 
TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 
       12.69        14.86        16.93        12.23        20.78        15.02 
TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 
        8.84        22.78        25.18        21.14         3.72        12.59 
TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 
       19.86        10.85        19.23         0.85        13.35         8.94 
TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 
        9.53         0.99         4.44         0.20        15.12        12.46 
TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 
        4.08         1.45        25.58         3.45        20.91         4.34 
TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 
       14.33         8.22         7.50         4.80         4.54         3.09 
TCGA-76-4929 TCGA-76-4931 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 
        3.65         9.17        36.85        16.70         3.29         2.70 
TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 
       17.06         8.35        20.98         4.83         5.03        23.90 
TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC 
       34.45        18.64        36.20         5.92         6.28        20.55 
TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 
      117.50         7.69        43.89        36.36        60.10        40.18 
TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 
        0.26        21.01         6.38        17.69        26.76        37.38 
TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 
       46.95        48.30        49.94        49.12       122.73        81.96 
TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 
       75.25        47.93        72.92        50.86        91.13        44.52 
TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD 
       36.56        78.28        46.42        18.84        30.21        39.78 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        30.12 
TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W 
        5.98        31.40        27.45        27.81        29.23        14.40 
TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D 
       19.96        63.88        46.06        24.59        30.21        27.81 
TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU 
       17.19        17.19        54.25        23.21        17.46        13.71 
TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 
       18.61        18.02        14.56        17.46         6.74        13.38 
TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 
        8.45         6.81       182.33        18.94        17.49        15.16 
TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 
      211.17        52.11        22.42        49.02        75.16        46.06 
TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       65.75         1.22        87.45         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 
       19.89        16.83        94.52       114.08         7.96         2.40 
TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7011 TCGA-DU-7012 
       11.47        62.96       156.23       154.36       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        8.84       117.40        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 
        7.96        94.32        18.94        44.02        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 
       23.31        41.98         2.76        14.60        20.68        21.40 
TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS 
       16.96        15.48        14.17        33.27        29.85        31.69 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 
       20.98        22.29        11.41        26.76        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
      139.04        84.33        51.52        37.38         7.50        44.42 
TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 
       38.89         0.56        67.46        41.13        79.99        57.93 
TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE 
      134.27        78.21        95.57       130.78        14.30        29.13 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       93.21         3.65        19.46        12.43        16.18        21.30 
TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW 
       75.02        51.88        15.32         0.76        32.45        36.82 
TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 
      146.14        13.08        73.48       145.05        32.35        39.48 
TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 
        0.23         0.20        47.77        25.48        52.21        36.82 
TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 
       18.77        14.93        42.54        41.33        18.44        15.35 
TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 
       17.88        22.55        20.61        20.09        28.34        13.68 
TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT 
       14.24        16.01        14.96        22.52        32.61        38.27 
TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L 
       10.72        18.38        18.71        23.70        14.76        21.53 
TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 
       15.02        16.44        22.26        28.54        10.78        36.66 
TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 
       48.69         5.72        27.52         0.10         6.67        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7475 TCGA-HT-7476 
       40.11         0.13         0.03        16.54        17.42         6.54 
TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 
       24.26         6.38        40.34        75.19        95.93       106.95 
TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 
        4.01         5.03        29.85        23.18       122.47         4.57 
TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 
       17.29         3.16        22.06        45.99        56.09        57.60 
TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
        0.23        14.27         0.16        16.24         0.76        44.68 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 
        6.05        42.74         0.10        31.69        14.96         0.10 
TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 
        0.10         2.96        17.52         6.90        14.53        39.48 
TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 
       19.23        39.09         0.23        50.63         0.49        23.61 
TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
       37.15         0.33         0.13         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 
        3.72        11.28        31.43         1.64        16.24         9.40 
TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 
       63.55         0.10        37.87        33.01        12.23         6.25 
TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 
        0.10         0.46         2.50         5.56        13.78         0.23 
TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV 
       29.59        34.19        28.27        15.72         0.23        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC 
        0.13        20.22         0.07        27.35         0.10         5.33 
TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61C 
        2.70        16.93         1.81        16.14        16.83        17.65 
TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
        2.43        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 
       45.44        41.49        68.32        69.27        35.44        39.75 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL 
       40.01        42.54        24.92        31.63        12.76        28.87 
TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW 
       20.71        19.00        14.40        14.40         0.23         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        7.99         2.37         2.30         9.44         5.88         7.96 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        7.59         1.28         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       19.20         3.45         2.37         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV 
       12.62        15.85        14.04        19.33        14.83        14.53 
TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 
       13.61        12.23        13.41         9.17        10.29        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       16.34        16.73         1.91        16.50        16.70        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y 
       12.99        88.83        94.03        32.65        30.87         5.46 
TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS 
        9.90        28.08         2.07        19.59        30.67        62.17 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ 
       87.12        18.77        41.10        40.93        35.38        36.82 
TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       24.39        25.81        29.85        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       95.93         5.85       123.65        75.25       135.22        85.55 
TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ 
       84.99        31.10        26.47        18.61        18.64        14.07 
TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 
       36.13         7.92        26.93        23.51        19.99        20.02 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY 
        8.19         2.04        20.68        15.06        18.54        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 
       27.16       169.84        10.39        99.06        30.05        98.63 
TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C5 TCGA-TM-A7CA 
       31.59        18.71        20.48        54.77        49.32        34.78 
TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H 
       65.39        24.92        16.18        59.05        40.64        30.44 
TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q 
       28.08        24.16        40.83        24.79        33.24        25.38 
TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH 
       18.61        14.93        23.80        21.37        19.69        15.98 
TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP 
        2.04        40.41        44.09        33.73        31.20        30.05 
TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE 
       26.14        25.87        33.93        61.41        26.99        31.36 
TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE 
       45.93        43.20        13.51         0.10         7.89        39.16 
TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI 
       20.02        23.47        37.05        16.01        23.21         8.05 
TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B 
       51.06        13.32        43.96        39.88        43.40        45.80 
TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 TCGA-02-0003 TCGA-02-0006 
       46.88        37.71        20.81         7.63         4.73        18.35 
TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 
       23.18        10.59        35.41        20.71        82.59        20.61 
TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 TCGA-02-0026 TCGA-02-0027 
       87.06        77.65        20.12        53.10        24.59        12.16 
TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 
       90.58         2.83        14.14         3.62        10.72        10.52 
TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 TCGA-02-0054 TCGA-02-0055 
       18.31         6.87        14.73         3.22         6.54         2.50 
TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 
       19.86         8.35         9.57         6.02        19.73        26.43 
TCGA-02-0070 TCGA-02-0071 TCGA-02-0075 TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 
       25.05         5.49        20.84        27.25        89.72        22.72 
TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 
       12.62        51.32         8.81        57.76        16.96         3.48 
TCGA-02-0102 TCGA-02-0104 TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 TCGA-02-0113 
       27.02        65.00        11.67        17.65        23.18        92.65 
TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0269 
       99.98        15.65        48.95        16.54        16.93        10.75 
TCGA-02-0271 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 
       14.47        13.87        14.20        15.95        12.23         9.90 
TCGA-02-0324 TCGA-02-0326 TCGA-02-0330 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 
        7.73         7.33        15.91         4.37        25.12        10.59 
TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 
       12.39        14.50        10.55        47.11        11.34         9.27 
TCGA-02-0451 TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 
       16.21        16.80        12.92        15.32        15.45        20.32 
TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 
        2.70         6.15        20.38        47.61         6.94         3.98 
TCGA-06-0128 TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 
       22.72        12.95        25.35        14.30        26.70        24.23 
TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 
       11.90         0.20        10.29         2.20        11.74         2.33 
TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 
       20.09        17.79        10.09         8.61        19.46        46.59 
TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 
       12.33        13.94        10.45         3.19        10.82         9.44 
TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 
       11.80         3.42        56.91        10.65         5.85        19.66 
TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 
        3.29        13.12         4.47         3.22         4.04        91.00 
TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 
        4.18        88.14        20.25         3.65        69.90        73.84 
TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 
       27.22        44.58        15.42        10.42        38.96         4.67 
TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 
        5.56         0.39         7.66         8.42         7.40        11.84 
TCGA-06-0213 TCGA-06-0214 TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 TCGA-06-0238 
        0.53        15.02         0.72        19.82        13.64        13.32 
TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 
       20.42        48.69        10.82         9.01         0.26        72.36 
TCGA-06-0412 TCGA-06-0413 TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 
        9.57         3.16         5.75         5.75         9.80         2.10 
TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 
       23.57        14.20        26.40        46.88         7.86         2.70 
TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 
        2.70         0.92        43.46        46.19         7.17        40.41 
TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1800 
       16.57        20.78        26.76        23.93         6.84        26.79 
TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 
       11.84        15.32        13.61        33.90         1.08        12.49 
TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 
        4.93        17.65        12.56        30.64         5.95        16.64 
TCGA-06-2566 TCGA-06-2567 TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 
        5.98         4.37        31.50         7.79         5.39       120.56 
TCGA-06-6694 TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 
        7.36        22.68        37.84         4.18       115.86         1.74 
TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 
        8.42        25.71        12.16         9.80        29.23        65.33 
TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 
        1.28         8.42        17.95        24.56        31.10        37.58 
TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0389 TCGA-08-0390 
       22.29         3.39        12.23        14.93        15.35        13.97 
TCGA-08-0392 TCGA-08-0509 TCGA-08-0510 TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 
        0.72        12.56         4.27        42.15        11.08        19.59 
TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 
       58.68        19.33        10.75         4.80         7.27        15.98 
TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 
       18.41         7.56        14.73        12.99        34.92        10.45 
TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 
        7.59        94.78         0.10        38.17        25.97        26.66 
TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0775 
        3.65        20.38        28.41        15.06        53.85         7.63 
TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 
        9.73        14.93        14.86        91.76        24.79        18.48 
TCGA-12-0821 TCGA-12-0822 TCGA-12-0826 TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 
       10.62        23.51        27.78        38.76         8.94        20.58 
TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 
      127.59         5.82         7.59        33.21        15.98        12.23 
TCGA-12-1095 TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 
       15.85        14.53         3.98         4.14         2.24        11.24 
TCGA-14-0813 TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 
        1.35        28.93        19.30         0.79        13.78        50.53 
TCGA-15-1446 TCGA-15-1447 TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 
       19.10        53.19         3.91        26.07        16.37        11.77 
TCGA-19-0957 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1388 TCGA-19-1389 
       21.90        10.75         9.07         5.95        12.95         4.64 
TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 
       31.33        14.86         5.49         1.58         7.92         2.33 
TCGA-28-2513 TCGA-28-2514 TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 
        7.30         5.26        11.28        17.88        14.53        11.77 
TCGA-28-5213 TCGA-28-5214 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 
       31.27        23.44         5.16        22.68        12.76         5.42 
TCGA-32-2616 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        7.36         5.42         3.75         1.61        17.72        26.30 

  9P GAIN MUTATED 9P GAIN WILD-TYPE 
             0.43              0.03 
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
           172.77            211.17 
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
            13.71             16.16 
[1] "0.4 - 172.8 (13.7)" "0.0 - 211.2 (16.2)"
[1] "hr=" "1.4"
D17V2, continuous
D17V3, binary
                   cls
clus                  0   1
  9P GAIN MUTATED    47  17
  9P GAIN WILD-TYPE 526 495
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9P GAIN MUTATED     47   17
  9P GAIN WILD-TYPE  526  495
                        clus
vv                       9P GAIN MUTATED 9P GAIN WILD-TYPE
  BRAIN                               47               526
  CENTRAL NERVOUS SYSTEM              17               495
[1] 2 2
[1] FALSE
D17V4, binary
                   cls
clus                  0   1
  9P GAIN MUTATED    34  30
  9P GAIN WILD-TYPE 419 602
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9P GAIN MUTATED     34   30
  9P GAIN WILD-TYPE  419  602
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  FEMALE              34               419
  MALE                30               602
[1] 2 2
[1] FALSE
D17V5, binary
                   cls
clus                  0   1
  9P GAIN MUTATED    10  50
  9P GAIN WILD-TYPE 248 720
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9P GAIN MUTATED     10   50
  9P GAIN WILD-TYPE  248  720
     clus
vv    9P GAIN MUTATED 9P GAIN WILD-TYPE
  NO               10               248
  YES              50               720
[1] 2 2
[1] FALSE
D17V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  9P GAIN MUTATED             8                             0                6
  9P GAIN WILD-TYPE         186                            30              123
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  9P GAIN MUTATED                   3                   0
  9P GAIN WILD-TYPE               186                  18
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  9P GAIN MUTATED                                47
  9P GAIN WILD-TYPE                             478
D17V7, multiclass
                                 clus
vv                                9P GAIN MUTATED 9P GAIN WILD-TYPE
  ASTROCYTOMA                                   8               186
  GLIOBLASTOMA MULTIFORME (GBM)                 0                30
  OLIGOASTROCYTOMA                              6               123
  OLIGODENDROGLIOMA                             3               186
  TREATED PRIMARY GBM                           0                18
  UNTREATED PRIMARY (DE NOVO) GBM              47               478
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  9P GAIN MUTATED                                  0     2
  9P GAIN WILD-TYPE                                1    19
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  9P GAIN MUTATED                           2    59
  9P GAIN WILD-TYPE                        69   900
D17V8, multiclass
                                  clus
vv                                 9P GAIN MUTATED 9P GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          2                19
  BLACK OR AFRICAN AMERICAN                      2                69
  WHITE                                         59               900
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D17V9, binary
                   cls
clus                  0   1
  9P GAIN MUTATED     3  52
  9P GAIN WILD-TYPE  41 869
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9P GAIN MUTATED      3   52
  9P GAIN WILD-TYPE   41  869
                        clus
vv                       9P GAIN MUTATED 9P GAIN WILD-TYPE
  HISPANIC OR LATINO                   3                41
  NOT HISPANIC OR LATINO              52               869
[1] 2 2
[1] FALSE

Clustering(18) Variable = 9Q GAIN MUTATION ANALYSIS
D18V1, survival
                   sevent
clus2                 0   1
  9Q GAIN MUTATED    27  68
  9Q GAIN WILD-TYPE 453 530
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
               95               983 
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
               68               530 
$`9Q GAIN MUTATED`
TCGA-CS-6665 TCGA-DU-A76O TCGA-FG-A87N TCGA-06-5408 TCGA-12-3646 TCGA-12-5299 
       51.55        17.16        18.64        11.74        44.02         3.22 
TCGA-14-0790 TCGA-14-0812 TCGA-14-1821 TCGA-19-1392 TCGA-19-4065 TCGA-19-A6J5 
       13.78         3.25        17.79         3.65         7.04        28.54 
TCGA-26-5136 TCGA-27-1834 TCGA-27-1838 TCGA-28-1751 TCGA-28-2509 TCGA-32-1976 
       18.97        40.54        11.51         7.63         4.77         0.49 
TCGA-32-1979 TCGA-32-1991 TCGA-32-2495 TCGA-32-2615 TCGA-41-2573 TCGA-41-3915 
       19.50        16.93        15.02        15.95         8.94        11.84 
TCGA-76-4934 TCGA-76-4935 TCGA-CS-5396 TCGA-DB-A4XE TCGA-DU-7010 TCGA-DU-7298 
        2.53        36.85        53.62        37.45        14.99        18.94 
TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8165 TCGA-DU-A5TT TCGA-E1-5302 TCGA-E1-A7Z3 
        5.10        23.74        19.13        24.43        50.14        73.48 
TCGA-FG-A4MY TCGA-FG-A6J3 TCGA-HT-7483 TCGA-HT-A61B TCGA-HW-8319 TCGA-S9-A6TW 
       23.70        22.26       172.77        17.52        39.75        41.10 
TCGA-S9-A6WH TCGA-S9-A6WM TCGA-S9-A7QW TCGA-TQ-A7RM TCGA-WY-A85E TCGA-02-0001 
       38.56        19.86        15.06        36.69        20.81        11.77 
TCGA-02-0025 TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0069 TCGA-02-0074 
       42.74        15.09        12.59         6.54        28.70        10.19 
TCGA-02-0106 TCGA-02-0114 TCGA-02-0266 TCGA-02-0281 TCGA-02-0325 TCGA-02-0332 
       11.67        99.98        17.72         3.98        10.62        25.71 
TCGA-02-0456 TCGA-06-0129 TCGA-06-0166 TCGA-06-0175 TCGA-06-0185 TCGA-06-0195 
        3.35        33.67         5.85         4.04        73.84         7.40 
TCGA-06-0216 TCGA-06-0410 TCGA-06-0413 TCGA-06-0414 TCGA-06-0644 TCGA-06-1087 
       24.16         4.70         3.16        35.11        12.62         4.04 
TCGA-06-2562 TCGA-06-2569 TCGA-08-0386 TCGA-12-0618 TCGA-12-0691 TCGA-12-0773 
       12.56         0.43        18.02        12.99        12.13        43.23 
TCGA-12-0776 TCGA-12-0818 TCGA-12-0827 TCGA-12-1088 TCGA-12-1096 TCGA-12-1098 
        9.73        91.76        38.76       127.59         9.11         3.98 
TCGA-14-0813 TCGA-14-0817 TCGA-14-0867 TCGA-15-1449 TCGA-19-0962 TCGA-26-6174 
        1.35         5.39         2.04        13.28         0.66         2.33 
TCGA-28-5204 TCGA-28-5215 TCGA-28-5216 TCGA-76-6280 TCGA-76-6660 
       14.93        11.01        13.64        11.38         3.75 

$`9Q GAIN WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        1.48         3.98        46.88        46.72        31.82        42.05 
TCGA-DU-7300 TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 TCGA-HT-A619 
       62.01        23.90        20.09        17.82        20.45        21.40 
TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 TCGA-06-5410 TCGA-06-5411 
       45.60        42.77        59.38        15.32         3.55         8.35 
TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 
        4.54         8.81         8.98         8.55         6.71         2.73 
TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 
        3.75         6.15         4.57         5.23         8.32        12.85 
TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 
        4.77         1.55         4.77         4.96        26.79         1.87 
TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 
        3.12         2.56        14.60        17.72        15.35        21.73 
TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 TCGA-12-1602 TCGA-12-3644 TCGA-12-3648 
       15.65        25.68        14.73         6.77        59.77        26.93 
TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 
       15.22        10.95        12.69        34.92        14.53        14.93 
TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 
        2.04        15.12        11.97         0.95         6.21        23.05 
TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 
        2.89        16.50        26.33        15.95         1.38         1.12 
TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 
        3.75        32.05        58.78        23.11         7.10         1.15 
TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1794 
       30.18         0.92        40.96         6.67        12.43         0.99 
TCGA-14-1795 TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 
        1.97        17.85         7.63         5.88         7.17        17.49 
TCGA-14-2555 TCGA-14-3477 TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 
        7.96         3.78         3.42        17.59        29.03         4.57 
TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 
       10.29        14.01         9.14        21.24        13.97         6.41 
TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 TCGA-19-1786 TCGA-19-1787 
        8.61        14.27         3.39        25.38         7.17        12.66 
TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 
        3.25         0.13         9.67         4.87         1.08         7.53 
TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 TCGA-19-5947 TCGA-19-5950 
        0.16         4.08        24.23         7.00         6.64        17.19 
TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 
        8.02        18.90         4.73        12.10         1.78        22.49 
TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-26-1438 TCGA-26-1439 
       14.07        16.80        14.96        17.79        10.03        13.87 
TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-A7UX 
        9.73         7.13         9.37         9.40         8.88        19.33 
TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1835 TCGA-27-1836 
        5.06        16.60         9.86        24.23        21.30        30.05 
TCGA-27-1837 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 TCGA-27-2524 
       14.04        24.76        18.08        16.77        16.08         7.59 
TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 
        2.86        14.40        15.78         0.20         2.53         9.21 
TCGA-28-1750 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 
        8.35         8.48         1.22         1.55         2.83         0.13 
TCGA-28-2502 TCGA-28-2506 TCGA-32-1970 TCGA-32-1973 TCGA-32-1977 TCGA-32-1978 
        0.66         6.74        15.39        21.07         0.10        15.85 
TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-2491 TCGA-32-2494 
        1.18         4.67        12.69        14.86        12.23        20.78 
TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 
        8.84        22.78        25.18        21.14         3.72        12.59 
TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2575 
       19.86        10.85        19.23         0.85        13.35         9.53 
TCGA-41-3392 TCGA-41-3393 TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R 
        0.99         4.44         0.20        15.12        12.46         4.08 
TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 
        1.45        25.58         3.45        20.91         4.34        14.33 
TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 
        8.22         7.50         4.80         4.54         3.09         3.65 
TCGA-76-4931 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 
        9.17        16.70         3.29         2.70        17.06         8.35 
TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 
       20.98         4.83         5.03        23.90        34.45        18.64 
TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 
       36.20         5.92         6.28        20.55       117.50         7.69 
TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 
       43.89        36.36        60.10        40.18         0.26        21.01 
TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 
        6.38        17.69        26.76        37.38        46.95        48.30 
TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.94        49.12       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XF TCGA-DB-A4XG 
       46.42        18.84        30.21        39.78        33.57        72.95 
TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R 
       31.63        24.20        25.48        30.12         5.98        31.40 
TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K 
       27.45        27.81        29.23        14.40        18.51        12.10 
TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 
       11.24        17.88        30.74        16.18        19.96        63.88 
TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G 
       46.06        24.59        30.21        27.81        17.19        17.19 
TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 
       54.25        23.21        17.46        13.71        18.61        18.02 
TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 
       14.56        17.46         6.74        13.38         8.45         6.81 
TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 
      182.33        18.94        17.49        15.16       211.17        52.11 
TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 
       22.42        49.02        75.16        46.06        65.75         1.22 
TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 
       87.45         7.04        11.64       133.74        19.89        16.83 
TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 
       94.52       114.08         7.96         2.40        11.47        62.96 
TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 
      156.23       154.36       105.21         6.54         8.84       117.40 
TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 
       90.77        30.67        26.30        10.36         7.96        94.32 
TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 
       44.02        25.91        60.30        23.31        41.98         2.76 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       14.60        20.68        21.40        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY 
       33.27        29.85        31.69        26.17        24.99        33.96 
TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K 
       25.55        21.57        95.11        20.98        22.29        11.41 
TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB 
       26.76        21.30        17.98       139.04        84.33        51.52 
TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5303 
       37.38         7.50        44.42        38.89         0.56        67.46 
TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 
       41.13        79.99        57.93       134.27        78.21        95.57 
TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ 
      130.78        14.30        29.13        93.21         3.65        19.46 
TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS 
       12.43        16.18        21.30        75.02        51.88        15.32 
TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z4 
        0.76        32.45        36.82       146.14        13.08       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       18.44        15.35        17.88        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 
       28.34        13.68        14.24        16.01        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A60J 
       32.61        38.27        10.72        18.38        18.71        14.76 
TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 
       21.53        15.02        16.44        28.54        10.78        36.66 
TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 
       48.69         5.72        27.52         0.10         6.67        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
        6.54        24.26         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      106.95         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
        4.57        17.29         3.16        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       57.60         0.23        14.27         0.16        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 
       44.68         6.05        42.74         0.10        31.69        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
        0.10         0.10         2.96        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 
       39.48        19.23        39.09         0.23        50.63         0.49 
TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
       23.61        37.15         0.33         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 
       35.47         3.72        11.28        31.43         1.64        16.24 
TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 
        9.40        63.55         0.10        37.87        33.01        12.23 
TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 
        6.25         0.10         0.46         2.50         5.56        13.78 
TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS 
        0.23        29.59        34.19        28.27        15.72         0.23 
TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB 
       26.04         0.13        20.22         0.07        27.35         0.10 
TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 
        5.33         2.70        16.93         1.81        16.14        16.83 
TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O 
       17.65         2.43        10.52        15.35        11.05         0.10 
TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 
       56.58        45.44        41.49        68.32        69.27        35.44 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL 
       40.01        42.54        24.92        31.63        12.76        28.87 
TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW 
       20.71        19.00        14.40        14.40         0.23         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        7.99         2.37         2.30         9.44         5.88         7.96 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        7.59         1.28         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       19.20         3.45         2.37         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV 
       12.62        15.85        14.04        19.33        14.83        14.53 
TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 
       13.61        12.23        13.41         9.17        10.29        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       16.34        16.73         1.91        16.50        16.70        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y 
       12.99        88.83        94.03        32.65        30.87         5.46 
TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS 
        9.90        28.08         2.07        19.59        30.67        62.17 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       87.12        18.77        40.93        35.38        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 
       25.81        29.85        32.61        35.15        98.24        95.93 
TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WI 
        5.85       123.65        75.25       135.22        85.55        84.99 
TCGA-S9-A6WL TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ 
       31.10        26.47        18.61        18.64        14.07        36.13 
TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 
        7.92        26.93        23.51        19.99        20.02         8.19 
TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 
        2.04        20.68        18.54        28.37        27.16       169.84 
TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V 
       10.39        99.06        30.05        98.63        31.59        18.71 
TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF 
       20.48        54.77        48.33        49.32        34.78        65.39 
TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I 
       24.92        16.18        59.05        40.64        30.44        28.08 
TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R 
       24.16        40.83        24.79        33.24        25.38        18.61 
TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI 
       14.93        23.80        21.37        19.69        15.98         2.04 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ 
       40.41        44.09        33.73        31.20        30.05        26.14 
TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 
       25.87        33.93        61.41        26.99        31.36        45.93 
TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF 
       43.20        13.51         0.10         7.89        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 
       23.47        37.05        16.01        23.21         8.05        51.06 
TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C 
       13.32        43.96        39.88        43.40        45.80        46.88 
TCGA-WY-A85D TCGA-06-0209 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 
       37.71         7.63         4.73        18.35        23.18        10.59 
TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 
       35.41        20.71        82.59        20.61        87.06        77.65 
TCGA-02-0023 TCGA-02-0024 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 
       20.12        53.10        24.59        12.16        90.58         2.83 
TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 
       14.14         3.62        10.72        10.52        18.31         6.87 
TCGA-02-0047 TCGA-02-0048 TCGA-02-0055 TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 
       14.73         3.22         2.50        19.86         8.35         9.57 
TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0070 TCGA-02-0071 TCGA-02-0075 
        6.02        19.73        26.43        25.05         5.49        20.84 
TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 
       27.25        89.72        22.72        12.62        51.32         8.81 
TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0107 
       57.76        16.96         3.48        27.02        65.00        17.65 
TCGA-02-0111 TCGA-02-0113 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 
       23.18        92.65        15.65        48.95        16.54        16.93 
TCGA-02-0269 TCGA-02-0271 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 
       10.75        14.47        13.87        14.20        15.95        12.23 
TCGA-02-0321 TCGA-02-0324 TCGA-02-0326 TCGA-02-0330 TCGA-02-0333 TCGA-02-0337 
        9.90         7.73         7.33        15.91         4.37        25.12 
TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 
       10.59        12.39        14.50        10.55        47.11        11.34 
TCGA-02-0446 TCGA-02-0451 TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 
        9.27        16.21        16.80        12.92        15.32        15.45 
TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 
       20.32         2.70         6.15        20.38        47.61         6.94 
TCGA-06-0127 TCGA-06-0128 TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 
        3.98        22.72        12.95        25.35        14.30        26.70 
TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 
       24.23        11.90         0.20        10.29         2.20        11.74 
TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 
        2.33        20.09        17.79        10.09         8.61        19.46 
TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 
       46.59        12.33        13.94        10.45         3.19        10.82 
TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 TCGA-06-0168 
        9.44        11.80         3.42        56.91        10.65        19.66 
TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 TCGA-06-0176 TCGA-06-0177 
        3.29        13.12         4.47         3.22        91.00         4.18 
TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 TCGA-06-0187 TCGA-06-0188 
       88.14        20.25         3.65        69.90        27.22        44.58 
TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0197 TCGA-06-0201 
       15.42        10.42        38.96         4.67         5.56         0.39 
TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 
        7.66         8.42         7.40        11.84         0.53        15.02 
TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 
        0.72        19.82        13.64        13.32        20.42        48.69 
TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 TCGA-06-0412 TCGA-06-0645 
       10.82         9.01         0.26        72.36         9.57         5.75 
TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 
        5.75         9.80         2.10        23.57        14.20        26.40 
TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 
       46.88         7.86         2.70         2.70         0.92        43.46 
TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 
       46.19         7.17        40.41        16.57        20.78        26.76 
TCGA-06-1084 TCGA-06-1086 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 
       23.93         6.84        26.79        11.84        15.32        13.61 
TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2563 
       33.90         1.08        12.49         4.93        17.65        30.64 
TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2570 TCGA-06-6389 
        5.95        16.64         5.98         4.37        31.50         7.79 
TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 
        5.39       120.56         7.36        22.68        37.84         4.18 
TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 
      115.86         1.74         8.42        25.71        12.16         9.80 
TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 
       29.23        65.33         1.28         8.42        17.95        24.56 
TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 
       31.10        37.58        22.29         3.39        12.23        14.93 
TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 TCGA-08-0510 TCGA-08-0512 
       15.35        13.97         0.72        12.56         4.27        42.15 
TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 
       11.08        19.59        58.68        19.33        10.75         4.80 
TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0619 
        7.27        15.98        18.41         7.56        14.73        34.92 
TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 
       10.45         7.59        94.78         0.10        38.17        25.97 
TCGA-12-0688 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 
       26.66         3.65        20.38        28.41        15.06        53.85 
TCGA-12-0775 TCGA-12-0778 TCGA-12-0780 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 
        7.63        14.93        14.86        24.79        18.48        10.62 
TCGA-12-0822 TCGA-12-0826 TCGA-12-0828 TCGA-12-0829 TCGA-12-1089 TCGA-12-1090 
       23.51        27.78         8.94        20.58         5.82         7.59 
TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1097 TCGA-12-1099 
       33.21        15.98        12.23        15.85        14.53         4.14 
TCGA-14-0787 TCGA-14-0789 TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 
        2.24        11.24        28.93        19.30         0.79        13.78 
TCGA-15-1444 TCGA-15-1446 TCGA-15-1447 TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 
       50.53        19.10        53.19         3.91        26.07        16.37 
TCGA-19-0955 TCGA-19-0957 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1388 
       11.77        21.90        10.75         9.07         5.95        12.95 
TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 
        4.64        31.33        14.86         5.49         1.58         7.92 
TCGA-28-2513 TCGA-28-2514 TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 
        7.30         5.26        11.28        17.88        14.53        11.77 
TCGA-28-5213 TCGA-28-5214 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 
       31.27        23.44         5.16        22.68        12.76         5.42 
TCGA-32-2616 TCGA-76-6283 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        7.36         5.42         1.61        17.72        26.30 

  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
             0.43              0.03 
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
           172.77            211.17 
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
            14.99             16.14 
[1] "0.4 - 172.8 (15.0)" "0.0 - 211.2 (16.1)"
[1] "hr=" "1.4"
D18V2, continuous
D18V3, binary
                   cls
clus                  0   1
  9Q GAIN MUTATED    71  24
  9Q GAIN WILD-TYPE 502 488
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9Q GAIN MUTATED     71   24
  9Q GAIN WILD-TYPE  502  488
                        clus
vv                       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  BRAIN                               71               502
  CENTRAL NERVOUS SYSTEM              24               488
[1] 2 2
[1] FALSE
D18V4, binary
                   cls
clus                  0   1
  9Q GAIN MUTATED    51  44
  9Q GAIN WILD-TYPE 402 588
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9Q GAIN MUTATED     51   44
  9Q GAIN WILD-TYPE  402  588
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  FEMALE              51               402
  MALE                44               588
[1] 2 2
[1] FALSE
D18V5, binary
                   cls
clus                  0   1
  9Q GAIN MUTATED    15  75
  9Q GAIN WILD-TYPE 243 695
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9Q GAIN MUTATED     15   75
  9Q GAIN WILD-TYPE  243  695
     clus
vv    9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  NO               15               243
  YES              75               695
[1] 2 2
[1] FALSE
D18V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  9Q GAIN MUTATED            13                             2                7
  9Q GAIN WILD-TYPE         181                            28              122
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  9Q GAIN MUTATED                   4                   2
  9Q GAIN WILD-TYPE               185                  16
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  9Q GAIN MUTATED                                67
  9Q GAIN WILD-TYPE                             458
D18V7, multiclass
                                 clus
vv                                9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  ASTROCYTOMA                                  13               181
  GLIOBLASTOMA MULTIFORME (GBM)                 2                28
  OLIGOASTROCYTOMA                              7               122
  OLIGODENDROGLIOMA                             4               185
  TREATED PRIMARY GBM                           2                16
  UNTREATED PRIMARY (DE NOVO) GBM              67               458
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  9Q GAIN MUTATED                                  0     3
  9Q GAIN WILD-TYPE                                1    18
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  9Q GAIN MUTATED                           6    85
  9Q GAIN WILD-TYPE                        65   874
D18V8, multiclass
                                  clus
vv                                 9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          3                18
  BLACK OR AFRICAN AMERICAN                      6                65
  WHITE                                         85               874
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D18V9, binary
                   cls
clus                  0   1
  9Q GAIN MUTATED     4  78
  9Q GAIN WILD-TYPE  40 843
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9Q GAIN MUTATED      4   78
  9Q GAIN WILD-TYPE   40  843
                        clus
vv                       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  HISPANIC OR LATINO                   4                40
  NOT HISPANIC OR LATINO              78               843
[1] 2 2
[1] FALSE

Clustering(19) Variable = 10P GAIN MUTATION ANALYSIS
D19V1, survival
                    sevent
clus2                  0   1
  10P GAIN MUTATED    49  21
  10P GAIN WILD-TYPE 431 577
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                70               1008 
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                21                577 
$`10P GAIN MUTATED`
TCGA-CS-6665 TCGA-DH-A66B TCGA-FG-A87N TCGA-06-A7TL TCGA-14-3477 TCGA-32-2632 
       51.55        42.05        18.64        17.72         3.78         8.84 
TCGA-CS-5393 TCGA-CS-6667 TCGA-DB-5277 TCGA-DB-A75M TCGA-DH-A7UU TCGA-DH-A7UV 
       40.18        48.30        50.86        17.88        13.71        18.61 
TCGA-DU-6396 TCGA-DU-7014 TCGA-DU-7019 TCGA-DU-7299 TCGA-DU-7304 TCGA-DU-A5TR 
       75.16       117.40        26.30        44.02        23.31        29.85 
TCGA-DU-A5TS TCGA-E1-5304 TCGA-E1-5322 TCGA-E1-A7YI TCGA-E1-A7YK TCGA-E1-A7YW 
       31.69        41.13       130.78         3.65        12.43        36.82 
TCGA-FG-A4MY TCGA-FG-A60L TCGA-FG-A70Y TCGA-HT-7470 TCGA-HT-7473 TCGA-HT-7476 
       23.70        21.53        28.54        40.11        16.54         6.54 
TCGA-HT-7479 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7688 TCGA-HT-7879 TCGA-HT-8106 
       40.34       106.95       172.77        31.69         3.68         0.10 
TCGA-HT-8111 TCGA-HT-8114 TCGA-HT-A74O TCGA-HW-7493 TCGA-IK-7675 TCGA-P5-A5EZ 
        0.23        34.19         0.10        69.27        19.00         2.30 
TCGA-P5-A5F1 TCGA-P5-A72X TCGA-P5-A780 TCGA-QH-A6XA TCGA-RY-A83Z TCGA-S9-A7IS 
        5.88        13.25         2.37        16.50         9.90         7.92 
TCGA-S9-A7J0 TCGA-S9-A89Z TCGA-TM-A7CA TCGA-TM-A84H TCGA-TQ-A7RH TCGA-TQ-A7RV 
       20.02        20.48        34.78        30.44        15.98        61.41 
TCGA-VM-A8C8 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85E 
       45.93        13.32        43.96        39.88        43.40        20.81 
TCGA-02-0011 TCGA-02-0069 TCGA-02-0080 TCGA-02-0087 TCGA-02-0114 TCGA-06-2569 
       20.71        28.70        89.72        57.76        99.98         0.43 
TCGA-08-0350 TCGA-08-0351 TCGA-08-0517 TCGA-12-1099 
       29.23        65.33        58.68         4.14 

$`10P GAIN WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DU-7300 
        1.48         3.98        46.88        46.72        31.82        62.01 
TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 TCGA-HT-A619 
       17.16        23.90        20.09        17.82        20.45        21.40 
TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 TCGA-06-5408 TCGA-06-5410 
       45.60        42.77        59.38        15.32        11.74         3.55 
TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 TCGA-06-5416 
        8.35         4.54         8.81         8.98         8.55         6.71 
TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 
        2.73         3.75         6.15         4.57         5.23         8.32 
TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 
       12.85         4.77         1.55         4.77         4.96        26.79 
TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-12-0615 TCGA-12-1092 
        1.87         3.12         2.56        14.60        15.35        21.73 
TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 
       15.65        25.68        14.73         6.77        59.77        44.02 
TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 
       26.93        15.22        10.95        12.69        34.92        14.53 
TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 
       14.93         3.22         2.04        15.12        11.97         0.95 
TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 
        6.21        23.05        13.78         3.25         2.89        16.50 
TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 
       26.33        15.95         1.38         1.12         3.75        32.05 
TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 
       58.78        23.11         7.10         1.15        30.18         0.92 
TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 
       40.96         6.67        12.43         0.99         1.97        17.79 
TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 
       17.85         7.63         5.88         7.17        17.49         7.96 
TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 
        3.42        17.59        29.03         4.57        10.29        14.01 
TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 
        9.14        21.24        13.97         6.41         8.61        14.27 
TCGA-19-0964 TCGA-19-1390 TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 
        3.39        25.38         3.65         7.17        12.66         3.25 
TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 
        0.13         9.67         4.87         1.08         7.53         0.16 
TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 
        4.08        24.23         7.00         7.04         6.64        17.19 
TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 
        8.02        18.90         4.73        12.10         1.78        22.49 
TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 
       14.07        16.80        14.96        17.79        28.54        10.03 
TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 
       13.87         9.73         7.13         9.37         9.40         8.88 
TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 
       18.97        19.33         5.06        16.60         9.86        24.23 
TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 
       40.54        21.30        30.05        14.04        11.51        24.76 
TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 
       18.08        16.77        16.08         7.59         2.86        14.40 
TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 
       15.78         0.20         2.53         9.21         8.35         7.63 
TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 
        8.48         1.22         1.55         2.83         0.13         0.66 
TCGA-28-2506 TCGA-28-2509 TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 
        6.74         4.77        15.39        21.07         0.49         0.10 
TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 
       15.85        19.50         1.18         4.67        12.69        14.86 
TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 TCGA-32-2634 
       16.93        12.23        20.78        15.02        15.95        22.78 
TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 
       25.18        21.14         3.72        12.59        19.86        10.85 
TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 
       19.23         0.85        13.35         8.94         9.53         0.99 
TCGA-41-3393 TCGA-41-3915 TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R 
        4.44        11.84         0.20        15.12        12.46         4.08 
TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 
        1.45        25.58         3.45        20.91         4.34        14.33 
TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 
        8.22         7.50         4.80         4.54         3.09         3.65 
TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 
        9.17         2.53        36.85        16.70         3.29         2.70 
TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 
       17.06         8.35        20.98         4.83         5.03        23.90 
TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC 
       34.45        18.64        36.20         5.92         6.28        20.55 
TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5394 
      117.50         7.69        43.89        36.36        60.10         0.26 
TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 
       21.01        53.62         6.38        17.69        26.76        37.38 
TCGA-CS-6666 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 
       46.95        49.94        49.12       122.73        81.96        75.25 
TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       47.93        72.92        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       46.42        18.84        30.21        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 
       12.10        11.24        30.74        16.18        19.96        63.88 
TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G 
       46.06        24.59        30.21        27.81        17.19        17.19 
TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       54.25        23.21        17.46        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 
       17.49        15.16       211.17        52.11        22.42        49.02 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 
      133.74        19.89        16.83        94.52       114.08         7.96 
TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7290 
      105.21         6.54         8.84        90.77        30.67        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7306 
        7.96        94.32        18.94        25.91        60.30        41.98 
TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 
        2.76         5.10        23.74        14.60        20.68        21.40 
TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TT 
       19.13        16.96        15.48        14.17        33.27        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 
       20.98        22.29        11.41        26.76        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
      139.04        84.33        51.52        37.38         7.50        44.42 
TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5305 TCGA-E1-5307 
       38.89         0.56        50.14        67.46        79.99        57.93 
TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH 
      134.27        78.21        95.57        14.30        29.13        93.21 
TCGA-E1-A7YJ TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS 
       19.46        16.18        21.30        75.02        51.88        15.32 
TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
        0.76        32.45       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       18.44        15.35        17.88        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 
       28.34        13.68        14.24        16.01        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A60J 
       32.61        38.27        10.72        18.38        18.71        14.76 
TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 
       15.02        16.44        22.26        10.78        36.66        48.69 
TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7471 
        5.72        27.52         0.10         6.67        11.54         0.13 
TCGA-HT-7472 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7480 
        0.03         3.75        17.42        24.26         6.38        75.19 
TCGA-HT-7481 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
       95.93         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
        4.57        17.29         3.16        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       57.60         0.23        14.27         0.16        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7689 TCGA-HT-7690 
       44.68         6.05        42.74         0.10        14.96         0.10 
TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 
        0.10         2.96        17.52         6.90        14.53        39.48 
TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 
       19.23        39.09         0.23        50.63         0.49        23.61 
TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 
       37.15         0.33         0.13         5.33        35.47         3.72 
TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 
       11.28        31.43         1.64        16.24         9.40        63.55 
TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8107 
        0.10        37.87        33.01        12.23         6.25         0.46 
TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8113 TCGA-HT-8563 TCGA-HT-8564 
        2.50         5.56        13.78        29.59        28.27        15.72 
TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA 
        0.23        26.04         0.13        20.22         0.07        27.35 
TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 
        0.10         5.33         2.70        16.93         1.81        16.14 
TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K 
       16.83        17.52        17.65         2.43        10.52        15.35 
TCGA-HT-A74L TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7495 
       11.05        56.58        45.44        41.49        68.32        35.44 
TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK 
       39.75        40.01        42.54        24.92        31.63        12.76 
TCGA-HW-A5KL TCGA-HW-A5KM TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW 
       28.87        20.71        14.40        14.40         0.23         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5F0 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 
        7.99         2.37         9.44         7.96         7.59         1.28 
TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 
        0.23        10.42        11.64        10.95         9.01        13.61 
TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A781 
        9.60         7.56        12.23        19.20         3.45         4.41 
TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS 
       15.16         2.53        12.62        15.85        14.04        19.33 
TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ 
       14.83        14.53        13.61        12.23        13.41         9.17 
TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XC 
       10.29        14.53        16.34        16.73         1.91        16.70 
TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X 
       11.08        12.99        88.83        94.03        32.65        30.87 
TCGA-RY-A83Y TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS 
        5.46        28.08         2.07        19.59        30.67        62.17 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ 
       87.12        18.77        41.10        40.93        35.38        36.82 
TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       24.39        25.81        29.85        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       95.93         5.85       123.65        75.25       135.22        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO 
       38.56        84.99        31.10        19.86        26.47        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ 
       18.64        14.07        36.13        26.93        23.51        19.99 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY 
        8.19         2.04        20.68        15.06        18.54        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 
       27.16       169.84        10.39        99.06        30.05        98.63 
TCGA-S9-A7R8 TCGA-S9-A89V TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CF 
       31.59        18.71        54.77        48.33        49.32        65.39 
TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84I TCGA-TM-A84J 
       24.92        16.18        59.05        40.64        28.08        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       23.80        21.37        19.69         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       36.69        33.73        31.20        30.05        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB 
       33.93        26.99        31.36        43.20        13.51         0.10 
TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M 
        7.89        39.16        20.02        23.47        37.05        16.01 
TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D 
       23.21         8.05        51.06        45.80        46.88        37.71 
TCGA-06-0209 TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 
        7.63        11.77         4.73        18.35        23.18        10.59 
TCGA-02-0010 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 
       35.41        82.59        20.61        87.06        77.65        20.12 
TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 
       53.10        42.74        24.59        12.16        90.58         2.83 
TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 
       14.14         3.62        10.72        10.52        18.31         6.87 
TCGA-02-0047 TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0055 
       14.73         3.22        15.09        12.59         6.54         2.50 
TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 
       19.86         8.35         9.57         6.02        19.73        26.43 
TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 TCGA-02-0079 TCGA-02-0083 
       25.05         5.49        10.19        20.84        27.25        22.72 
TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 
       12.62        51.32         8.81        16.96         3.48        27.02 
TCGA-02-0104 TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 TCGA-02-0113 TCGA-02-0115 
       65.00        11.67        17.65        23.18        92.65        15.65 
TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 
       48.95        16.54        16.93        17.72        10.75        14.47 
TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 
        3.98        13.87        14.20        15.95        12.23         9.90 
TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 
        7.73        10.62         7.33        15.91        25.71         4.37 
TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 
       25.12        10.59        12.39        14.50        10.55        47.11 
TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 
       11.34         9.27        16.21         3.35        16.80        12.92 
TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 
       15.32        15.45        20.32         2.70         6.15        20.38 
TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 
       47.61         6.94         3.98        22.72        33.67        12.95 
TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 
       25.35        14.30        26.70        24.23        11.90         0.20 
TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 
       10.29         2.20        11.74         2.33        20.09        17.79 
TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 
       10.09         8.61        19.46        46.59        12.33        13.94 
TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 
       10.45         3.19        10.82         9.44        11.80         3.42 
TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 
       56.91        10.65         5.85        19.66         3.29        13.12 
TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 
        4.47         3.22         4.04        91.00         4.18        88.14 
TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 
       20.25         3.65        69.90        73.84        27.22        44.58 
TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 
       15.42        10.42        38.96         4.67         7.40         5.56 
TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 
        0.39         7.66         8.42         7.40        11.84         0.53 
TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 TCGA-06-0238 
       15.02        24.16         0.72        19.82        13.64        13.32 
TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 
       20.42        48.69        10.82         9.01         0.26        72.36 
TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 TCGA-06-0414 TCGA-06-0644 TCGA-06-0645 
        4.70         9.57         3.16        35.11        12.62         5.75 
TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 
        5.75         9.80         2.10        23.57        14.20        26.40 
TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 
       46.88         7.86         2.70         2.70         0.92        43.46 
TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 
       46.19         7.17        40.41        16.57        20.78        26.76 
TCGA-06-1084 TCGA-06-1086 TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 
       23.93         6.84         4.04        26.79        11.84        15.32 
TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 
       13.61        33.90         1.08        12.49         4.93        17.65 
TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 
       12.56        30.64         5.95        16.64         5.98         4.37 
TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 
       31.50         7.79         5.39       120.56         7.36        22.68 
TCGA-08-0245 TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 
       37.84         4.18       115.86         1.74         8.42        25.71 
TCGA-08-0348 TCGA-08-0349 TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 
       12.16         9.80         1.28         8.42        17.95        24.56 
TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 
       31.10        37.58        22.29         3.39        12.23        14.93 
TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 TCGA-08-0510 
       18.02        15.35        13.97         0.72        12.56         4.27 
TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 
       42.15        11.08        19.59        19.33        10.75         4.80 
TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 
        7.27        15.98        18.41         7.56        14.73        12.99 
TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 
       34.92        10.45         7.59        94.78         0.10        38.17 
TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 
       25.97        26.66        12.13         3.65        20.38        28.41 
TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 
       15.06        53.85        43.23         7.63         9.73        14.93 
TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 
       14.86        91.76        24.79        18.48        10.62        23.51 
TCGA-12-0826 TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 
       27.78        38.76         8.94        20.58       127.59         5.82 
TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 
        7.59        33.21        15.98        12.23        15.85         9.11 
TCGA-12-1097 TCGA-12-1098 TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 
       14.53         3.98         2.24        11.24         1.35         5.39 
TCGA-14-0867 TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 
        2.04        28.93        19.30         0.79        13.78        50.53 
TCGA-15-1446 TCGA-15-1447 TCGA-15-1449 TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 
       19.10        53.19        13.28         3.91        26.07        16.37 
TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 
       11.77        21.90         0.66        10.75         9.07         5.95 
TCGA-19-1388 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 
       12.95         4.64        31.33        14.86         5.49         1.58 
TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 TCGA-28-5207 
        7.92         2.33         7.30         5.26        14.93        11.28 
TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5215 
       17.88        14.53        11.77        31.27        23.44        11.01 
TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 
       13.64         5.16        22.68        12.76         5.42         7.36 
TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
       11.38         5.42         3.75         1.61        17.72        26.30 

  10P GAIN MUTATED 10P GAIN WILD-TYPE 
              0.10               0.03 
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
            172.77             211.17 
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
            27.420             15.405 
[1] "0.1 - 172.8 (27.4)" "0.0 - 211.2 (15.4)"
[1] "hr=" "2.8"
D19V2, continuous
D19V3, binary
                    cls
clus                   0   1
  10P GAIN MUTATED    13  57
  10P GAIN WILD-TYPE 560 455
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10P GAIN MUTATED     13   57
  10P GAIN WILD-TYPE  560  455
                        clus
vv                       10P GAIN MUTATED 10P GAIN WILD-TYPE
  BRAIN                                13                560
  CENTRAL NERVOUS SYSTEM               57                455
[1] 2 2
[1] FALSE
D19V4, binary
                    cls
clus                   0   1
  10P GAIN MUTATED    30  40
  10P GAIN WILD-TYPE 423 592
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10P GAIN MUTATED     30   40
  10P GAIN WILD-TYPE  423  592
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  FEMALE               30                423
  MALE                 40                592
[1] 2 2
[1] FALSE
D19V5, binary
                    cls
clus                   0   1
  10P GAIN MUTATED    12  52
  10P GAIN WILD-TYPE 246 718
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10P GAIN MUTATED     12   52
  10P GAIN WILD-TYPE  246  718
     clus
vv    10P GAIN MUTATED 10P GAIN WILD-TYPE
  NO                12                246
  YES               52                718
[1] 2 2
[1] FALSE
D19V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  10P GAIN MUTATED            32                             1               17
  10P GAIN WILD-TYPE         162                            29              112
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  10P GAIN MUTATED                   8                   1
  10P GAIN WILD-TYPE               181                  17
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  10P GAIN MUTATED                                11
  10P GAIN WILD-TYPE                             514
D19V7, multiclass
                                 clus
vv                                10P GAIN MUTATED 10P GAIN WILD-TYPE
  ASTROCYTOMA                                   32                162
  GLIOBLASTOMA MULTIFORME (GBM)                  1                 29
  OLIGOASTROCYTOMA                              17                112
  OLIGODENDROGLIOMA                              8                181
  TREATED PRIMARY GBM                            1                 17
  UNTREATED PRIMARY (DE NOVO) GBM               11                514
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  10P GAIN MUTATED                                  0     2
  10P GAIN WILD-TYPE                                1    19
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  10P GAIN MUTATED                           6    62
  10P GAIN WILD-TYPE                        65   897
D19V8, multiclass
                                  clus
vv                                 10P GAIN MUTATED 10P GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           2                 19
  BLACK OR AFRICAN AMERICAN                       6                 65
  WHITE                                          62                897
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D19V9, binary
                    cls
clus                   0   1
  10P GAIN MUTATED     7  57
  10P GAIN WILD-TYPE  37 864
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10P GAIN MUTATED      7   57
  10P GAIN WILD-TYPE   37  864
                        clus
vv                       10P GAIN MUTATED 10P GAIN WILD-TYPE
  HISPANIC OR LATINO                    7                 37
  NOT HISPANIC OR LATINO               57                864
[1] 2 2
[1] FALSE

Clustering(20) Variable = 10Q GAIN MUTATION ANALYSIS
D20V1, survival
                    sevent
clus2                  0   1
  10Q GAIN MUTATED     7   5
  10Q GAIN WILD-TYPE 473 593
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                12               1066 
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 5                593 
$`10Q GAIN MUTATED`
TCGA-FG-A87N TCGA-32-2632 TCGA-CS-5393 TCGA-DB-5277 TCGA-DU-A5TS TCGA-E1-A7YI 
       18.64         8.84        40.18        50.86        31.69         3.65 
TCGA-HT-7476 TCGA-P5-A780 TCGA-RY-A83Z TCGA-S9-A7J0 TCGA-02-0011 TCGA-12-1099 
        6.54         2.37         9.90        20.02        20.71         4.14 

$`10Q GAIN WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K 
       42.05        62.01        17.16        23.90        20.09        17.82 
TCGA-FG-A713 TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 
       20.45        21.40        45.60        42.77        59.38        15.32 
TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 
       11.74         3.55         8.35         4.54         8.81         8.98 
TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 
        8.55         6.71         2.73         3.75         6.15         4.57 
TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 
        5.23         8.32        12.85         4.77         1.55         4.77 
TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK 
        4.96        26.79         1.87         3.12         2.56        14.60 
TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 
       17.72        15.35        21.73        15.65        25.68        14.73 
TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 
        6.77        59.77        44.02        26.93        15.22        10.95 
TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 
       12.69        34.92        14.53        14.93         3.22         2.04 
TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 
       15.12        11.97         0.95         6.21        23.05        13.78 
TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 
        3.25         2.89        16.50        26.33        15.95         1.38 
TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 
        1.12         3.75        32.05        58.78        23.11         7.10 
TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 
        1.15        30.18         0.92        40.96         6.67        12.43 
TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 
        0.99         1.97        17.79        17.85         7.63         5.88 
TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-3477 TCGA-14-4157 TCGA-16-0848 
        7.17        17.49         7.96         3.78         3.42        17.59 
TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 
       29.03         4.57        10.29        14.01         9.14        21.24 
TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 
       13.97         6.41         8.61        14.27         3.39        25.38 
TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 
        3.65         7.17        12.66         3.25         0.13         9.67 
TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 
        4.87         1.08         7.53         0.16         4.08        24.23 
TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 
        7.00         7.04         6.64        17.19         8.02        18.90 
TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 
        4.73        12.10         1.78        22.49        14.07        16.80 
TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 TCGA-26-1440 
       14.96        17.79        28.54        10.03        13.87         9.73 
TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX 
        7.13         9.37         9.40         8.88        18.97        19.33 
TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 
        5.06        16.60         9.86        24.23        40.54        21.30 
TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 
       30.05        14.04        11.51        24.76        18.08        16.77 
TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 
       16.08         7.59         2.86        14.40        15.78         0.20 
TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 
        2.53         9.21         8.35         7.63         8.48         1.22 
TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 
        1.55         2.83         0.13         0.66         6.74         4.77 
TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 
       15.39        21.07         0.49         0.10        15.85        19.50 
TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 
        1.18         4.67        12.69        14.86        16.93        12.23 
TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 
       20.78        15.02        15.95        22.78        25.18        21.14 
TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 
        3.72        12.59        19.86        10.85        19.23         0.85 
TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 
       13.35         8.94         9.53         0.99         4.44        11.84 
TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T 
        0.20        15.12        12.46         4.08         1.45        25.58 
TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 
        3.45        20.91         4.34        14.33         8.22         7.50 
TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4934 
        4.80         4.54         3.09         3.65         9.17         2.53 
TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 
       36.85        16.70         3.29         2.70        17.06         8.35 
TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 
       20.98         4.83         5.03        23.90        34.45        18.64 
TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 
       36.20         5.92         6.28        20.55       117.50         7.69 
TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 
       43.89        36.36        60.10         0.26        21.01        53.62 
TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 
        6.38        17.69        26.76        37.38        46.95        48.30 
TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.94        49.12       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       72.92        91.13        44.52        36.56        78.28        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG 
       18.84        30.21        39.78        37.45        33.57        72.95 
TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R 
       31.63        24.20        25.48        30.12         5.98        31.40 
TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K 
       27.45        27.81        29.23        14.40        18.51        12.10 
TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 
       11.24        17.88        30.74        16.18        19.96        63.88 
TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G 
       46.06        24.59        30.21        27.81        17.19        17.19 
TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 
       54.25        23.21        17.46        13.71        18.61        18.02 
TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 
       14.56        17.46         6.74        13.38         8.45         6.81 
TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 
      182.33        18.94        17.49        15.16       211.17        52.11 
TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 
       22.42        49.02        75.16        46.06        65.75         1.22 
TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 
       87.45         7.04        11.64       133.74        19.89        16.83 
TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 
       94.52       114.08         7.96         2.40        11.47        62.96 
TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 
      156.23       154.36        14.99       105.21         6.54         8.84 
TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 
      117.40        90.77        30.67        26.30        10.36         7.96 
TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 
       94.32        18.94        44.02        25.91        60.30        23.31 
TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 
       41.98         2.76         5.10        23.74        14.60        20.68 
TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP 
       21.40        19.13        16.96        15.48        14.17        33.27 
TCGA-DU-A5TR TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 
       29.85        24.43        26.17        24.99        33.96        25.55 
TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L 
       21.57        95.11        20.98        22.29        11.41        26.76 
TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC 
       21.30        17.98       139.04        84.33        51.52        37.38 
TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 
        7.50        44.42        38.89         0.56        50.14        67.46 
TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 
       41.13        79.99        57.93       134.27        78.21        95.57 
TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YJ TCGA-E1-A7YK 
      130.78        14.30        29.13        93.21        19.46        12.43 
TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU 
       16.18        21.30        75.02        51.88        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       18.44        15.35        17.88        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 
       28.34        13.68        14.24        16.01        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY 
       32.61        38.27        10.72        18.38        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y 
       14.76        21.53        15.02        16.44        22.26        28.54 
TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 
       10.78        36.66        48.69         5.72        27.52         0.10 
TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 
        6.67        11.54        40.11         0.13         0.03        16.54 
TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 
        3.75        17.42        24.26         6.38        40.34        75.19 
TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 
       95.93       106.95       172.77         4.01         5.03        29.85 
TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 
       23.18       122.47         4.57        17.29         3.16        22.06 
TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 
       45.99        56.09        57.60         0.23        14.27         0.16 
TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 
       16.24         0.76        44.68         6.05        42.74         0.10 
TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 
       31.69        14.96         0.10         0.10         2.96        17.52 
TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 
        6.90        14.53        39.48        19.23        39.09         0.23 
TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 
       50.63         0.49        23.61        37.15         0.33         0.13 
TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 
        3.68         5.33        35.47         3.72        11.28        31.43 
TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 
        1.64        16.24         9.40        63.55         0.10        37.87 
TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 
       33.01        12.23         6.25         0.10         0.46         2.50 
TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 
        5.56        13.78         0.23        29.59        34.19        28.27 
TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 
       15.72         0.23        26.04         0.13        20.22         0.07 
TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 
       27.35         0.10         5.33         2.70        16.93         1.81 
TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J 
       16.14        16.83        17.52        17.65         2.43        10.52 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 
       15.35        11.05         0.10        56.58        45.44        41.49 
TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       68.32        69.27        35.44        39.75        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 
       24.92        31.63        12.76        28.87        20.71        19.00 
TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY 
       14.40        14.40         0.23         6.71         7.99         2.37 
TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 
        2.30         9.44         5.88         7.96         7.59         1.28 
TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 
        0.23        10.42        13.25        11.64        10.95         9.01 
TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X 
       13.61         9.60         7.56        12.23        19.20         3.45 
TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z 
        4.41        15.16         2.53        12.62        15.85        14.04 
TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY 
       19.33        14.83        14.53        13.61        12.23        13.41 
TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 
        9.17        10.29        14.53        16.34        16.73         1.91 
TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML 
       16.50        16.70        11.08        12.99        88.83        94.03 
TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 
       32.65        30.87         5.46        28.08         2.07        19.59 
TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX 
       30.67        62.17        87.12        18.77        41.10        40.93 
TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 
       35.38        36.82        24.39        25.81        29.85        32.61 
TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD 
       35.15        98.24        95.93         5.85       123.65        75.25 
TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM 
      135.22        85.55        38.56        84.99        31.10        19.86 
TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS 
       26.47        18.61        18.64        14.07        36.13         7.92 
TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       26.93        23.51        19.99         8.19         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 
       15.06        18.54        28.37        27.16       169.84        10.39 
TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z 
       99.06        30.05        98.63        31.59        18.71        20.48 
TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B 
       54.77        48.33        49.32        34.78        65.39        24.92 
TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J 
       16.18        59.05        40.64        30.44        28.08        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ 
       23.80        21.37        19.69        15.98         2.04        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ 
       44.09        36.69        33.73        31.20        30.05        26.14 
TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 
       25.87        33.93        61.41        26.99        31.36        45.93 
TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF 
       43.20        13.51         0.10         7.89        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 
       23.47        37.05        16.01        23.21         8.05        51.06 
TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C 
       13.32        43.96        39.88        43.40        45.80        46.88 
TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 
       37.71        20.81         7.63        11.77         4.73        18.35 
TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 
       23.18        10.59        35.41        82.59        20.61        87.06 
TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 
       77.65        20.12        53.10        42.74        24.59        12.16 
TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 
       90.58         2.83        14.14         3.62        10.72        10.52 
TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 
       18.31         6.87        14.73         3.22        15.09        12.59 
TCGA-02-0054 TCGA-02-0055 TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 
        6.54         2.50        19.86         8.35         9.57         6.02 
TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 
       19.73        26.43        28.70        25.05         5.49        10.19 
TCGA-02-0075 TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 
       20.84        27.25        89.72        22.72        12.62        51.32 
TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 
        8.81        57.76        16.96         3.48        27.02        65.00 
TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 
       11.67        17.65        23.18        92.65        99.98        15.65 
TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 
       48.95        16.54        16.93        17.72        10.75        14.47 
TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 
        3.98        13.87        14.20        15.95        12.23         9.90 
TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 
        7.73        10.62         7.33        15.91        25.71         4.37 
TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 
       25.12        10.59        12.39        14.50        10.55        47.11 
TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 
       11.34         9.27        16.21         3.35        16.80        12.92 
TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 
       15.32        15.45        20.32         2.70         6.15        20.38 
TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 
       47.61         6.94         3.98        22.72        33.67        12.95 
TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 
       25.35        14.30        26.70        24.23        11.90         0.20 
TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 
       10.29         2.20        11.74         2.33        20.09        17.79 
TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 
       10.09         8.61        19.46        46.59        12.33        13.94 
TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 
       10.45         3.19        10.82         9.44        11.80         3.42 
TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 
       56.91        10.65         5.85        19.66         3.29        13.12 
TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 
        4.47         3.22         4.04        91.00         4.18        88.14 
TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 
       20.25         3.65        69.90        73.84        27.22        44.58 
TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 
       15.42        10.42        38.96         4.67         7.40         5.56 
TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 
        0.39         7.66         8.42         7.40        11.84         0.53 
TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 TCGA-06-0238 
       15.02        24.16         0.72        19.82        13.64        13.32 
TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 
       20.42        48.69        10.82         9.01         0.26        72.36 
TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 TCGA-06-0414 TCGA-06-0644 TCGA-06-0645 
        4.70         9.57         3.16        35.11        12.62         5.75 
TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 
        5.75         9.80         2.10        23.57        14.20        26.40 
TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 
       46.88         7.86         2.70         2.70         0.92        43.46 
TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 
       46.19         7.17        40.41        16.57        20.78        26.76 
TCGA-06-1084 TCGA-06-1086 TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 
       23.93         6.84         4.04        26.79        11.84        15.32 
TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 
       13.61        33.90         1.08        12.49         4.93        17.65 
TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 
       12.56        30.64         5.95        16.64         5.98         4.37 
TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 
        0.43        31.50         7.79         5.39       120.56         7.36 
TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 
       22.68        37.84         4.18       115.86         1.74         8.42 
TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 
       25.71        12.16         9.80        29.23        65.33         1.28 
TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 
        8.42        17.95        24.56        31.10        37.58        22.29 
TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 
        3.39        12.23        14.93        18.02        15.35        13.97 
TCGA-08-0392 TCGA-08-0509 TCGA-08-0510 TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 
        0.72        12.56         4.27        42.15        11.08        19.59 
TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 
       58.68        19.33        10.75         4.80         7.27        15.98 
TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 
       18.41         7.56        14.73        12.99        34.92        10.45 
TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 
        7.59        94.78         0.10        38.17        25.97        26.66 
TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 
       12.13         3.65        20.38        28.41        15.06        53.85 
TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 
       43.23         7.63         9.73        14.93        14.86        91.76 
TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0826 TCGA-12-0827 
       24.79        18.48        10.62        23.51        27.78        38.76 
TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 
        8.94        20.58       127.59         5.82         7.59        33.21 
TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 
       15.98        12.23        15.85         9.11        14.53         3.98 
TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 TCGA-14-0867 TCGA-14-0871 
        2.24        11.24         1.35         5.39         2.04        28.93 
TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 TCGA-15-1447 
       19.30         0.79        13.78        50.53        19.10        53.19 
TCGA-15-1449 TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 
       13.28         3.91        26.07        16.37        11.77        21.90 
TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1388 TCGA-19-1389 
        0.66        10.75         9.07         5.95        12.95         4.64 
TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 
       31.33        14.86         5.49         1.58         7.92         2.33 
TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 
        7.30         5.26        14.93        11.28        17.88        14.53 
TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5215 TCGA-28-5216 TCGA-28-5218 
       11.77        31.27        23.44        11.01        13.64         5.16 
TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 
       22.68        12.76         5.42         7.36        11.38         5.42 
TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        3.75         1.61        17.72        26.30 

  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
              2.37               0.03 
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
             50.86             211.17 
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
             14.27              15.98 
[1] "2.4 - 50.9 (14.3)"  "0.0 - 211.2 (16.0)"
[1] "hr=" "1.1"
D20V2, continuous
D20V3, binary
                    cls
clus                   0   1
  10Q GAIN MUTATED     3   9
  10Q GAIN WILD-TYPE 570 503
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10Q GAIN MUTATED      3    9
  10Q GAIN WILD-TYPE  570  503
                        clus
vv                       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  BRAIN                                 3                570
  CENTRAL NERVOUS SYSTEM                9                503
[1] 2 2
[1] FALSE
D20V4, binary
                    cls
clus                   0   1
  10Q GAIN MUTATED     7   5
  10Q GAIN WILD-TYPE 446 627
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10Q GAIN MUTATED      7    5
  10Q GAIN WILD-TYPE  446  627
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  FEMALE                7                446
  MALE                  5                627
[1] 2 2
[1] FALSE
D20V5, binary
                    cls
clus                   0   1
  10Q GAIN MUTATED     1  10
  10Q GAIN WILD-TYPE 257 760
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10Q GAIN MUTATED      1   10
  10Q GAIN WILD-TYPE  257  760
     clus
vv    10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  NO                 1                257
  YES               10                760
[1] 2 2
[1] FALSE
D20V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  10Q GAIN MUTATED             7                             0                0
  10Q GAIN WILD-TYPE         187                            30              129
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  10Q GAIN MUTATED                   2                   0
  10Q GAIN WILD-TYPE               187                  18
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  10Q GAIN MUTATED                                 3
  10Q GAIN WILD-TYPE                             522
D20V7, multiclass
                                 clus
vv                                10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  ASTROCYTOMA                                    7                187
  GLIOBLASTOMA MULTIFORME (GBM)                  0                 30
  OLIGOASTROCYTOMA                               0                129
  OLIGODENDROGLIOMA                              2                187
  TREATED PRIMARY GBM                            0                 18
  UNTREATED PRIMARY (DE NOVO) GBM                3                522
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  10Q GAIN MUTATED                                  0     1
  10Q GAIN WILD-TYPE                                1    20
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  10Q GAIN MUTATED                           1    10
  10Q GAIN WILD-TYPE                        70   949
D20V8, multiclass
                                  clus
vv                                 10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           1                 20
  BLACK OR AFRICAN AMERICAN                       1                 70
  WHITE                                          10                949
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D20V9, binary
                    cls
clus                   0   1
  10Q GAIN MUTATED     2   9
  10Q GAIN WILD-TYPE  42 912
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10Q GAIN MUTATED      2    9
  10Q GAIN WILD-TYPE   42  912
                        clus
vv                       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  HISPANIC OR LATINO                    2                 42
  NOT HISPANIC OR LATINO                9                912
[1] 2 2
[1] FALSE

Clustering(21) Variable = 11P GAIN MUTATION ANALYSIS
D21V1, survival
                    sevent
clus2                  0   1
  11P GAIN MUTATED    28  21
  11P GAIN WILD-TYPE 452 577
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                49               1029 
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                21                577 
$`11P GAIN MUTATED`
TCGA-12-1598 TCGA-19-4065 TCGA-27-2521 TCGA-27-2526 TCGA-CS-5396 TCGA-CS-6666 
       15.65         7.04        16.77         2.86        53.62        46.95 
TCGA-DB-A4X9 TCGA-DB-A64L TCGA-DH-5144 TCGA-DH-A66D TCGA-DU-6392 TCGA-DU-6393 
       46.42        24.20        24.59        27.81       211.17        52.11 
TCGA-DU-6400 TCGA-DU-7018 TCGA-DU-7306 TCGA-DU-8168 TCGA-DU-A5TW TCGA-DU-A6S8 
        1.22        30.67        41.98        14.17        24.99        22.29 
TCGA-FG-5962 TCGA-FG-7634 TCGA-HT-7474 TCGA-HT-7607 TCGA-HT-7684 TCGA-HT-8109 
       47.77        15.35         3.75         3.16         6.05         5.56 
TCGA-HT-A74K TCGA-QH-A65X TCGA-QH-A6CZ TCGA-RY-A845 TCGA-S9-A6TW TCGA-S9-A6TY 
       15.35        15.85         9.17        19.59        41.10        35.38 
TCGA-S9-A6WH TCGA-S9-A7IZ TCGA-S9-A7QY TCGA-TQ-A7RN TCGA-TQ-A7RW TCGA-VM-A8CA 
       38.56        19.99        28.37        33.73        26.99        13.51 
TCGA-02-0014 TCGA-02-0054 TCGA-02-0106 TCGA-06-0130 TCGA-06-0188 TCGA-06-0221 
       82.59         6.54        11.67        12.95        44.58        19.82 
TCGA-06-0743 TCGA-06-1087 TCGA-08-0386 TCGA-12-0826 TCGA-12-1093 TCGA-19-1388 
       26.40         4.04        18.02        27.78        15.98        12.95 
TCGA-28-5207 
       11.28 

$`11P GAIN WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K 
       42.05        62.01        17.16        23.90        20.09        17.82 
TCGA-FG-A713 TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M 
       20.45        18.64        21.40        45.60        42.77        59.38 
TCGA-06-1806 TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 
       15.32        11.74         3.55         8.35         4.54         8.81 
TCGA-06-5414 TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 
        8.98         8.55         6.71         2.73         3.75         6.15 
TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 
        4.57         5.23         8.32        12.85         4.77         1.55 
TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 
        4.77         4.96        26.79         1.87         3.12         2.56 
TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1599 TCGA-12-1600 
       14.60        17.72        15.35        21.73        25.68        14.73 
TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 
        6.77        59.77        44.02        26.93        15.22        10.95 
TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 
       12.69        34.92        14.53        14.93         3.22         2.04 
TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 
       15.12        11.97         0.95         6.21        23.05        13.78 
TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 
        3.25         2.89        16.50        26.33        15.95         1.38 
TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 
        1.12         3.75        32.05        58.78        23.11         7.10 
TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 
        1.15        30.18         0.92        40.96         6.67        12.43 
TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 
        0.99         1.97        17.79        17.85         7.63         5.88 
TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-3477 TCGA-14-4157 TCGA-16-0848 
        7.17        17.49         7.96         3.78         3.42        17.59 
TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 
       29.03         4.57        10.29        14.01         9.14        21.24 
TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 
       13.97         6.41         8.61        14.27         3.39        25.38 
TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 
        3.65         7.17        12.66         3.25         0.13         9.67 
TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 
        4.87         1.08         7.53         0.16         4.08        24.23 
TCGA-19-2631 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 
        7.00         6.64        17.19         8.02        18.90         4.73 
TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 
       12.10         1.78        22.49        14.07        16.80        14.96 
TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 
       17.79        28.54        10.03        13.87         9.73         7.13 
TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 
        9.37         9.40         8.88        18.97        19.33         5.06 
TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 
       16.60         9.86        24.23        40.54        21.30        30.05 
TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2523 TCGA-27-2524 
       14.04        11.51        24.76        18.08        16.08         7.59 
TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 
       14.40        15.78         0.20         2.53         9.21         8.35 
TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 
        7.63         8.48         1.22         1.55         2.83         0.13 
TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 
        0.66         6.74         4.77        15.39        21.07         0.49 
TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 
        0.10        15.85        19.50         1.18         4.67        12.69 
TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 
       14.86        16.93        12.23        20.78        15.02        15.95 
TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 
        8.84        22.78        25.18        21.14         3.72        12.59 
TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 
       19.86        10.85        19.23         0.85        13.35         8.94 
TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 TCGA-41-4097 TCGA-41-5651 
        9.53         0.99         4.44        11.84         0.20        15.12 
TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 
       12.46         4.08         1.45        25.58         3.45        20.91 
TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 
        4.34        14.33         8.22         7.50         4.80         4.54 
TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 
        3.09         3.65         9.17         2.53        36.85        16.70 
TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 
        3.29         2.70        17.06         8.35        20.98         4.83 
TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R 
        5.03        23.90        34.45        18.64        36.20         5.92 
TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 
        6.28        20.55       117.50         7.69        43.89        36.36 
TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5397 TCGA-CS-6186 
       60.10        40.18         0.26        21.01         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 
       26.76        37.38        48.30        49.94        49.12       122.73 
TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 
       81.96        75.25        47.93        72.92        50.86        91.13 
TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD 
       44.52        36.56        78.28        18.84        30.21        39.78 
TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64O TCGA-DB-A64P 
       37.45        33.57        72.95        31.63        25.48        30.12 
TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W 
        5.98        31.40        27.45        27.81        29.23        14.40 
TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-A669 TCGA-DH-A66F TCGA-DH-A66G 
       19.96        63.88        46.06        30.21        17.19        17.19 
TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 
       54.25        23.21        17.46        13.71        18.61        18.02 
TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 
       14.56        17.46         6.74        13.38         8.45         6.81 
TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6394 TCGA-DU-6395 
      182.33        18.94        17.49        15.16        22.42        49.02 
TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       75.16        46.06        65.75        87.45         7.04        11.64 
TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 
      133.74        19.89        16.83        94.52       114.08         7.96 
TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7019 
      105.21         6.54         8.84       117.40        90.77        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 
       10.36         7.96        94.32        18.94        44.02        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       60.30        23.31         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-A5TP 
       20.68        21.40        19.13        16.96        15.48        33.27 
TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TY TCGA-DU-A6S2 
       29.85        31.69        24.43        26.17        33.96        25.55 
TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R 
       21.57        95.11        20.98        11.41        26.76        21.30 
TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       17.98       139.04        84.33        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 
       44.42        38.89         0.56        50.14        67.46        41.13 
TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 
       79.99        57.93       134.27        78.21        95.57       130.78 
TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK 
       14.30        29.13        93.21         3.65        19.46        12.43 
TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU 
       16.18        21.30        75.02        51.88        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5963 TCGA-FG-5964 
       32.35        39.48         0.23         0.20        25.48        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 
       17.88        22.55        20.61        20.09        28.34        13.68 
TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT 
       14.24        16.01        14.96        22.52        32.61        38.27 
TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L 
       10.72        18.38        18.71        23.70        14.76        21.53 
TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 
       15.02        16.44        22.26        28.54        10.78        36.66 
TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 
       48.69         5.72        27.52         0.10         6.67        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7475 TCGA-HT-7476 
       40.11         0.13         0.03        16.54        17.42         6.54 
TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 
       24.26         6.38        40.34        75.19        95.93       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 
        4.57        17.29        22.06        45.99        56.09        57.60 
TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
        0.23        14.27         0.16        16.24         0.76        44.68 
TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 
       42.74         0.10        31.69        14.96         0.10         0.10 
TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 
        2.96        17.52         6.90        14.53        39.48        19.23 
TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 
       39.09         0.23        50.63         0.49        23.61        37.15 
TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 
        0.33         0.13         3.68         5.33        35.47         3.72 
TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 
       11.28        31.43         1.64        16.24         9.40        63.55 
TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 
        0.10        37.87        33.01        12.23         6.25         0.10 
TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 
        0.46         2.50        13.78         0.23        29.59        34.19 
TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 
       28.27        15.72         0.23        26.04         0.13        20.22 
TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 
        0.07        27.35         0.10         5.33         2.70        16.93 
TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H 
        1.81        16.14        16.83        17.52        17.65         2.43 
TCGA-HT-A74J TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 
       10.52        11.05         0.10        56.58        45.44        41.49 
TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       68.32        69.27        35.44        39.75        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 
       24.92        31.63        12.76        28.87        20.71        19.00 
TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY 
       14.40        14.40         0.23         6.71         7.99         2.37 
TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 
        2.30         9.44         5.88         7.96         7.59         1.28 
TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 
        0.23        10.42        13.25        11.64        10.95         9.01 
TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X 
       13.61         9.60         7.56        12.23        19.20         3.45 
TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65Z 
        2.37         4.41        15.16         2.53        12.62        14.04 
TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY 
       19.33        14.83        14.53        13.61        12.23        13.41 
TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA 
       10.29        14.53        16.34        16.73         1.91        16.50 
TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO 
       16.70        11.08        12.99        88.83        94.03        32.65 
TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A847 
       30.87         5.46         9.90        28.08         2.07        30.67 
TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TX TCGA-S9-A6TZ TCGA-S9-A6U0 
       62.17        87.12        18.77        40.93        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 
       25.81        29.85        32.61        35.15        98.24        95.93 
TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WI 
        5.85       123.65        75.25       135.22        85.55        84.99 
TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ 
       31.10        19.86        26.47        18.61        18.64        14.07 
TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7J0 TCGA-S9-A7J1 
       36.13         7.92        26.93        23.51        20.02         8.19 
TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QZ TCGA-S9-A7R1 
        2.04        20.68        15.06        18.54        27.16       169.84 
TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V 
       10.39        99.06        30.05        98.63        31.59        18.71 
TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF 
       20.48        54.77        48.33        49.32        34.78        65.39 
TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I 
       24.92        16.18        59.05        40.64        30.44        28.08 
TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R 
       24.16        40.83        24.79        33.24        25.38        18.61 
TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI 
       14.93        23.80        21.37        19.69        15.98         2.04 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ 
       40.41        44.09        36.69        31.20        30.05        26.14 
TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 
       25.87        33.93        61.41        31.36        45.93        43.20 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 
        0.10         7.89        39.16        20.02        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       16.01        23.21         8.05        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 
TCGA-06-0209 TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 
        7.63        11.77         4.73        18.35        23.18        10.59 
TCGA-02-0010 TCGA-02-0011 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 
       35.41        20.71        20.61        87.06        77.65        20.12 
TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 
       53.10        42.74        24.59        12.16        90.58         2.83 
TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 
       14.14         3.62        10.72        10.52        18.31         6.87 
TCGA-02-0047 TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 TCGA-02-0055 TCGA-02-0057 
       14.73         3.22        15.09        12.59         2.50        19.86 
TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 
        8.35         9.57         6.02        19.73        26.43        28.70 
TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 TCGA-02-0079 TCGA-02-0080 
       25.05         5.49        10.19        20.84        27.25        89.72 
TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 
       22.72        12.62        51.32         8.81        57.76        16.96 
TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0107 TCGA-02-0111 TCGA-02-0113 
        3.48        27.02        65.00        17.65        23.18        92.65 
TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 
       99.98        15.65        48.95        16.54        16.93        17.72 
TCGA-02-0269 TCGA-02-0271 TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 
       10.75        14.47         3.98        13.87        14.20        15.95 
TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 
       12.23         9.90         7.73        10.62         7.33        15.91 
TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 
       25.71         4.37        25.12        10.59        12.39        14.50 
TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 
       10.55        47.11        11.34         9.27        16.21         3.35 
TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 
       16.80        12.92        15.32        15.45        20.32         2.70 
TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 
        6.15        20.38        47.61         6.94         3.98        22.72 
TCGA-06-0129 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 
       33.67        25.35        14.30        26.70        24.23        11.90 
TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 
        0.20        10.29         2.20        11.74         2.33        20.09 
TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 TCGA-06-0152 
       17.79        10.09         8.61        19.46        46.59        12.33 
TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 
       13.94        10.45         3.19        10.82         9.44        11.80 
TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 
        3.42        56.91        10.65         5.85        19.66         3.29 
TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 
       13.12         4.47         3.22         4.04        91.00         4.18 
TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 
       88.14        20.25         3.65        69.90        73.84        27.22 
TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 
       15.42        10.42        38.96         4.67         7.40         5.56 
TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 
        0.39         7.66         8.42         7.40        11.84         0.53 
TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 
       15.02        24.16         0.72        13.64        13.32        20.42 
TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 TCGA-06-0410 
       48.69        10.82         9.01         0.26        72.36         4.70 
TCGA-06-0412 TCGA-06-0413 TCGA-06-0414 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 
        9.57         3.16        35.11        12.62         5.75         5.75 
TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 TCGA-06-0744 TCGA-06-0745 
        9.80         2.10        23.57        14.20        46.88         7.86 
TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 
        2.70         2.70         0.92        43.46        46.19         7.17 
TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 
       40.41        16.57        20.78        26.76        23.93         6.84 
TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 
       26.79        11.84        15.32        13.61        33.90         1.08 
TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 
       12.49         4.93        17.65        12.56        30.64         5.95 
TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 
       16.64         5.98         4.37         0.43        31.50         7.79 
TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 
        5.39       120.56         7.36        22.68        37.84         4.18 
TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 
      115.86         1.74         8.42        25.71        12.16         9.80 
TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 
       29.23        65.33         1.28         8.42        17.95        24.56 
TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 
       31.10        37.58        22.29         3.39        12.23        14.93 
TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 TCGA-08-0510 TCGA-08-0512 
       15.35        13.97         0.72        12.56         4.27        42.15 
TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 
       11.08        19.59        58.68        19.33        10.75         4.80 
TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 
        7.27        15.98        18.41         7.56        14.73        12.99 
TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 
       34.92        10.45         7.59        94.78         0.10        38.17 
TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 
       25.97        26.66        12.13         3.65        20.38        28.41 
TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 
       15.06        53.85        43.23         7.63         9.73        14.93 
TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 
       14.86        91.76        24.79        18.48        10.62        23.51 
TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 
       38.76         8.94        20.58       127.59         5.82         7.59 
TCGA-12-1091 TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 
       33.21        12.23        15.85         9.11        14.53         3.98 
TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 TCGA-14-0867 
        4.14         2.24        11.24         1.35         5.39         2.04 
TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 
       28.93        19.30         0.79        13.78        50.53        19.10 
TCGA-15-1447 TCGA-15-1449 TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 
       53.19        13.28         3.91        26.07        16.37        11.77 
TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1389 
       21.90         0.66        10.75         9.07         5.95         4.64 
TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 
       31.33        14.86         5.49         1.58         7.92         2.33 
TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 
        7.30         5.26        14.93        17.88        14.53        11.77 
TCGA-28-5213 TCGA-28-5214 TCGA-28-5215 TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 
       31.27        23.44        11.01        13.64         5.16        22.68 
TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 
       12.76         5.42         7.36        11.38         5.42         3.75 
TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        1.61        17.72        26.30 

  11P GAIN MUTATED 11P GAIN WILD-TYPE 
              1.22               0.03 
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
            211.17             182.33 
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
             19.82              15.95 
[1] "1.2 - 211.2 (19.8)" "0.0 - 182.3 (15.9)"
[1] "hr=" "1.5"
D21V2, continuous
D21V3, binary
                    cls
clus                   0   1
  11P GAIN MUTATED    17  32
  11P GAIN WILD-TYPE 556 480
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11P GAIN MUTATED     17   32
  11P GAIN WILD-TYPE  556  480
                        clus
vv                       11P GAIN MUTATED 11P GAIN WILD-TYPE
  BRAIN                                17                556
  CENTRAL NERVOUS SYSTEM               32                480
[1] 2 2
[1] FALSE
D21V4, binary
                    cls
clus                   0   1
  11P GAIN MUTATED    23  26
  11P GAIN WILD-TYPE 430 606
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11P GAIN MUTATED     23   26
  11P GAIN WILD-TYPE  430  606
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  FEMALE               23                430
  MALE                 26                606
[1] 2 2
[1] FALSE
D21V5, binary
                    cls
clus                   0   1
  11P GAIN MUTATED    17  32
  11P GAIN WILD-TYPE 241 738
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11P GAIN MUTATED     17   32
  11P GAIN WILD-TYPE  241  738
     clus
vv    11P GAIN MUTATED 11P GAIN WILD-TYPE
  NO                17                241
  YES               32                738
[1] 2 2
[1] FALSE
D21V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  11P GAIN MUTATED             6                             0                9
  11P GAIN WILD-TYPE         188                            30              120
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  11P GAIN MUTATED                  17                   0
  11P GAIN WILD-TYPE               172                  18
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  11P GAIN MUTATED                                17
  11P GAIN WILD-TYPE                             508
D21V7, multiclass
                                 clus
vv                                11P GAIN MUTATED 11P GAIN WILD-TYPE
  ASTROCYTOMA                                    6                188
  GLIOBLASTOMA MULTIFORME (GBM)                  0                 30
  OLIGOASTROCYTOMA                               9                120
  OLIGODENDROGLIOMA                             17                172
  TREATED PRIMARY GBM                            0                 18
  UNTREATED PRIMARY (DE NOVO) GBM               17                508
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  11P GAIN MUTATED                                  0     0
  11P GAIN WILD-TYPE                                1    21
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  11P GAIN MUTATED                           1    47
  11P GAIN WILD-TYPE                        70   912
D21V8, multiclass
                                  clus
vv                                 11P GAIN MUTATED 11P GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           0                 21
  BLACK OR AFRICAN AMERICAN                       1                 70
  WHITE                                          47                912
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D21V9, binary
                    cls
clus                   0   1
  11P GAIN MUTATED     4  43
  11P GAIN WILD-TYPE  40 878
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11P GAIN MUTATED      4   43
  11P GAIN WILD-TYPE   40  878
                        clus
vv                       11P GAIN MUTATED 11P GAIN WILD-TYPE
  HISPANIC OR LATINO                    4                 40
  NOT HISPANIC OR LATINO               43                878
[1] 2 2
[1] FALSE

Clustering(22) Variable = 11Q GAIN MUTATION ANALYSIS
D22V1, survival
                    sevent
clus2                  0   1
  11Q GAIN MUTATED    50  24
  11Q GAIN WILD-TYPE 430 574
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                74               1004 
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                24                574 
$`11Q GAIN MUTATED`
TCGA-HW-7490 TCGA-19-4065 TCGA-27-2521 TCGA-CS-5396 TCGA-DB-5277 TCGA-DB-A4X9 
       45.60         7.04        16.77        53.62        50.86        46.42 
TCGA-DB-A64L TCGA-DB-A64Q TCGA-DB-A75L TCGA-DH-5144 TCGA-DH-A66D TCGA-DH-A66G 
       24.20         5.98        11.24        24.59        27.81        17.19 
TCGA-DH-A7UT TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6397 
       17.46       182.33        18.94       211.17        52.11        46.06 
TCGA-DU-6400 TCGA-DU-7018 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-A5TT 
        1.22        30.67        23.31        41.98         2.76        24.43 
TCGA-DU-A5TW TCGA-DU-A6S8 TCGA-FG-5962 TCGA-FG-7634 TCGA-FG-A60L TCGA-HT-7474 
       24.99        22.29        47.77        15.35        21.53         3.75 
TCGA-HT-7601 TCGA-HT-7604 TCGA-HT-7607 TCGA-HT-7684 TCGA-HT-7688 TCGA-HT-7693 
        5.03       122.47         3.16         6.05        31.69        17.52 
TCGA-HT-8109 TCGA-HT-A74K TCGA-HW-8319 TCGA-P5-A72W TCGA-QH-A65S TCGA-QH-A65X 
        5.56        15.35        39.75        10.42         2.53        15.85 
TCGA-QH-A6CZ TCGA-RY-A840 TCGA-RY-A845 TCGA-S9-A6TW TCGA-S9-A6TY TCGA-S9-A6WD 
        9.17        28.08        19.59        41.10        35.38        75.25 
TCGA-S9-A6WH TCGA-S9-A7IZ TCGA-S9-A7QY TCGA-S9-A89Z TCGA-TM-A84J TCGA-TQ-A7RJ 
       38.56        19.99        28.37        20.48        24.16        40.41 
TCGA-TQ-A7RN TCGA-TQ-A7RW TCGA-VM-A8C8 TCGA-VM-A8CA TCGA-VM-A8CF TCGA-WY-A85B 
       33.73        26.99        45.93        13.51        20.02        45.80 
TCGA-WY-A85C TCGA-02-0014 TCGA-02-0106 TCGA-02-2466 TCGA-06-0128 TCGA-06-0175 
       46.88        82.59        11.67        16.80        22.72         4.04 
TCGA-06-0221 TCGA-06-1086 TCGA-06-1087 TCGA-08-0386 TCGA-12-0818 TCGA-12-0826 
       19.82         6.84         4.04        18.02        91.76        27.78 
TCGA-12-0827 TCGA-19-1388 
       38.76        12.95 

$`11Q GAIN WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K 
       42.05        62.01        17.16        23.90        20.09        17.82 
TCGA-FG-A713 TCGA-FG-A87N TCGA-HT-A619 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 
       20.45        18.64        21.40        42.77        59.38        15.32 
TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 
       11.74         3.55         8.35         4.54         8.81         8.98 
TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 
        8.55         6.71         2.73         3.75         6.15         4.57 
TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 
        5.23         8.32        12.85         4.77         1.55         4.77 
TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK 
        4.96        26.79         1.87         3.12         2.56        14.60 
TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 
       17.72        15.35        21.73        15.65        25.68        14.73 
TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 
        6.77        59.77        44.02        26.93        15.22        10.95 
TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 
       12.69        34.92        14.53        14.93         3.22         2.04 
TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 
       15.12        11.97         0.95         6.21        23.05        13.78 
TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 
        3.25         2.89        16.50        26.33        15.95         1.38 
TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 
        1.12         3.75        32.05        58.78        23.11         7.10 
TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 
        1.15        30.18         0.92        40.96         6.67        12.43 
TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 
        0.99         1.97        17.79        17.85         7.63         5.88 
TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-3477 TCGA-14-4157 TCGA-16-0848 
        7.17        17.49         7.96         3.78         3.42        17.59 
TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 
       29.03         4.57        10.29        14.01         9.14        21.24 
TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 
       13.97         6.41         8.61        14.27         3.39        25.38 
TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 
        3.65         7.17        12.66         3.25         0.13         9.67 
TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 
        4.87         1.08         7.53         0.16         4.08        24.23 
TCGA-19-2631 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 
        7.00         6.64        17.19         8.02        18.90         4.73 
TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 
       12.10         1.78        22.49        14.07        16.80        14.96 
TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 
       17.79        28.54        10.03        13.87         9.73         7.13 
TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 
        9.37         9.40         8.88        18.97        19.33         5.06 
TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 
       16.60         9.86        24.23        40.54        21.30        30.05 
TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2523 TCGA-27-2524 
       14.04        11.51        24.76        18.08        16.08         7.59 
TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 
        2.86        14.40        15.78         0.20         2.53         9.21 
TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 
        8.35         7.63         8.48         1.22         1.55         2.83 
TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 TCGA-32-1970 TCGA-32-1973 
        0.13         0.66         6.74         4.77        15.39        21.07 
TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 
        0.49         0.10        15.85        19.50         1.18         4.67 
TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 
       12.69        14.86        16.93        12.23        20.78        15.02 
TCGA-32-2615 TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 
       15.95         8.84        22.78        25.18        21.14         3.72 
TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 
       12.59        19.86        10.85        19.23         0.85        13.35 
TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 TCGA-41-4097 
        8.94         9.53         0.99         4.44        11.84         0.20 
TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 
       15.12        12.46         4.08         1.45        25.58         3.45 
TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 
       20.91         4.34        14.33         8.22         7.50         4.80 
TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 
        4.54         3.09         3.65         9.17         2.53        36.85 
TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 
       16.70         3.29         2.70        17.06         8.35        20.98 
TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 
        4.83         5.03        23.90        34.45        18.64        36.20 
TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 
        5.92         6.28        20.55       117.50         7.69        43.89 
TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5397 
       36.36        60.10        40.18         0.26        21.01         6.38 
TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       17.69        26.76        37.38        46.95        48.30        49.94 
TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 
       49.12       122.73        81.96        75.25        47.93        72.92 
TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4XA TCGA-DB-A4XB 
       91.13        44.52        36.56        78.28        18.84        30.21 
TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64O 
       39.78        37.45        33.57        72.95        31.63        25.48 
TCGA-DB-A64P TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W 
       30.12        31.40        27.45        27.81        29.23        14.40 
TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       18.51        12.10        17.88        30.74        16.18        19.96 
TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-A669 TCGA-DH-A66F TCGA-DH-A7UR TCGA-DH-A7US 
       63.88        46.06        30.21        17.19        54.25        23.21 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6394 
       13.38         8.45         6.81        17.49        15.16        22.42 
TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6399 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       49.02        75.16        65.75        87.45         7.04        11.64 
TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 
      133.74        19.89        16.83        94.52       114.08         7.96 
TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7019 
      105.21         6.54         8.84       117.40        90.77        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 
       10.36         7.96        94.32        18.94        44.02        25.91 
TCGA-DU-7302 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 
       60.30         5.10        23.74        14.60        20.68        21.40 
TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR 
       19.13        16.96        15.48        14.17        33.27        29.85 
TCGA-DU-A5TS TCGA-DU-A5TU TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       31.69        26.17        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 
       20.98        11.41        26.76        21.30        17.98       139.04 
TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI 
       84.33        51.52        37.38         7.50        44.42        38.89 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 
        0.56        50.14        67.46        41.13        79.99        57.93 
TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE 
      134.27        78.21        95.57       130.78        14.30        29.13 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       93.21         3.65        19.46        12.43        16.18        21.30 
TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW 
       75.02        51.88        15.32         0.76        32.45        36.82 
TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 
      146.14        13.08        73.48       145.05        32.35        39.48 
TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 
        0.23         0.20        25.48        52.21        36.82        18.77 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7636 TCGA-FG-7638 
       14.93        42.54        41.33        18.44        17.88        22.55 
TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 
       20.61        20.09        28.34        13.68        14.24        16.01 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       14.96        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 
       18.71        23.70        14.76        15.02        16.44        22.26 
TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 
       28.54        10.78        36.66        48.69         5.72        27.52 
TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 
        0.10         6.67        11.54        40.11         0.13         0.03 
TCGA-HT-7473 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 
       16.54        17.42         6.54        24.26         6.38        40.34 
TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7602 
       75.19        95.93       106.95       172.77         4.01        29.85 
TCGA-HT-7603 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
       23.18         4.57        17.29        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       57.60         0.23        14.27         0.16        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 
       44.68        42.74         0.10        14.96         0.10         0.10 
TCGA-HT-7692 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 
        2.96         6.90        14.53        39.48        19.23        39.09 
TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 
        0.23        50.63         0.49        23.61        37.15         0.33 
TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 
        0.13         3.68         5.33        35.47         3.72        11.28 
TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 
       31.43         1.64        16.24         9.40        63.55         0.10 
TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 
       37.87        33.01        12.23         6.25         0.10         0.46 
TCGA-HT-8108 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 
        2.50        13.78         0.23        29.59        34.19        28.27 
TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 
       15.72         0.23        26.04         0.13        20.22         0.07 
TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 
       27.35         0.10         5.33         2.70        16.93         1.81 
TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J 
       16.14        16.83        17.52        17.65         2.43        10.52 
TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 
       11.05         0.10        56.58        45.44        41.49        68.32 
TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ 
       69.27        35.44        40.01        42.54        24.92        31.63 
TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 
       12.76        28.87        20.71        19.00        14.40        14.40 
TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 
        0.23         6.71         7.99         2.37         2.30         9.44 
TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72X 
        5.88         7.96         7.59         1.28         0.23        13.25 
TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 
       11.64        10.95         9.01        13.61         9.60         7.56 
TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R 
       12.23        19.20         3.45         2.37         4.41        15.16 
TCGA-QH-A65V TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW 
       12.62        14.04        19.33        14.83        14.53        13.61 
TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
       12.23        13.41        10.29        14.53        16.34        16.73 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
        1.91        16.50        16.70        11.08        12.99        88.83 
TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A843 
       94.03        32.65        30.87         5.46         9.90         2.07 
TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TX TCGA-S9-A6TZ 
       30.67        62.17        87.12        18.77        40.93        36.82 
TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       24.39        25.81        29.85        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WI 
       95.93         5.85       123.65       135.22        85.55        84.99 
TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ 
       31.10        19.86        26.47        18.61        18.64        14.07 
TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7J0 TCGA-S9-A7J1 
       36.13         7.92        26.93        23.51        20.02         8.19 
TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QZ TCGA-S9-A7R1 
        2.04        20.68        15.06        18.54        27.16       169.84 
TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V 
       10.39        99.06        30.05        98.63        31.59        18.71 
TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B 
       54.77        48.33        49.32        34.78        65.39        24.92 
TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84L 
       16.18        59.05        40.64        30.44        28.08        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RK TCGA-TQ-A7RM 
       21.37        19.69        15.98         2.04        44.09        36.69 
TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV 
       31.20        30.05        26.14        25.87        33.93        61.41 
TCGA-TQ-A8XE TCGA-VM-A8C9 TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CH 
       31.36        43.20         0.10         7.89        39.16        23.47 
TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K 
       37.05        16.01        23.21         8.05        51.06        13.32 
TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 
       43.96        39.88        43.40        37.71        20.81         7.63 
TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 
       11.77         4.73        18.35        23.18        10.59        35.41 
TCGA-02-0011 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 
       20.71        20.61        87.06        77.65        20.12        53.10 
TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 
       42.74        24.59        12.16        90.58         2.83        14.14 
TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 
        3.62        10.72        10.52        18.31         6.87        14.73 
TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0055 TCGA-02-0057 
        3.22        15.09        12.59         6.54         2.50        19.86 
TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 
        8.35         9.57         6.02        19.73        26.43        28.70 
TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 TCGA-02-0079 TCGA-02-0080 
       25.05         5.49        10.19        20.84        27.25        89.72 
TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 
       22.72        12.62        51.32         8.81        57.76        16.96 
TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0107 TCGA-02-0111 TCGA-02-0113 
        3.48        27.02        65.00        17.65        23.18        92.65 
TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 
       99.98        15.65        48.95        16.54        16.93        17.72 
TCGA-02-0269 TCGA-02-0271 TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 
       10.75        14.47         3.98        13.87        14.20        15.95 
TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 
       12.23         9.90         7.73        10.62         7.33        15.91 
TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 
       25.71         4.37        25.12        10.59        12.39        14.50 
TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 
       10.55        47.11        11.34         9.27        16.21         3.35 
TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 
       12.92        15.32        15.45        20.32         2.70         6.15 
TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0129 TCGA-06-0130 
       20.38        47.61         6.94         3.98        33.67        12.95 
TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 
       25.35        14.30        26.70        24.23        11.90         0.20 
TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 
       10.29         2.20        11.74         2.33        20.09        17.79 
TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 
       10.09         8.61        19.46        46.59        12.33        13.94 
TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 
       10.45         3.19        10.82         9.44        11.80         3.42 
TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 
       56.91        10.65         5.85        19.66         3.29        13.12 
TCGA-06-0173 TCGA-06-0174 TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 
        4.47         3.22        91.00         4.18        88.14        20.25 
TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 
        3.65        69.90        73.84        27.22        44.58        15.42 
TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 
       10.42        38.96         4.67         7.40         5.56         0.39 
TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 
        7.66         8.42         7.40        11.84         0.53        15.02 
TCGA-06-0216 TCGA-06-0219 TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 
       24.16         0.72        13.64        13.32        20.42        48.69 
TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 TCGA-06-0410 TCGA-06-0412 
       10.82         9.01         0.26        72.36         4.70         9.57 
TCGA-06-0413 TCGA-06-0414 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 
        3.16        35.11        12.62         5.75         5.75         9.80 
TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 
        2.10        23.57        14.20        26.40        46.88         7.86 
TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 
        2.70         2.70         0.92        43.46        46.19         7.17 
TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1800 
       40.41        16.57        20.78        26.76        23.93        26.79 
TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 
       11.84        15.32        13.61        33.90         1.08        12.49 
TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 
        4.93        17.65        12.56        30.64         5.95        16.64 
TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 
        5.98         4.37         0.43        31.50         7.79         5.39 
TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 TCGA-08-0344 
      120.56         7.36        22.68        37.84         4.18       115.86 
TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 
        1.74         8.42        25.71        12.16         9.80        29.23 
TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 
       65.33         1.28         8.42        17.95        24.56        31.10 
TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0389 
       37.58        22.29         3.39        12.23        14.93        15.35 
TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 TCGA-08-0510 TCGA-08-0512 TCGA-08-0514 
       13.97         0.72        12.56         4.27        42.15        11.08 
TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 
       19.59        58.68        19.33        10.75         4.80         7.27 
TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 
       15.98        18.41         7.56        14.73        12.99        34.92 
TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 
       10.45         7.59        94.78         0.10        38.17        25.97 
TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 
       26.66        12.13         3.65        20.38        28.41        15.06 
TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 
       53.85        43.23         7.63         9.73        14.93        14.86 
TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0828 TCGA-12-0829 
       24.79        18.48        10.62        23.51         8.94        20.58 
TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 
      127.59         5.82         7.59        33.21        15.98        12.23 
TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 TCGA-14-0787 
       15.85         9.11        14.53         3.98         4.14         2.24 
TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 TCGA-14-0867 TCGA-14-0871 TCGA-14-1037 
       11.24         1.35         5.39         2.04        28.93        19.30 
TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 TCGA-15-1447 TCGA-15-1449 
        0.79        13.78        50.53        19.10        53.19        13.28 
TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 
        3.91        26.07        16.37        11.77        21.90         0.66 
TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 
       10.75         9.07         5.95         4.64        31.33        14.86 
TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 
        5.49         1.58         7.92         2.33         7.30         5.26 
TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 
       14.93        11.28        17.88        14.53        11.77        31.27 
TCGA-28-5214 TCGA-28-5215 TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 
       23.44        11.01        13.64         5.16        22.68        12.76 
TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 
        5.42         7.36        11.38         5.42         3.75         1.61 
TCGA-81-5911 TCGA-87-5896 
       17.72        26.30 

  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
              1.22               0.03 
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
            211.17             172.77 
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
            23.015             15.405 
[1] "1.2 - 211.2 (23.0)" "0.0 - 172.8 (15.4)"
[1] "hr=" "2.4"
D22V2, continuous
D22V3, binary
                    cls
clus                   0   1
  11Q GAIN MUTATED    15  59
  11Q GAIN WILD-TYPE 558 453
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11Q GAIN MUTATED     15   59
  11Q GAIN WILD-TYPE  558  453
                        clus
vv                       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  BRAIN                                15                558
  CENTRAL NERVOUS SYSTEM               59                453
[1] 2 2
[1] FALSE
D22V4, binary
                    cls
clus                   0   1
  11Q GAIN MUTATED    34  40
  11Q GAIN WILD-TYPE 419 592
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11Q GAIN MUTATED     34   40
  11Q GAIN WILD-TYPE  419  592
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  FEMALE               34                419
  MALE                 40                592
[1] 2 2
[1] FALSE
D22V5, binary
                    cls
clus                   0   1
  11Q GAIN MUTATED    24  50
  11Q GAIN WILD-TYPE 234 720
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11Q GAIN MUTATED     24   50
  11Q GAIN WILD-TYPE  234  720
     clus
vv    11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  NO                24                234
  YES               50                720
[1] 2 2
[1] FALSE
D22V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  11Q GAIN MUTATED            18                             0               14
  11Q GAIN WILD-TYPE         176                            30              115
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  11Q GAIN MUTATED                  27                   1
  11Q GAIN WILD-TYPE               162                  17
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  11Q GAIN MUTATED                                14
  11Q GAIN WILD-TYPE                             511
D22V7, multiclass
                                 clus
vv                                11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  ASTROCYTOMA                                   18                176
  GLIOBLASTOMA MULTIFORME (GBM)                  0                 30
  OLIGOASTROCYTOMA                              14                115
  OLIGODENDROGLIOMA                             27                162
  TREATED PRIMARY GBM                            1                 17
  UNTREATED PRIMARY (DE NOVO) GBM               14                511
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  11Q GAIN MUTATED                                  0     0
  11Q GAIN WILD-TYPE                                1    21
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  11Q GAIN MUTATED                           3    68
  11Q GAIN WILD-TYPE                        68   891
D22V8, multiclass
                                  clus
vv                                 11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           0                 21
  BLACK OR AFRICAN AMERICAN                       3                 68
  WHITE                                          68                891
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D22V9, binary
                    cls
clus                   0   1
  11Q GAIN MUTATED     5  62
  11Q GAIN WILD-TYPE  39 859
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11Q GAIN MUTATED      5   62
  11Q GAIN WILD-TYPE   39  859
                        clus
vv                       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  HISPANIC OR LATINO                    5                 39
  NOT HISPANIC OR LATINO               62                859
[1] 2 2
[1] FALSE

Clustering(23) Variable = 12P GAIN MUTATION ANALYSIS
D23V1, survival
                    sevent
clus2                  0   1
  12P GAIN MUTATED    31  61
  12P GAIN WILD-TYPE 449 537
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                92                986 
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                61                537 
$`12P GAIN MUTATED`
TCGA-06-5415 TCGA-06-A7TL TCGA-12-1598 TCGA-12-3653 TCGA-14-0740 TCGA-14-0790 
        8.55        17.72        15.65        14.53        11.97        13.78 
TCGA-14-1396 TCGA-14-1453 TCGA-14-1821 TCGA-14-1823 TCGA-14-2554 TCGA-16-1460 
        1.12         1.15        17.79        17.85        17.49         6.41 
TCGA-19-1787 TCGA-27-1838 TCGA-28-1756 TCGA-28-2506 TCGA-32-1979 TCGA-32-2615 
       12.66        11.51         2.83         6.74        19.50        15.95 
TCGA-32-4208 TCGA-32-5222 TCGA-74-6577 TCGA-DB-5273 TCGA-DB-5275 TCGA-DB-A4XE 
       21.14        19.23         4.34        81.96        47.93        37.45 
TCGA-DB-A64P TCGA-DH-A669 TCGA-DU-6395 TCGA-DU-6400 TCGA-DU-6542 TCGA-DU-7007 
       30.12        30.21        49.02         1.22         2.40        62.96 
TCGA-DU-8165 TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TY TCGA-DU-A7T8 TCGA-DU-A7TI 
       19.13        24.43        26.17        33.96       139.04        38.89 
TCGA-E1-5304 TCGA-E1-A7YQ TCGA-E1-A7YW TCGA-FG-7634 TCGA-FG-8182 TCGA-FG-8191 
       41.13        51.88        36.82        15.35        13.68        32.61 
TCGA-HT-7469 TCGA-HT-7473 TCGA-HT-7604 TCGA-HT-7873 TCGA-HT-7884 TCGA-HT-8018 
       11.54        16.54       122.47        23.61        11.28        37.87 
TCGA-HT-A614 TCGA-QH-A6CV TCGA-S9-A7IZ TCGA-TM-A84I TCGA-WY-A858 TCGA-WY-A85E 
        2.70        14.53        19.99        28.08        43.96        20.81 
TCGA-02-0001 TCGA-02-0024 TCGA-02-0051 TCGA-02-0054 TCGA-02-0070 TCGA-02-0074 
       11.77        53.10        15.09         6.54        25.05        10.19 
TCGA-02-0087 TCGA-02-0266 TCGA-02-0271 TCGA-02-0324 TCGA-06-0146 TCGA-06-0151 
       57.76        17.72        14.47         7.73        20.09        46.59 
TCGA-06-0162 TCGA-06-0164 TCGA-06-0184 TCGA-06-0187 TCGA-06-0188 TCGA-06-0192 
        3.42        56.91        69.90        27.22        44.58        38.96 
TCGA-06-0216 TCGA-06-0409 TCGA-06-0649 TCGA-06-0743 TCGA-06-1086 TCGA-06-1087 
       24.16        72.36         2.10        26.40         6.84         4.04 
TCGA-06-2561 TCGA-06-6389 TCGA-06-6694 TCGA-08-0246 TCGA-08-0516 TCGA-12-0691 
       17.65         7.79         7.36         4.18        19.59        12.13 
TCGA-12-0776 TCGA-12-0778 TCGA-12-1090 TCGA-12-1098 TCGA-15-1449 TCGA-28-5207 
        9.73        14.93         7.59         3.98        13.28        11.28 
TCGA-28-5218 TCGA-76-6660 
        5.16         3.75 

$`12P GAIN WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K 
       42.05        62.01        17.16        23.90        20.09        17.82 
TCGA-FG-A713 TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M 
       20.45        18.64        21.40        45.60        42.77        59.38 
TCGA-06-1806 TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 
       15.32        11.74         3.55         8.35         4.54         8.81 
TCGA-06-5414 TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 
        8.98         6.71         2.73         3.75         6.15         4.57 
TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 
        5.23         8.32        12.85         4.77         1.55         4.77 
TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK 
        4.96        26.79         1.87         3.12         2.56        14.60 
TCGA-12-0615 TCGA-12-1092 TCGA-12-1599 TCGA-12-1600 TCGA-12-1602 TCGA-12-3644 
       15.35        21.73        25.68        14.73         6.77        59.77 
TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 
       44.02        26.93        15.22        10.95        12.69        34.92 
TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 TCGA-14-0781 TCGA-14-0783 
       14.93         3.22         2.04        15.12         0.95         6.21 
TCGA-14-0786 TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 
       23.05         3.25         2.89        16.50        26.33        15.95 
TCGA-14-1395 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 
        1.38         3.75        32.05        58.78        23.11         7.10 
TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1794 
       30.18         0.92        40.96         6.67        12.43         0.99 
TCGA-14-1795 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2555 TCGA-14-3477 
        1.97         7.63         5.88         7.17         7.96         3.78 
TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 
        3.42        17.59        29.03         4.57        10.29        14.01 
TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 
        9.14        21.24        13.97         8.61        14.27         3.39 
TCGA-19-1390 TCGA-19-1392 TCGA-19-1786 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 
       25.38         3.65         7.17         3.25         0.13         9.67 
TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 
        4.87         1.08         7.53         0.16         4.08        24.23 
TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 
        7.00         7.04         6.64        17.19         8.02        18.90 
TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 
        4.73        12.10         1.78        22.49        14.07        16.80 
TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 TCGA-26-1440 
       14.96        17.79        28.54        10.03        13.87         9.73 
TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX 
        7.13         9.37         9.40         8.88        18.97        19.33 
TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 
        5.06        16.60         9.86        24.23        40.54        21.30 
TCGA-27-1836 TCGA-27-1837 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 
       30.05        14.04        24.76        18.08        16.77        16.08 
TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 
        7.59         2.86        14.40        15.78         0.20         2.53 
TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 
        9.21         8.35         7.63         8.48         1.22         1.55 
TCGA-28-1757 TCGA-28-2502 TCGA-28-2509 TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 
        0.13         0.66         4.77        15.39        21.07         0.49 
TCGA-32-1977 TCGA-32-1978 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 
        0.10        15.85         1.18         4.67        12.69        14.86 
TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 TCGA-32-2632 TCGA-32-2634 
       16.93        12.23        20.78        15.02         8.84        22.78 
TCGA-32-2638 TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-41-2571 
       25.18         3.72        12.59        19.86        10.85         0.85 
TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 
       13.35         8.94         9.53         0.99         4.44        11.84 
TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T 
        0.20        15.12        12.46         4.08         1.45        25.58 
TCGA-74-6573 TCGA-74-6575 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 
        3.45        20.91        14.33         8.22         7.50         4.80 
TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 
        4.54         3.09         3.65         9.17         2.53        36.85 
TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 
       16.70         3.29         2.70        17.06         8.35        20.98 
TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 
        4.83         5.03        23.90        34.45        18.64        36.20 
TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 
        5.92         6.28        20.55       117.50         7.69        43.89 
TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 
       36.36        60.10        40.18         0.26        21.01        53.62 
TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 
        6.38        17.69        26.76        37.38        46.95        48.30 
TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5274 TCGA-DB-5276 TCGA-DB-5277 
       49.94        49.12       122.73        75.25        72.92        50.86 
TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA 
       91.13        44.52        36.56        78.28        46.42        18.84 
TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L 
       30.21        39.78        33.57        72.95        31.63        24.20 
TCGA-DB-A64O TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V 
       25.48         5.98        31.40        27.45        27.81        29.23 
TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O 
       14.40        18.51        12.10        11.24        17.88        30.74 
TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A66D 
       16.18        19.96        63.88        46.06        24.59        27.81 
TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU 
       17.19        17.19        54.25        23.21        17.46        13.71 
TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 
       18.61        18.02        14.56        17.46         6.74        13.38 
TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 
        8.45         6.81       182.33        18.94        17.49        15.16 
TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
      211.17        52.11        22.42        75.16        46.06        65.75 
TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 
       87.45         7.04        11.64       133.74        19.89        16.83 
TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-7006 TCGA-DU-7008 TCGA-DU-7009 
       94.52       114.08         7.96        11.47       156.23       154.36 
TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 
       14.99       105.21         6.54         8.84       117.40        90.77 
TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 
       30.67        26.30        10.36         7.96        94.32        18.94 
TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 
       44.02        25.91        60.30        23.31        41.98         2.76 
TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8166 
        5.10        23.74        14.60        20.68        21.40        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TW 
       15.48        14.17        33.27        29.85        31.69        24.99 
TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K 
       25.55        21.57        95.11        20.98        22.29        11.41 
TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC 
       26.76        21.30        17.98        84.33        51.52        37.38 
TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5305 
        7.50        44.42         0.56        50.14        67.46        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       57.93       134.27        78.21        95.57       130.78        14.30 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL 
       29.13        93.21         3.65        19.46        12.43        16.18 
TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YY 
       21.30        75.02        15.32         0.76        32.45       146.14 
TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 
       13.08        73.48       145.05        32.35        39.48         0.23 
TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 
        0.20        47.77        25.48        52.21        36.82        18.77 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7636 TCGA-FG-7638 
       14.93        42.54        41.33        18.44        17.88        22.55 
TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 
       20.61        20.09        28.34        14.24        16.01        14.96 
TCGA-FG-8189 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY 
       22.52        38.27        10.72        18.38        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y 
       14.76        21.53        15.02        16.44        22.26        28.54 
TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 
       10.78        36.66        48.69         5.72        27.52         0.10 
TCGA-HT-7468 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7474 TCGA-HT-7475 
        6.67        40.11         0.13         0.03         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
        6.54        24.26         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
        4.57        17.29         3.16        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       57.60         0.23        14.27         0.16        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 
       44.68         6.05        42.74         0.10        31.69        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
        0.10         0.10         2.96        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 
       39.48        19.23        39.09         0.23        50.63         0.49 
TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
       37.15         0.33         0.13         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 
        3.72        31.43         1.64        16.24         9.40        63.55 
TCGA-HT-8015 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 
        0.10        33.01        12.23         6.25         0.10         0.46 
TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 
        2.50         5.56        13.78         0.23        29.59        34.19 
TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 
       28.27        15.72         0.23        26.04         0.13        20.22 
TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A615 TCGA-HT-A616 
        0.07        27.35         0.10         5.33        16.93         1.81 
TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J 
       16.14        16.83        17.52        17.65         2.43        10.52 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 
       15.35        11.05         0.10        56.58        45.44        41.49 
TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       68.32        69.27        35.44        39.75        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 
       24.92        31.63        12.76        28.87        20.71        19.00 
TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY 
       14.40        14.40         0.23         6.71         7.99         2.37 
TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 
        2.30         9.44         5.88         7.96         7.59         1.28 
TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 
        0.23        10.42        13.25        11.64        10.95         9.01 
TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X 
       13.61         9.60         7.56        12.23        19.20         3.45 
TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X 
        2.37         4.41        15.16         2.53        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY 
       14.04        19.33        14.83        13.61        12.23        13.41 
TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 
        9.17        10.29        14.53        16.34        16.73         1.91 
TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML 
       16.50        16.70        11.08        12.99        88.83        94.03 
TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 
       32.65        30.87         5.46         9.90        28.08         2.07 
TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW 
       19.59        30.67        62.17        87.12        18.77        41.10 
TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 
       40.93        35.38        36.82        24.39        25.81        29.85 
TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB 
       32.61        35.15        98.24        95.93         5.85       123.65 
TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL 
       75.25       135.22        85.55        38.56        84.99        31.10 
TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ 
       19.86        26.47        18.61        18.64        14.07        36.13 
TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 
        7.92        26.93        23.51        20.02         8.19         2.04 
TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 
       20.68        15.06        18.54        28.37        27.16       169.84 
TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V 
       10.39        99.06        30.05        98.63        31.59        18.71 
TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF 
       20.48        54.77        48.33        49.32        34.78        65.39 
TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84J 
       24.92        16.18        59.05        40.64        30.44        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ 
       23.80        21.37        19.69        15.98         2.04        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ 
       44.09        36.69        33.73        31.20        30.05        26.14 
TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 
       25.87        33.93        61.41        26.99        31.36        45.93 
TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF 
       43.20        13.51         0.10         7.89        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 
       23.47        37.05        16.01        23.21         8.05        51.06 
TCGA-WH-A86K TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D 
       13.32        39.88        43.40        45.80        46.88        37.71 
TCGA-06-0209 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 
        7.63         4.73        18.35        23.18        10.59        35.41 
TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 
       20.71        82.59        20.61        87.06        77.65        20.12 
TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 
       42.74        24.59        12.16        90.58         2.83        14.14 
TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 
        3.62        10.72        10.52        18.31         6.87        14.73 
TCGA-02-0048 TCGA-02-0052 TCGA-02-0055 TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 
        3.22        12.59         2.50        19.86         8.35         9.57 
TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 TCGA-02-0071 TCGA-02-0075 
        6.02        19.73        26.43        28.70         5.49        20.84 
TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 
       27.25        89.72        22.72        12.62        51.32         8.81 
TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0106 TCGA-02-0107 
       16.96         3.48        27.02        65.00        11.67        17.65 
TCGA-02-0111 TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 
       23.18        92.65        99.98        15.65        48.95        16.54 
TCGA-02-0260 TCGA-02-0269 TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 
       16.93        10.75         3.98        13.87        14.20        15.95 
TCGA-02-0317 TCGA-02-0321 TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 
       12.23         9.90        10.62         7.33        15.91        25.71 
TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 
        4.37        25.12        10.59        12.39        14.50        10.55 
TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 
       47.11        11.34         9.27        16.21         3.35        16.80 
TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 
       12.92        15.32        15.45        20.32         2.70         6.15 
TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 
       20.38        47.61         6.94         3.98        22.72        33.67 
TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 
       12.95        25.35        14.30        26.70        24.23        11.90 
TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0147 
        0.20        10.29         2.20        11.74         2.33        17.79 
TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 
       10.09         8.61        19.46        12.33        13.94        10.45 
TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0165 TCGA-06-0166 
        3.19        10.82         9.44        11.80        10.65         5.85 
TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 
       19.66         3.29        13.12         4.47         3.22         4.04 
TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0185 
       91.00         4.18        88.14        20.25         3.65        73.84 
TCGA-06-0189 TCGA-06-0190 TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 
       15.42        10.42         4.67         7.40         5.56         0.39 
TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 
        7.66         8.42         7.40        11.84         0.53        15.02 
TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 
        0.72        19.82        13.64        13.32        20.42        48.69 
TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 
       10.82         9.01         0.26         4.70         9.57         3.16 
TCGA-06-0414 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0650 
       35.11        12.62         5.75         5.75         9.80        23.57 
TCGA-06-0686 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 
       14.20        46.88         7.86         2.70         2.70         0.92 
TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 
       43.46        46.19         7.17        40.41        16.57        20.78 
TCGA-06-0939 TCGA-06-1084 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 
       26.76        23.93        26.79        11.84        15.32        13.61 
TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2562 TCGA-06-2563 
       33.90         1.08        12.49         4.93        12.56        30.64 
TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 
        5.95        16.64         5.98         4.37         0.43        31.50 
TCGA-06-6390 TCGA-06-6693 TCGA-08-0244 TCGA-08-0245 TCGA-08-0344 TCGA-08-0345 
        5.39       120.56        22.68        37.84       115.86         1.74 
TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 
        8.42        25.71        12.16         9.80        29.23        65.33 
TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 
        1.28         8.42        17.95        24.56        31.10        37.58 
TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 
       22.29         3.39        12.23        14.93        18.02        15.35 
TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 TCGA-08-0510 TCGA-08-0512 TCGA-08-0514 
       13.97         0.72        12.56         4.27        42.15        11.08 
TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 
       58.68        19.33        10.75         4.80         7.27        15.98 
TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 
       18.41         7.56        14.73        12.99        34.92        10.45 
TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 
        7.59        94.78         0.10        38.17        25.97        26.66 
TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 
        3.65        20.38        28.41        15.06        53.85        43.23 
TCGA-12-0775 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 
        7.63        14.86        91.76        24.79        18.48        10.62 
TCGA-12-0822 TCGA-12-0826 TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 
       23.51        27.78        38.76         8.94        20.58       127.59 
TCGA-12-1089 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 
        5.82        33.21        15.98        12.23        15.85         9.11 
TCGA-12-1097 TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 
       14.53         4.14         2.24        11.24         1.35         5.39 
TCGA-14-0867 TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 
        2.04        28.93        19.30         0.79        13.78        50.53 
TCGA-15-1446 TCGA-15-1447 TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 
       19.10        53.19         3.91        26.07        16.37        11.77 
TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1388 
       21.90         0.66        10.75         9.07         5.95        12.95 
TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 
        4.64        31.33        14.86         5.49         1.58         7.92 
TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 TCGA-28-5208 TCGA-28-5209 
        2.33         7.30         5.26        14.93        17.88        14.53 
TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5215 TCGA-28-5216 TCGA-28-5219 
       11.77        31.27        23.44        11.01        13.64        22.68 
TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-81-5910 
       12.76         5.42         7.36        11.38         5.42         1.61 
TCGA-81-5911 TCGA-87-5896 
       17.72        26.30 

  12P GAIN MUTATED 12P GAIN WILD-TYPE 
              1.12               0.03 
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
            139.04             211.17 
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
            17.570             15.965 
[1] "1.1 - 139.0 (17.6)" "0.0 - 211.2 (16.0)"
[1] "hr=" "1.2"
D23V2, continuous
D23V3, binary
                    cls
clus                   0   1
  12P GAIN MUTATED    60  33
  12P GAIN WILD-TYPE 513 479
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12P GAIN MUTATED     60   33
  12P GAIN WILD-TYPE  513  479
                        clus
vv                       12P GAIN MUTATED 12P GAIN WILD-TYPE
  BRAIN                                60                513
  CENTRAL NERVOUS SYSTEM               33                479
[1] 2 2
[1] FALSE
D23V4, binary
                    cls
clus                   0   1
  12P GAIN MUTATED    37  56
  12P GAIN WILD-TYPE 416 576
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12P GAIN MUTATED     37   56
  12P GAIN WILD-TYPE  416  576
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  FEMALE               37                416
  MALE                 56                576
[1] 2 2
[1] FALSE
D23V5, binary
                    cls
clus                   0   1
  12P GAIN MUTATED     9  79
  12P GAIN WILD-TYPE 249 691
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12P GAIN MUTATED      9   79
  12P GAIN WILD-TYPE  249  691
     clus
vv    12P GAIN MUTATED 12P GAIN WILD-TYPE
  NO                 9                249
  YES               79                691
[1] 2 2
[1] FALSE
D23V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  12P GAIN MUTATED            11                             3               12
  12P GAIN WILD-TYPE         183                            27              117
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  12P GAIN MUTATED                  10                   1
  12P GAIN WILD-TYPE               179                  17
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  12P GAIN MUTATED                                56
  12P GAIN WILD-TYPE                             469
D23V7, multiclass
                                 clus
vv                                12P GAIN MUTATED 12P GAIN WILD-TYPE
  ASTROCYTOMA                                   11                183
  GLIOBLASTOMA MULTIFORME (GBM)                  3                 27
  OLIGOASTROCYTOMA                              12                117
  OLIGODENDROGLIOMA                             10                179
  TREATED PRIMARY GBM                            1                 17
  UNTREATED PRIMARY (DE NOVO) GBM               56                469
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  12P GAIN MUTATED                                  0     2
  12P GAIN WILD-TYPE                                1    19
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  12P GAIN MUTATED                           6    81
  12P GAIN WILD-TYPE                        65   878
D23V8, multiclass
                                  clus
vv                                 12P GAIN MUTATED 12P GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           2                 19
  BLACK OR AFRICAN AMERICAN                       6                 65
  WHITE                                          81                878
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D23V9, binary
                    cls
clus                   0   1
  12P GAIN MUTATED     2  77
  12P GAIN WILD-TYPE  42 844
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12P GAIN MUTATED      2   77
  12P GAIN WILD-TYPE   42  844
                        clus
vv                       12P GAIN MUTATED 12P GAIN WILD-TYPE
  HISPANIC OR LATINO                    2                 42
  NOT HISPANIC OR LATINO               77                844
[1] 2 2
[1] FALSE

Clustering(24) Variable = 12Q GAIN MUTATION ANALYSIS
D24V1, survival
                    sevent
clus2                  0   1
  12Q GAIN MUTATED    15  49
  12Q GAIN WILD-TYPE 465 549
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                64               1014 
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                49                549 
$`12Q GAIN MUTATED`
TCGA-06-6391 TCGA-06-5415 TCGA-06-A7TL TCGA-12-3653 TCGA-14-0790 TCGA-14-1396 
        1.48         8.55        17.72        14.53        13.78         1.12 
TCGA-14-1453 TCGA-14-1821 TCGA-14-1823 TCGA-14-2554 TCGA-19-1786 TCGA-19-1787 
        1.15        17.79        17.85        17.49         7.17        12.66 
TCGA-27-1838 TCGA-28-2506 TCGA-32-1979 TCGA-32-2615 TCGA-32-4208 TCGA-32-5222 
       11.51         6.74        19.50        15.95        21.14        19.23 
TCGA-74-6577 TCGA-DH-A669 TCGA-DU-6395 TCGA-DU-6400 TCGA-DU-6542 TCGA-DU-7007 
        4.34        30.21        49.02         1.22         2.40        62.96 
TCGA-DU-8165 TCGA-DU-A5TT TCGA-DU-A5TY TCGA-DU-A7TA TCGA-DU-A7TI TCGA-E1-5304 
       19.13        24.43        33.96        84.33        38.89        41.13 
TCGA-E1-A7YQ TCGA-FG-7634 TCGA-HT-7873 TCGA-QH-A6CV TCGA-S9-A6UA TCGA-02-0001 
       51.88        15.35        23.61        14.53         5.85        11.77 
TCGA-02-0051 TCGA-02-0054 TCGA-02-0060 TCGA-02-0070 TCGA-02-0074 TCGA-02-0087 
       15.09         6.54         6.02        25.05        10.19        57.76 
TCGA-02-0271 TCGA-02-0324 TCGA-06-0151 TCGA-06-0164 TCGA-06-0188 TCGA-06-0192 
       14.47         7.73        46.59        56.91        44.58        38.96 
TCGA-06-0216 TCGA-06-0409 TCGA-06-0743 TCGA-06-1086 TCGA-06-1087 TCGA-06-2561 
       24.16        72.36        26.40         6.84         4.04        17.65 
TCGA-06-6694 TCGA-08-0246 TCGA-12-0691 TCGA-12-0778 TCGA-12-1090 TCGA-12-1098 
        7.36         4.18        12.13        14.93         7.59         3.98 
TCGA-15-1449 TCGA-28-5207 TCGA-28-5218 TCGA-76-6660 
       13.28        11.28         5.16         3.75 

$`12Q GAIN WILD-TYPE`
TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        3.98        51.55        46.88        46.72        31.82        42.05 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       62.01        17.16        23.90        20.09        17.82        20.45 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 
       18.64        21.40        45.60        42.77        59.38        15.32 
TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 
       11.74         3.55         8.35         4.54         8.81         8.98 
TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 
        6.71         2.73         3.75         6.15         4.57         5.23 
TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 
        8.32        12.85         4.77         1.55         4.77         4.96 
TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-12-0615 
       26.79         1.87         3.12         2.56        14.60        15.35 
TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 TCGA-12-1602 TCGA-12-3644 
       21.73        15.65        25.68        14.73         6.77        59.77 
TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 
       44.02        26.93        15.22        10.95        12.69        34.92 
TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 
       14.93         3.22         2.04        15.12        11.97         0.95 
TCGA-14-0783 TCGA-14-0786 TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 
        6.21        23.05         3.25         2.89        16.50        26.33 
TCGA-14-1034 TCGA-14-1395 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 
       15.95         1.38         3.75        32.05        58.78        23.11 
TCGA-14-1452 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 
        7.10        30.18         0.92        40.96         6.67        12.43 
TCGA-14-1794 TCGA-14-1795 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2555 
        0.99         1.97         7.63         5.88         7.17         7.96 
TCGA-14-3477 TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 
        3.78         3.42        17.59        29.03         4.57        10.29 
TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 
       14.01         9.14        21.24        13.97         6.41         8.61 
TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 TCGA-19-1392 TCGA-19-1789 TCGA-19-1791 
       14.27         3.39        25.38         3.65         3.25         0.13 
TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 
        9.67         4.87         1.08         7.53         0.16         4.08 
TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 
       24.23         7.00         7.04         6.64        17.19         8.02 
TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 
       18.90         4.73        12.10         1.78        22.49        14.07 
TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 
       16.80        14.96        17.79        28.54        10.03        13.87 
TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 
        9.73         7.13         9.37         9.40         8.88        18.97 
TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 
       19.33         5.06        16.60         9.86        24.23        40.54 
TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 
       21.30        30.05        14.04        24.76        18.08        16.77 
TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 
       16.08         7.59         2.86        14.40        15.78         0.20 
TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 
        2.53         9.21         8.35         7.63         8.48         1.22 
TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2509 TCGA-32-1970 
        1.55         2.83         0.13         0.66         4.77        15.39 
TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1980 TCGA-32-1982 
       21.07         0.49         0.10        15.85         1.18         4.67 
TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 
       12.69        14.86        16.93        12.23        20.78        15.02 
TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 
        8.84        22.78        25.18         3.72        12.59        19.86 
TCGA-32-4719 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 
       10.85         0.85        13.35         8.94         9.53         0.99 
TCGA-41-3393 TCGA-41-3915 TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R 
        4.44        11.84         0.20        15.12        12.46         4.08 
TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6578 TCGA-74-6581 
        1.45        25.58         3.45        20.91        14.33         8.22 
TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 
        7.50         4.80         4.54         3.09         3.65         9.17 
TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 
        2.53        36.85        16.70         3.29         2.70        17.06 
TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 
        8.35        20.98         4.83         5.03        23.90        34.45 
TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 
       18.64        36.20         5.92         6.28        20.55       117.50 
TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 
        7.69        43.89        36.36        60.10        40.18         0.26 
TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 
       21.01        53.62         6.38        17.69        26.76        37.38 
TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 
       46.95        48.30        49.94        49.12       122.73        81.96 
TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 
       75.25        47.93        72.92        50.86        91.13        44.52 
TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD 
       36.56        78.28        46.42        18.84        30.21        39.78 
TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O 
       37.45        33.57        72.95        31.63        24.20        25.48 
TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V 
       30.12         5.98        31.40        27.45        27.81        29.23 
TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O 
       14.40        18.51        12.10        11.24        17.88        30.74 
TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A66D 
       16.18        19.96        63.88        46.06        24.59        27.81 
TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU 
       17.19        17.19        54.25        23.21        17.46        13.71 
TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 
       18.61        18.02        14.56        17.46         6.74        13.38 
TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 
        8.45         6.81       182.33        18.94        17.49        15.16 
TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
      211.17        52.11        22.42        75.16        46.06        65.75 
TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 
       87.45         7.04        11.64       133.74        19.89        16.83 
TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-7006 TCGA-DU-7008 TCGA-DU-7009 
       94.52       114.08         7.96        11.47       156.23       154.36 
TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 
       14.99       105.21         6.54         8.84       117.40        90.77 
TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 
       30.67        26.30        10.36         7.96        94.32        18.94 
TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 
       44.02        25.91        60.30        23.31        41.98         2.76 
TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8166 
        5.10        23.74        14.60        20.68        21.40        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TU 
       15.48        14.17        33.27        29.85        31.69        26.17 
TCGA-DU-A5TW TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       24.99        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TB 
       11.41        26.76        21.30        17.98       139.04        51.52 
TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 
       37.38         7.50        44.42         0.56        50.14        67.46 
TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 
       79.99        57.93       134.27        78.21        95.57       130.78 
TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK 
       14.30        29.13        93.21         3.65        19.46        12.43 
TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV 
       16.18        21.30        75.02        15.32         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       36.82       146.14        13.08        73.48       145.05        32.35 
TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 
       39.48         0.23         0.20        47.77        25.48        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 
       17.88        22.55        20.61        20.09        28.34        13.68 
TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT 
       14.24        16.01        14.96        22.52        32.61        38.27 
TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L 
       10.72        18.38        18.71        23.70        14.76        21.53 
TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 
       15.02        16.44        22.26        28.54        10.78        36.66 
TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 
       48.69         5.72        27.52         0.10         6.67        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
        6.54        24.26         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 
        0.76        44.68         6.05        42.74         0.10        31.69 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 
       14.96         0.10         0.10         2.96        17.52         6.90 
TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 
       14.53        39.48        19.23        39.09         0.23        50.63 
TCGA-HT-7860 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
        0.49        37.15         0.33         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 
       35.47         3.72        11.28        31.43         1.64        16.24 
TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 
        9.40        63.55         0.10        37.87        33.01        12.23 
TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 
        6.25         0.10         0.46         2.50         5.56        13.78 
TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS 
        0.23        29.59        34.19        28.27        15.72         0.23 
TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB 
       26.04         0.13        20.22         0.07        27.35         0.10 
TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 
        5.33         2.70        16.93         1.81        16.14        16.83 
TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L 
       17.52        17.65         2.43        10.52        15.35        11.05 
TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 
        0.10        56.58        45.44        41.49        68.32        69.27 
TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ 
       35.44        39.75        40.01        42.54        24.92        31.63 
TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 
       12.76        28.87        20.71        19.00        14.40        14.40 
TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 
        0.23         6.71         7.99         2.37         2.30         9.44 
TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W 
        5.88         7.96         7.59         1.28         0.23        10.42 
TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 
       13.25        11.64        10.95         9.01        13.61         9.60 
TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 
        7.56        12.23        19.20         3.45         2.37         4.41 
TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS 
       15.16         2.53        12.62        15.85        14.04        19.33 
TCGA-QH-A6CU TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 
       14.83        13.61        12.23        13.41         9.17        10.29 
TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC 
       14.53        16.34        16.73         1.91        16.50        16.70 
TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X 
       11.08        12.99        88.83        94.03        32.65        30.87 
TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
        5.46         9.90        28.08         2.07        19.59        30.67 
TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY 
       62.17        87.12        18.77        41.10        40.93        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       36.82        24.39        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       98.24        95.93       123.65        75.25       135.22        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO 
       38.56        84.99        31.10        19.86        26.47        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.64        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       18.54        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       30.05        98.63        31.59        18.71        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       48.33        49.32        34.78        65.39        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       59.05        40.64        30.44        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       36.69        33.73        31.20        30.05        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 
       33.93        61.41        26.99        31.36        45.93        43.20 
TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH 
       13.51         0.10         7.89        39.16        20.02        23.47 
TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K 
       37.05        16.01        23.21         8.05        51.06        13.32 
TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D 
       43.96        39.88        43.40        45.80        46.88        37.71 
TCGA-WY-A85E TCGA-06-0209 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 
       20.81         7.63         4.73        18.35        23.18        10.59 
TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 
       35.41        20.71        82.59        20.61        87.06        77.65 
TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 
       20.12        53.10        42.74        24.59        12.16        90.58 
TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 
        2.83        14.14         3.62        10.72        10.52        18.31 
TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 TCGA-02-0052 TCGA-02-0055 TCGA-02-0057 
        6.87        14.73         3.22        12.59         2.50        19.86 
TCGA-02-0058 TCGA-02-0059 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 TCGA-02-0071 
        8.35         9.57        19.73        26.43        28.70         5.49 
TCGA-02-0075 TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 
       20.84        27.25        89.72        22.72        12.62        51.32 
TCGA-02-0086 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0106 
        8.81        16.96         3.48        27.02        65.00        11.67 
TCGA-02-0107 TCGA-02-0111 TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 
       17.65        23.18        92.65        99.98        15.65        48.95 
TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 TCGA-02-0281 TCGA-02-0285 
       16.54        16.93        17.72        10.75         3.98        13.87 
TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0325 TCGA-02-0326 
       14.20        15.95        12.23         9.90        10.62         7.33 
TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 
       15.91        25.71         4.37        25.12        10.59        12.39 
TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 
       14.50        10.55        47.11        11.34         9.27        16.21 
TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 
        3.35        16.80        12.92        15.32        15.45        20.32 
TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 
        2.70         6.15        20.38        47.61         6.94         3.98 
TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 
       22.72        33.67        12.95        25.35        14.30        26.70 
TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 
       24.23        11.90         0.20        10.29         2.20        11.74 
TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 
        2.33        20.09        17.79        10.09         8.61        19.46 
TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 
       12.33        13.94        10.45         3.19        10.82         9.44 
TCGA-06-0160 TCGA-06-0162 TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 
       11.80         3.42        10.65         5.85        19.66         3.29 
TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 
       13.12         4.47         3.22         4.04        91.00         4.18 
TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 
       88.14        20.25         3.65        69.90        73.84        27.22 
TCGA-06-0189 TCGA-06-0190 TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 
       15.42        10.42         4.67         7.40         5.56         0.39 
TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 
        7.66         8.42         7.40        11.84         0.53        15.02 
TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 
        0.72        19.82        13.64        13.32        20.42        48.69 
TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 
       10.82         9.01         0.26         4.70         9.57         3.16 
TCGA-06-0414 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 
       35.11        12.62         5.75         5.75         9.80         2.10 
TCGA-06-0650 TCGA-06-0686 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 
       23.57        14.20        46.88         7.86         2.70         2.70 
TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 
        0.92        43.46        46.19         7.17        40.41        16.57 
TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 
       20.78        26.76        23.93        26.79        11.84        15.32 
TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2562 
       13.61        33.90         1.08        12.49         4.93        12.56 
TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 
       30.64         5.95        16.64         5.98         4.37         0.43 
TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 TCGA-08-0244 TCGA-08-0245 
       31.50         7.79         5.39       120.56        22.68        37.84 
TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 
      115.86         1.74         8.42        25.71        12.16         9.80 
TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 
       29.23        65.33         1.28         8.42        17.95        24.56 
TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 
       31.10        37.58        22.29         3.39        12.23        14.93 
TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 TCGA-08-0510 
       18.02        15.35        13.97         0.72        12.56         4.27 
TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 
       42.15        11.08        19.59        58.68        19.33        10.75 
TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 
        4.80         7.27        15.98        18.41         7.56        14.73 
TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 
       12.99        34.92        10.45         7.59        94.78         0.10 
TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 
       38.17        25.97        26.66         3.65        20.38        28.41 
TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0780 
       15.06        53.85        43.23         7.63         9.73        14.86 
TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0826 
       91.76        24.79        18.48        10.62        23.51        27.78 
TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1091 
       38.76         8.94        20.58       127.59         5.82        33.21 
TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1099 
       15.98        12.23        15.85         9.11        14.53         4.14 
TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 TCGA-14-0867 TCGA-14-0871 
        2.24        11.24         1.35         5.39         2.04        28.93 
TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 TCGA-15-1447 
       19.30         0.79        13.78        50.53        19.10        53.19 
TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 
        3.91        26.07        16.37        11.77        21.90         0.66 
TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1388 TCGA-19-1389 TCGA-26-1442 
       10.75         9.07         5.95        12.95         4.64        31.33 
TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 
       14.86         5.49         1.58         7.92         2.33         7.30 
TCGA-28-2514 TCGA-28-5204 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 
        5.26        14.93        17.88        14.53        11.77        31.27 
TCGA-28-5214 TCGA-28-5215 TCGA-28-5216 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 
       23.44        11.01        13.64        22.68        12.76         5.42 
TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        7.36        11.38         5.42         1.61        17.72        26.30 

  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
              1.12               0.03 
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
             84.33             211.17 
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
             14.73              16.11 
[1] "1.1 - 84.3 (14.7)"  "0.0 - 211.2 (16.1)"
[1] "hr=" "1.6"
D24V2, continuous
D24V3, binary
                    cls
clus                   0   1
  12Q GAIN MUTATED    49  16
  12Q GAIN WILD-TYPE 524 496
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12Q GAIN MUTATED     49   16
  12Q GAIN WILD-TYPE  524  496
                        clus
vv                       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  BRAIN                                49                524
  CENTRAL NERVOUS SYSTEM               16                496
[1] 2 2
[1] FALSE
D24V4, binary
                    cls
clus                   0   1
  12Q GAIN MUTATED    27  38
  12Q GAIN WILD-TYPE 426 594
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12Q GAIN MUTATED     27   38
  12Q GAIN WILD-TYPE  426  594
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  FEMALE               27                426
  MALE                 38                594
[1] 2 2
[1] FALSE
D24V5, binary
                    cls
clus                   0   1
  12Q GAIN MUTATED     7  54
  12Q GAIN WILD-TYPE 251 716
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12Q GAIN MUTATED      7   54
  12Q GAIN WILD-TYPE  251  716
     clus
vv    12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  NO                 7                251
  YES               54                716
[1] 2 2
[1] FALSE
D24V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  12Q GAIN MUTATED             5                             3                4
  12Q GAIN WILD-TYPE         189                            27              125
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  12Q GAIN MUTATED                   7                   0
  12Q GAIN WILD-TYPE               182                  18
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  12Q GAIN MUTATED                                46
  12Q GAIN WILD-TYPE                             479
D24V7, multiclass
                                 clus
vv                                12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  ASTROCYTOMA                                    5                189
  GLIOBLASTOMA MULTIFORME (GBM)                  3                 27
  OLIGOASTROCYTOMA                               4                125
  OLIGODENDROGLIOMA                              7                182
  TREATED PRIMARY GBM                            0                 18
  UNTREATED PRIMARY (DE NOVO) GBM               46                479
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  12Q GAIN MUTATED                                  0     4
  12Q GAIN WILD-TYPE                                1    17
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  12Q GAIN MUTATED                           4    54
  12Q GAIN WILD-TYPE                        67   905
D24V8, multiclass
                                  clus
vv                                 12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           4                 17
  BLACK OR AFRICAN AMERICAN                       4                 67
  WHITE                                          54                905
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D24V9, binary
                    cls
clus                   0   1
  12Q GAIN MUTATED     0  54
  12Q GAIN WILD-TYPE  44 867
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12Q GAIN MUTATED      0   54
  12Q GAIN WILD-TYPE   44  867
                        clus
vv                       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  HISPANIC OR LATINO                    0                 44
  NOT HISPANIC OR LATINO               54                867
[1] 2 2
[1] FALSE

Clustering(25) Variable = 13Q GAIN MUTATION ANALYSIS
D25V1, survival
                    sevent
clus2                  0   1
  13Q GAIN MUTATED     6  10
  13Q GAIN WILD-TYPE 474 588
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                16               1062 
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                10                588 
$`13Q GAIN MUTATED`
TCGA-19-A6J4 TCGA-19-1390 TCGA-26-5136 TCGA-32-2615 TCGA-HT-7611 TCGA-HT-7856 
        3.98        25.38        18.97        15.95        57.60        39.09 
TCGA-HT-A5R7 TCGA-QH-A65S TCGA-QH-A6X9 TCGA-VM-A8CA TCGA-02-0001 TCGA-02-0281 
       20.22         2.53         1.91        13.51        11.77         3.98 
TCGA-08-0386 TCGA-14-0817 TCGA-14-0871 TCGA-28-5207 
       18.02         5.39        28.93        11.28 

$`13Q GAIN WILD-TYPE`
TCGA-06-6391 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        1.48        51.55        46.88        46.72        31.82        42.05 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       62.01        17.16        23.90        20.09        17.82        20.45 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 
       18.64        21.40        45.60        42.77        59.38        15.32 
TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 
       11.74         3.55         8.35         4.54         8.81         8.98 
TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 
        8.55         6.71         2.73         3.75         6.15         4.57 
TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 
        5.23         8.32        12.85         4.77         1.55         4.77 
TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK 
        4.96        26.79         1.87         3.12         2.56        14.60 
TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 
       17.72        15.35        21.73        15.65        25.68        14.73 
TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 
        6.77        59.77        44.02        26.93        15.22        10.95 
TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 
       12.69        34.92        14.53        14.93         3.22         2.04 
TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 
       15.12        11.97         0.95         6.21        23.05        13.78 
TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 
        3.25         2.89        16.50        26.33        15.95         1.38 
TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 
        1.12         3.75        32.05        58.78        23.11         7.10 
TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 
        1.15        30.18         0.92        40.96         6.67        12.43 
TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 
        0.99         1.97        17.79        17.85         7.63         5.88 
TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-3477 TCGA-14-4157 TCGA-16-0848 
        7.17        17.49         7.96         3.78         3.42        17.59 
TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 
       29.03         4.57        10.29        14.01         9.14        21.24 
TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1392 
       13.97         6.41         8.61        14.27         3.39         3.65 
TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 
        7.17        12.66         3.25         0.13         9.67         4.87 
TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 
        1.08         7.53         0.16         4.08        24.23         7.00 
TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 
        7.04         6.64        17.19         8.02        18.90         4.73 
TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 
       12.10         1.78        22.49        14.07        16.80        14.96 
TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 
       17.79        28.54        10.03        13.87         9.73         7.13 
TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 
        9.37         9.40         8.88        19.33         5.06        16.60 
TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 
        9.86        24.23        40.54        21.30        30.05        14.04 
TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 TCGA-27-2524 
       11.51        24.76        18.08        16.77        16.08         7.59 
TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 
        2.86        14.40        15.78         0.20         2.53         9.21 
TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 
        8.35         7.63         8.48         1.22         1.55         2.83 
TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 TCGA-32-1970 TCGA-32-1973 
        0.13         0.66         6.74         4.77        15.39        21.07 
TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 
        0.49         0.10        15.85        19.50         1.18         4.67 
TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 
       12.69        14.86        16.93        12.23        20.78        15.02 
TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 
        8.84        22.78        25.18        21.14         3.72        12.59 
TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 
       19.86        10.85        19.23         0.85        13.35         8.94 
TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 TCGA-41-4097 TCGA-41-5651 
        9.53         0.99         4.44        11.84         0.20        15.12 
TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 
       12.46         4.08         1.45        25.58         3.45        20.91 
TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 
        4.34        14.33         8.22         7.50         4.80         4.54 
TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 
        3.09         3.65         9.17         2.53        36.85        16.70 
TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 
        3.29         2.70        17.06         8.35        20.98         4.83 
TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R 
        5.03        23.90        34.45        18.64        36.20         5.92 
TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 
        6.28        20.55       117.50         7.69        43.89        36.36 
TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 
       60.10        40.18         0.26        21.01        53.62         6.38 
TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       17.69        26.76        37.38        46.95        48.30        49.94 
TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 
       49.12       122.73        81.96        75.25        47.93        72.92 
TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       50.86        91.13        44.52        36.56        78.28        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG 
       18.84        30.21        39.78        37.45        33.57        72.95 
TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R 
       31.63        24.20        25.48        30.12         5.98        31.40 
TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K 
       27.45        27.81        29.23        14.40        18.51        12.10 
TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 
       11.24        17.88        30.74        16.18        19.96        63.88 
TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G 
       46.06        24.59        30.21        27.81        17.19        17.19 
TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 
       54.25        23.21        17.46        13.71        18.61        18.02 
TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 
       14.56        17.46         6.74        13.38         8.45         6.81 
TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 
      182.33        18.94        17.49        15.16       211.17        52.11 
TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 
       22.42        49.02        75.16        46.06        65.75         1.22 
TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 
       87.45         7.04        11.64       133.74        19.89        16.83 
TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 
       94.52       114.08         7.96         2.40        11.47        62.96 
TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 
      156.23       154.36        14.99       105.21         6.54         8.84 
TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 
      117.40        90.77        30.67        26.30        10.36         7.96 
TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 
       94.32        18.94        44.02        25.91        60.30        23.31 
TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 
       41.98         2.76         5.10        23.74        14.60        20.68 
TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP 
       21.40        19.13        16.96        15.48        14.17        33.27 
TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY 
       29.85        31.69        24.43        26.17        24.99        33.96 
TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K 
       25.55        21.57        95.11        20.98        22.29        11.41 
TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB 
       26.76        21.30        17.98       139.04        84.33        51.52 
TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 
       37.38         7.50        44.42        38.89         0.56        50.14 
TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 
       67.46        41.13        79.99        57.93       134.27        78.21 
TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI 
       95.57       130.78        14.30        29.13        93.21         3.65 
TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ 
       19.46        12.43        16.18        21.30        75.02        51.88 
TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 
       15.32         0.76        32.45        36.82       146.14        13.08 
TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 
       73.48       145.05        32.35        39.48         0.23         0.20 
TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 
       47.77        25.48        52.21        36.82        18.77        14.93 
TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 
       42.54        41.33        18.44        15.35        17.88        22.55 
TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 
       20.61        20.09        28.34        13.68        14.24        16.01 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       14.96        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 
       18.71        23.70        14.76        21.53        15.02        16.44 
TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q 
       22.26        28.54        10.78        36.66        48.69         5.72 
TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 
       27.52         0.10         6.67        11.54        40.11         0.13 
TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 
        0.03        16.54         3.75        17.42         6.54        24.26 
TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 
        6.38        40.34        75.19        95.93       106.95       172.77 
TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 
        4.01         5.03        29.85        23.18       122.47         4.57 
TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7616 
       17.29         3.16        22.06        45.99        56.09         0.23 
TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 
       14.27         0.16        16.24         0.76        44.68         6.05 
TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 
       42.74         0.10        31.69        14.96         0.10         0.10 
TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 
        2.96        17.52         6.90        14.53        39.48        19.23 
TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 
        0.23        50.63         0.49        23.61        37.15         0.33 
TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 
        0.13         3.68         5.33        35.47         3.72        11.28 
TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 
       31.43         1.64        16.24         9.40        63.55         0.10 
TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 
       37.87        33.01        12.23         6.25         0.10         0.46 
TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 
        2.50         5.56        13.78         0.23        29.59        34.19 
TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R9 
       28.27        15.72         0.23        26.04         0.13         0.07 
TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 
       27.35         0.10         5.33         2.70        16.93         1.81 
TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J 
       16.14        16.83        17.52        17.65         2.43        10.52 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 
       15.35        11.05         0.10        56.58        45.44        41.49 
TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       68.32        69.27        35.44        39.75        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 
       24.92        31.63        12.76        28.87        20.71        19.00 
TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY 
       14.40        14.40         0.23         6.71         7.99         2.37 
TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 
        2.30         9.44         5.88         7.96         7.59         1.28 
TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 
        0.23        10.42        13.25        11.64        10.95         9.01 
TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X 
       13.61         9.60         7.56        12.23        19.20         3.45 
TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z 
        2.37         4.41        15.16        12.62        15.85        14.04 
TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY 
       19.33        14.83        14.53        13.61        12.23        13.41 
TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6XA 
        9.17        10.29        14.53        16.34        16.73        16.50 
TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO 
       16.70        11.08        12.99        88.83        94.03        32.65 
TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 
       30.87         5.46         9.90        28.08         2.07        19.59 
TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX 
       30.67        62.17        87.12        18.77        41.10        40.93 
TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 
       35.38        36.82        24.39        25.81        29.85        32.61 
TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD 
       35.15        98.24        95.93         5.85       123.65        75.25 
TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM 
      135.22        85.55        38.56        84.99        31.10        19.86 
TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS 
       26.47        18.61        18.64        14.07        36.13         7.92 
TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 
       26.93        23.51        19.99        20.02         8.19         2.04 
TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 
       20.68        15.06        18.54        28.37        27.16       169.84 
TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V 
       10.39        99.06        30.05        98.63        31.59        18.71 
TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF 
       20.48        54.77        48.33        49.32        34.78        65.39 
TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I 
       24.92        16.18        59.05        40.64        30.44        28.08 
TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R 
       24.16        40.83        24.79        33.24        25.38        18.61 
TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI 
       14.93        23.80        21.37        19.69        15.98         2.04 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP 
       40.41        44.09        36.69        33.73        31.20        30.05 
TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE 
       26.14        25.87        33.93        61.41        26.99        31.36 
TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF 
       45.93        43.20         0.10         7.89        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 
       23.47        37.05        16.01        23.21         8.05        51.06 
TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C 
       13.32        43.96        39.88        43.40        45.80        46.88 
TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 
       37.71        20.81         7.63         4.73        18.35        23.18 
TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 
       10.59        35.41        20.71        82.59        20.61        87.06 
TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 
       77.65        20.12        53.10        42.74        24.59        12.16 
TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 
       90.58         2.83        14.14         3.62        10.72        10.52 
TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 
       18.31         6.87        14.73         3.22        15.09        12.59 
TCGA-02-0054 TCGA-02-0055 TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 
        6.54         2.50        19.86         8.35         9.57         6.02 
TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 
       19.73        26.43        28.70        25.05         5.49        10.19 
TCGA-02-0075 TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 
       20.84        27.25        89.72        22.72        12.62        51.32 
TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 
        8.81        57.76        16.96         3.48        27.02        65.00 
TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 
       11.67        17.65        23.18        92.65        99.98        15.65 
TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 
       48.95        16.54        16.93        17.72        10.75        14.47 
TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 
       13.87        14.20        15.95        12.23         9.90         7.73 
TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 
       10.62         7.33        15.91        25.71         4.37        25.12 
TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 
       10.59        12.39        14.50        10.55        47.11        11.34 
TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 
        9.27        16.21         3.35        16.80        12.92        15.32 
TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 
       15.45        20.32         2.70         6.15        20.38        47.61 
TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 TCGA-06-0132 
        6.94         3.98        22.72        33.67        12.95        25.35 
TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 
       14.30        26.70        24.23        11.90         0.20        10.29 
TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 
        2.20        11.74         2.33        20.09        17.79        10.09 
TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 
        8.61        19.46        46.59        12.33        13.94        10.45 
TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 
        3.19        10.82         9.44        11.80         3.42        56.91 
TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 
       10.65         5.85        19.66         3.29        13.12         4.47 
TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 
        3.22         4.04        91.00         4.18        88.14        20.25 
TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 
        3.65        69.90        73.84        27.22        44.58        15.42 
TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 
       10.42        38.96         4.67         7.40         5.56         0.39 
TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 
        7.66         8.42         7.40        11.84         0.53        15.02 
TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 
       24.16         0.72        19.82        13.64        13.32        20.42 
TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 TCGA-06-0410 
       48.69        10.82         9.01         0.26        72.36         4.70 
TCGA-06-0412 TCGA-06-0413 TCGA-06-0414 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 
        9.57         3.16        35.11        12.62         5.75         5.75 
TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 
        9.80         2.10        23.57        14.20        26.40        46.88 
TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 
        7.86         2.70         2.70         0.92        43.46        46.19 
TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 
        7.17        40.41        16.57        20.78        26.76        23.93 
TCGA-06-1086 TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 
        6.84         4.04        26.79        11.84        15.32        13.61 
TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 
       33.90         1.08        12.49         4.93        17.65        12.56 
TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 
       30.64         5.95        16.64         5.98         4.37         0.43 
TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 
       31.50         7.79         5.39       120.56         7.36        22.68 
TCGA-08-0245 TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 
       37.84         4.18       115.86         1.74         8.42        25.71 
TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 
       12.16         9.80        29.23        65.33         1.28         8.42 
TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 
       17.95        24.56        31.10        37.58        22.29         3.39 
TCGA-08-0375 TCGA-08-0380 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 
       12.23        14.93        15.35        13.97         0.72        12.56 
TCGA-08-0510 TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 
        4.27        42.15        11.08        19.59        58.68        19.33 
TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 
       10.75         4.80         7.27        15.98        18.41         7.56 
TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 
       14.73        12.99        34.92        10.45         7.59        94.78 
TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 
        0.10        38.17        25.97        26.66        12.13         3.65 
TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 
       20.38        28.41        15.06        53.85        43.23         7.63 
TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 
        9.73        14.93        14.86        91.76        24.79        18.48 
TCGA-12-0821 TCGA-12-0822 TCGA-12-0826 TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 
       10.62        23.51        27.78        38.76         8.94        20.58 
TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 
      127.59         5.82         7.59        33.21        15.98        12.23 
TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 TCGA-14-0787 
       15.85         9.11        14.53         3.98         4.14         2.24 
TCGA-14-0789 TCGA-14-0813 TCGA-14-0867 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 
       11.24         1.35         2.04        19.30         0.79        13.78 
TCGA-15-1444 TCGA-15-1446 TCGA-15-1447 TCGA-15-1449 TCGA-16-0846 TCGA-16-0849 
       50.53        19.10        53.19        13.28         3.91        26.07 
TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 
       16.37        11.77        21.90         0.66        10.75         9.07 
TCGA-19-1387 TCGA-19-1388 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 
        5.95        12.95         4.64        31.33        14.86         5.49 
TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 
        1.58         7.92         2.33         7.30         5.26        14.93 
TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5215 
       17.88        14.53        11.77        31.27        23.44        11.01 
TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 
       13.64         5.16        22.68        12.76         5.42         7.36 
TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
       11.38         5.42         3.75         1.61        17.72        26.30 

  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
              1.91               0.03 
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
             57.60             211.17 
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
            14.730             15.995 
[1] "1.9 - 57.6 (14.7)"  "0.0 - 211.2 (16.0)"
[1] "hr=" "1.4"
D25V2, continuous
D25V3, binary
                    cls
clus                   0   1
  13Q GAIN MUTATED    10   7
  13Q GAIN WILD-TYPE 563 505
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  13Q GAIN MUTATED     10    7
  13Q GAIN WILD-TYPE  563  505
                        clus
vv                       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  BRAIN                                10                563
  CENTRAL NERVOUS SYSTEM                7                505
[1] 2 2
[1] FALSE
D25V4, binary
                    cls
clus                   0   1
  13Q GAIN MUTATED     9   8
  13Q GAIN WILD-TYPE 444 624
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  13Q GAIN MUTATED      9    8
  13Q GAIN WILD-TYPE  444  624
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  FEMALE                9                444
  MALE                  8                624
[1] 2 2
[1] FALSE
D25V5, binary
                    cls
clus                   0   1
  13Q GAIN MUTATED     7   8
  13Q GAIN WILD-TYPE 251 762
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  13Q GAIN MUTATED      7    8
  13Q GAIN WILD-TYPE  251  762
     clus
vv    13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  NO                 7                251
  YES                8                762
[1] 2 2
[1] FALSE
D25V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  13Q GAIN MUTATED             2                             1                2
  13Q GAIN WILD-TYPE         192                            29              127
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  13Q GAIN MUTATED                   3                   0
  13Q GAIN WILD-TYPE               186                  18
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  13Q GAIN MUTATED                                 9
  13Q GAIN WILD-TYPE                             516
D25V7, multiclass
                                 clus
vv                                13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  ASTROCYTOMA                                    2                192
  GLIOBLASTOMA MULTIFORME (GBM)                  1                 29
  OLIGOASTROCYTOMA                               2                127
  OLIGODENDROGLIOMA                              3                186
  TREATED PRIMARY GBM                            0                 18
  UNTREATED PRIMARY (DE NOVO) GBM                9                516
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  13Q GAIN MUTATED                                  0     0
  13Q GAIN WILD-TYPE                                1    21
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  13Q GAIN MUTATED                           1    15
  13Q GAIN WILD-TYPE                        70   944
D25V8, multiclass
                                  clus
vv                                 13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           0                 21
  BLACK OR AFRICAN AMERICAN                       1                 70
  WHITE                                          15                944
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D25V9, binary
                    cls
clus                   0   1
  13Q GAIN MUTATED     0  13
  13Q GAIN WILD-TYPE  44 908
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  13Q GAIN MUTATED      0   13
  13Q GAIN WILD-TYPE   44  908
                        clus
vv                       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  HISPANIC OR LATINO                    0                 44
  NOT HISPANIC OR LATINO               13                908
[1] 2 2
[1] FALSE

Clustering(26) Variable = 14Q GAIN MUTATION ANALYSIS
D26V1, survival
                    sevent
clus2                  0   1
  14Q GAIN MUTATED     4  22
  14Q GAIN WILD-TYPE 476 576
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                26               1052 
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                22                576 
$`14Q GAIN MUTATED`
TCGA-CS-6665 TCGA-12-3646 TCGA-19-2620 TCGA-32-2495 TCGA-32-2632 TCGA-DH-A669 
       51.55        44.02         4.87        15.02         8.84        30.21 
TCGA-DU-7019 TCGA-HT-7477 TCGA-02-0059 TCGA-02-0075 TCGA-02-0102 TCGA-06-0151 
       26.30        24.26         9.57        20.84        27.02        46.59 
TCGA-06-0159 TCGA-06-0177 TCGA-06-0195 TCGA-06-0414 TCGA-06-1087 TCGA-06-2569 
        9.44         4.18         7.40        35.11         4.04         0.43 
TCGA-08-0246 TCGA-08-0386 TCGA-08-0510 TCGA-08-0514 TCGA-12-0619 TCGA-12-0776 
        4.18        18.02         4.27        11.08        34.92         9.73 
TCGA-14-0867 TCGA-16-0846 
        2.04         3.91 

$`14Q GAIN WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        1.48         3.98        46.88        46.72        31.82        42.05 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       62.01        17.16        23.90        20.09        17.82        20.45 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 
       18.64        21.40        45.60        42.77        59.38        15.32 
TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 
       11.74         3.55         8.35         4.54         8.81         8.98 
TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 
        8.55         6.71         2.73         3.75         6.15         4.57 
TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 
        5.23         8.32        12.85         4.77         1.55         4.77 
TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK 
        4.96        26.79         1.87         3.12         2.56        14.60 
TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 
       17.72        15.35        21.73        15.65        25.68        14.73 
TCGA-12-1602 TCGA-12-3644 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 
        6.77        59.77        26.93        15.22        10.95        12.69 
TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 
       34.92        14.53        14.93         3.22         2.04        15.12 
TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 
       11.97         0.95         6.21        23.05        13.78         3.25 
TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 
        2.89        16.50        26.33        15.95         1.38         1.12 
TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 
        3.75        32.05        58.78        23.11         7.10         1.15 
TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1794 
       30.18         0.92        40.96         6.67        12.43         0.99 
TCGA-14-1795 TCGA-14-1821 TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 
        1.97        17.79        17.85         7.63         5.88         7.17 
TCGA-14-2554 TCGA-14-2555 TCGA-14-3477 TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 
       17.49         7.96         3.78         3.42        17.59        29.03 
TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 
        4.57        10.29        14.01         9.14        21.24        13.97 
TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 TCGA-19-1392 
        6.41         8.61        14.27         3.39        25.38         3.65 
TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2621 
        7.17        12.66         3.25         0.13         9.67         1.08 
TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 
        7.53         0.16         4.08        24.23         7.00         7.04 
TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 
        6.64        17.19         8.02        18.90         4.73        12.10 
TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I 
        1.78        22.49        14.07        16.80        14.96        17.79 
TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 
       28.54        10.03        13.87         9.73         7.13         9.37 
TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 
        9.40         8.88        18.97        19.33         5.06        16.60 
TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 
        9.86        24.23        40.54        21.30        30.05        14.04 
TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 TCGA-27-2524 
       11.51        24.76        18.08        16.77        16.08         7.59 
TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 
        2.86        14.40        15.78         0.20         2.53         9.21 
TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 
        8.35         7.63         8.48         1.22         1.55         2.83 
TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 TCGA-32-1970 TCGA-32-1973 
        0.13         0.66         6.74         4.77        15.39        21.07 
TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 
        0.49         0.10        15.85        19.50         1.18         4.67 
TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2615 
       12.69        14.86        16.93        12.23        20.78        15.95 
TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 
       22.78        25.18        21.14         3.72        12.59        19.86 
TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 
       10.85        19.23         0.85        13.35         8.94         9.53 
TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 
        0.99         4.44        11.84         0.20        15.12        12.46 
TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 
        4.08         1.45        25.58         3.45        20.91         4.34 
TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 
       14.33         8.22         7.50         4.80         4.54         3.09 
TCGA-76-4929 TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 
        3.65         9.17         2.53        36.85        16.70         3.29 
TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 
        2.70        17.06         8.35        20.98         4.83         5.03 
TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA 
       23.90        34.45        18.64        36.20         5.92         6.28 
TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 
       20.55       117.50         7.69        43.89        36.36        60.10 
TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.26        21.01        53.62         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 
       26.76        37.38        46.95        48.30        49.94        49.12 
TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 
      122.73        81.96        75.25        47.93        72.92        50.86 
TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA 
       91.13        44.52        36.56        78.28        46.42        18.84 
TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH 
       30.21        39.78        37.45        33.57        72.95        31.63 
TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S 
       24.20        25.48        30.12         5.98        31.40        27.45 
TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L 
       27.81        29.23        14.40        18.51        12.10        11.24 
TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 
       17.88        30.74        16.18        19.96        63.88        46.06 
TCGA-DH-5144 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       24.59        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 
       17.49        15.16       211.17        52.11        22.42        49.02 
TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 
       75.16        46.06        65.75         1.22        87.45         7.04 
TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 
       11.64       133.74        19.89        16.83        94.52       114.08 
TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 
        7.96         2.40        11.47        62.96       156.23       154.36 
TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 
       14.99       105.21         6.54         8.84       117.40        90.77 
TCGA-DU-7018 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 
       30.67        10.36         7.96        94.32        18.94        44.02 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 
       25.91        60.30        23.31        41.98         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 
       23.74        14.60        20.68        21.40        19.13        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT 
       15.48        14.17        33.27        29.85        31.69        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 
       20.98        22.29        11.41        26.76        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
      139.04        84.33        51.52        37.38         7.50        44.42 
TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
       38.89         0.56        50.14        67.46        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       57.93       134.27        78.21        95.57       130.78        14.30 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL 
       29.13        93.21         3.65        19.46        12.43        16.18 
TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV 
       21.30        75.02        51.88        15.32         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       36.82       146.14        13.08        73.48       145.05        32.35 
TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 
       39.48         0.23         0.20        47.77        25.48        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 
       15.35        17.88        22.55        20.61        20.09        28.34 
TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 
       13.68        14.24        16.01        14.96        22.52        32.61 
TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J 
       38.27        10.72        18.38        18.71        23.70        14.76 
TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z 
       21.53        15.02        16.44        22.26        28.54        10.78 
TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 
       36.66        48.69         5.72        27.52         0.10         6.67 
TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
       11.54        40.11         0.13         0.03        16.54         3.75 
TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
       17.42         6.54         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 
        0.76        44.68         6.05        42.74         0.10        31.69 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 
       14.96         0.10         0.10         2.96        17.52         6.90 
TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 
       14.53        39.48        19.23        39.09         0.23        50.63 
TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 
        0.49        23.61        37.15         0.33         0.13         3.68 
TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 
        5.33        35.47         3.72        11.28        31.43         1.64 
TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
       16.24         9.40        63.55         0.10        37.87        33.01 
TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 
       12.23         6.25         0.10         0.46         2.50         5.56 
TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 
       13.78         0.23        29.59        34.19        28.27        15.72 
TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA 
        0.23        26.04         0.13        20.22         0.07        27.35 
TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 
        0.10         5.33         2.70        16.93         1.81        16.14 
TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K 
       16.83        17.52        17.65         2.43        10.52        15.35 
TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 
       11.05         0.10        56.58        45.44        41.49        68.32 
TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 
       69.27        35.44        39.75        40.01        42.54        24.92 
TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X 
       31.63        12.76        28.87        20.71        19.00        14.40 
TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ 
       14.40         0.23         6.71         7.99         2.37         2.30 
TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U 
        9.44         5.88         7.96         7.59         1.28         0.23 
TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 
       10.42        13.25        11.64        10.95         9.01        13.61 
TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 
        9.60         7.56        12.23        19.20         3.45         2.37 
TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z 
        4.41        15.16         2.53        12.62        15.85        14.04 
TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY 
       19.33        14.83        14.53        13.61        12.23        13.41 
TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 
        9.17        10.29        14.53        16.34        16.73         1.91 
TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML 
       16.50        16.70        11.08        12.99        88.83        94.03 
TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 
       32.65        30.87         5.46         9.90        28.08         2.07 
TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW 
       19.59        30.67        62.17        87.12        18.77        41.10 
TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 
       40.93        35.38        36.82        24.39        25.81        29.85 
TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB 
       32.61        35.15        98.24        95.93         5.85       123.65 
TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL 
       75.25       135.22        85.55        38.56        84.99        31.10 
TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ 
       19.86        26.47        18.61        18.64        14.07        36.13 
TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 
        7.92        26.93        23.51        19.99        20.02         8.19 
TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ 
        2.04        20.68        15.06        18.54        28.37        27.16 
TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 
      169.84        10.39        99.06        30.05        98.63        31.59 
TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA 
       18.71        20.48        54.77        48.33        49.32        34.78 
TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H 
       65.39        24.92        16.18        59.05        40.64        30.44 
TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q 
       28.08        24.16        40.83        24.79        33.24        25.38 
TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH 
       18.61        14.93        23.80        21.37        19.69        15.98 
TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO 
        2.04        40.41        44.09        36.69        33.73        31.20 
TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW 
       30.05        26.14        25.87        33.93        61.41        26.99 
TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD 
       31.36        45.93        43.20        13.51         0.10         7.89 
TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS 
       39.16        20.02        23.47        37.05        16.01        23.21 
TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A 
        8.05        51.06        13.32        43.96        39.88        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 TCGA-02-0001 
       45.80        46.88        37.71        20.81         7.63        11.77 
TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 
        4.73        18.35        23.18        10.59        35.41        20.71 
TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 
       82.59        20.61        87.06        77.65        20.12        53.10 
TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 
       42.74        24.59        12.16        90.58         2.83        14.14 
TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 
        3.62        10.72        10.52        18.31         6.87        14.73 
TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0055 TCGA-02-0057 
        3.22        15.09        12.59         6.54         2.50        19.86 
TCGA-02-0058 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 
        8.35         6.02        19.73        26.43        28.70        25.05 
TCGA-02-0071 TCGA-02-0074 TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 
        5.49        10.19        27.25        89.72        22.72        12.62 
TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0104 
       51.32         8.81        57.76        16.96         3.48        65.00 
TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 
       11.67        17.65        23.18        92.65        99.98        15.65 
TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 
       48.95        16.54        16.93        17.72        10.75        14.47 
TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 
        3.98        13.87        14.20        15.95        12.23         9.90 
TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 
        7.73        10.62         7.33        15.91        25.71         4.37 
TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 
       25.12        10.59        12.39        14.50        10.55        47.11 
TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 
       11.34         9.27        16.21         3.35        16.80        12.92 
TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 
       15.32        15.45        20.32         2.70         6.15        20.38 
TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 
       47.61         6.94         3.98        22.72        33.67        12.95 
TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 
       25.35        14.30        26.70        24.23        11.90         0.20 
TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 
       10.29         2.20        11.74         2.33        20.09        17.79 
TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 
       10.09         8.61        19.46        12.33        13.94        10.45 
TCGA-06-0157 TCGA-06-0158 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 
        3.19        10.82        11.80         3.42        56.91        10.65 
TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 
        5.85        19.66         3.29        13.12         4.47         3.22 
TCGA-06-0175 TCGA-06-0176 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 
        4.04        91.00        88.14        20.25         3.65        69.90 
TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 
       73.84        27.22        44.58        15.42        10.42        38.96 
TCGA-06-0194 TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 
        4.67         5.56         0.39         7.66         8.42         7.40 
TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 
       11.84         0.53        15.02        24.16         0.72        19.82 
TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 
       13.64        13.32        20.42        48.69        10.82         9.01 
TCGA-06-0402 TCGA-06-0409 TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 TCGA-06-0644 
        0.26        72.36         4.70         9.57         3.16        12.62 
TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 
        5.75         5.75         9.80         2.10        23.57        14.20 
TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 
       26.40        46.88         7.86         2.70         2.70         0.92 
TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 
       43.46        46.19         7.17        40.41        16.57        20.78 
TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 
       26.76        23.93         6.84        26.79        11.84        15.32 
TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 
       13.61        33.90         1.08        12.49         4.93        17.65 
TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 
       12.56        30.64         5.95        16.64         5.98         4.37 
TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 
       31.50         7.79         5.39       120.56         7.36        22.68 
TCGA-08-0245 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 
       37.84       115.86         1.74         8.42        25.71        12.16 
TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 
        9.80        29.23        65.33         1.28         8.42        17.95 
TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 
       24.56        31.10        37.58        22.29         3.39        12.23 
TCGA-08-0380 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 TCGA-08-0512 
       14.93        15.35        13.97         0.72        12.56        42.15 
TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 
       19.59        58.68        19.33        10.75         4.80         7.27 
TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0620 
       15.98        18.41         7.56        14.73        12.99        10.45 
TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 
        7.59        94.78         0.10        38.17        25.97        26.66 
TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 
       12.13         3.65        20.38        28.41        15.06        53.85 
TCGA-12-0773 TCGA-12-0775 TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 
       43.23         7.63        14.93        14.86        91.76        24.79 
TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0826 TCGA-12-0827 TCGA-12-0828 
       18.48        10.62        23.51        27.78        38.76         8.94 
TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 
       20.58       127.59         5.82         7.59        33.21        15.98 
TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 
       12.23        15.85         9.11        14.53         3.98         4.14 
TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 TCGA-14-0871 TCGA-14-1037 
        2.24        11.24         1.35         5.39        28.93        19.30 
TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 TCGA-15-1447 TCGA-15-1449 
        0.79        13.78        50.53        19.10        53.19        13.28 
TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 
       26.07        16.37        11.77        21.90         0.66        10.75 
TCGA-19-1386 TCGA-19-1387 TCGA-19-1388 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 
        9.07         5.95        12.95         4.64        31.33        14.86 
TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 
        5.49         1.58         7.92         2.33         7.30         5.26 
TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 
       14.93        11.28        17.88        14.53        11.77        31.27 
TCGA-28-5214 TCGA-28-5215 TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 
       23.44        11.01        13.64         5.16        22.68        12.76 
TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 
        5.42         7.36        11.38         5.42         3.75         1.61 
TCGA-81-5911 TCGA-87-5896 
       17.72        26.30 

  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
              0.43               0.03 
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
             51.55             211.17 
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
            10.405             16.010 
[1] "0.4 - 51.5 (10.4)"  "0.0 - 211.2 (16.0)"
[1] "hr=" "1.9"
D26V2, continuous
D26V3, binary
                    cls
clus                   0   1
  14Q GAIN MUTATED    22   4
  14Q GAIN WILD-TYPE 551 508
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  14Q GAIN MUTATED     22    4
  14Q GAIN WILD-TYPE  551  508
                        clus
vv                       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  BRAIN                                22                551
  CENTRAL NERVOUS SYSTEM                4                508
[1] 2 2
[1] FALSE
D26V4, binary
                    cls
clus                   0   1
  14Q GAIN MUTATED     8  18
  14Q GAIN WILD-TYPE 445 614
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  14Q GAIN MUTATED      8   18
  14Q GAIN WILD-TYPE  445  614
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  FEMALE                8                445
  MALE                 18                614
[1] 2 2
[1] FALSE
D26V5, binary
                    cls
clus                   0   1
  14Q GAIN MUTATED     4  20
  14Q GAIN WILD-TYPE 254 750
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  14Q GAIN MUTATED      4   20
  14Q GAIN WILD-TYPE  254  750
     clus
vv    14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  NO                 4                254
  YES               20                750
[1] 2 2
[1] FALSE
D26V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  14Q GAIN MUTATED             2                             2                1
  14Q GAIN WILD-TYPE         192                            28              128
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  14Q GAIN MUTATED                   1                   2
  14Q GAIN WILD-TYPE               188                  16
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  14Q GAIN MUTATED                                18
  14Q GAIN WILD-TYPE                             507
D26V7, multiclass
                                 clus
vv                                14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  ASTROCYTOMA                                    2                192
  GLIOBLASTOMA MULTIFORME (GBM)                  2                 28
  OLIGOASTROCYTOMA                               1                128
  OLIGODENDROGLIOMA                              1                188
  TREATED PRIMARY GBM                            2                 16
  UNTREATED PRIMARY (DE NOVO) GBM               18                507
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  14Q GAIN MUTATED                                  0     0
  14Q GAIN WILD-TYPE                                1    21
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  14Q GAIN MUTATED                           1    25
  14Q GAIN WILD-TYPE                        70   934
D26V8, multiclass
                                  clus
vv                                 14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           0                 21
  BLACK OR AFRICAN AMERICAN                       1                 70
  WHITE                                          25                934
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D26V9, binary
                    cls
clus                   0   1
  14Q GAIN MUTATED     0  25
  14Q GAIN WILD-TYPE  44 896
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  14Q GAIN MUTATED      0   25
  14Q GAIN WILD-TYPE   44  896
                        clus
vv                       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  HISPANIC OR LATINO                    0                 44
  NOT HISPANIC OR LATINO               25                896
[1] 2 2
[1] FALSE

Clustering(27) Variable = 15Q GAIN MUTATION ANALYSIS
D27V1, survival
                    sevent
clus2                  0   1
  15Q GAIN MUTATED     7  30
  15Q GAIN WILD-TYPE 473 568
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                37               1041 
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                30                568 
$`15Q GAIN MUTATED`
TCGA-12-3653 TCGA-14-0812 TCGA-14-1823 TCGA-14-3477 TCGA-28-2509 TCGA-32-2615 
       14.53         3.25        17.85         3.78         4.77        15.95 
TCGA-41-2575 TCGA-41-4097 TCGA-76-4934 TCGA-CS-4943 TCGA-DU-5852 TCGA-DU-7014 
        9.53         0.20         2.53        36.36         6.74       117.40 
TCGA-DU-7306 TCGA-DU-A7TC TCGA-E1-5304 TCGA-E1-A7YQ TCGA-E1-A7YV TCGA-HT-7477 
       41.98        37.38        41.13        51.88        32.45        24.26 
TCGA-P5-A780 TCGA-S9-A6UA TCGA-S9-A7IZ TCGA-02-0051 TCGA-02-0055 TCGA-02-0075 
        2.37         5.85        19.99        15.09         2.50        20.84 
TCGA-02-0106 TCGA-02-0456 TCGA-02-2466 TCGA-06-0130 TCGA-06-0151 TCGA-06-0166 
       11.67         3.35        16.80        12.95        46.59         5.85 
TCGA-06-0177 TCGA-06-0414 TCGA-06-1087 TCGA-08-0392 TCGA-12-0818 TCGA-12-0826 
        4.18        35.11         4.04         0.72        91.76        27.78 
TCGA-28-5218 
        5.16 

$`15Q GAIN WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K 
       42.05        62.01        17.16        23.90        20.09        17.82 
TCGA-FG-A713 TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M 
       20.45        18.64        21.40        45.60        42.77        59.38 
TCGA-06-1806 TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 
       15.32        11.74         3.55         8.35         4.54         8.81 
TCGA-06-5414 TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 
        8.98         8.55         6.71         2.73         3.75         6.15 
TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 
        4.57         5.23         8.32        12.85         4.77         1.55 
TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 
        4.77         4.96        26.79         1.87         3.12         2.56 
TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 
       14.60        17.72        15.35        21.73        15.65        25.68 
TCGA-12-1600 TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 
       14.73         6.77        59.77        44.02        26.93        15.22 
TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 
       10.95        12.69        34.92        14.93         3.22         2.04 
TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 
       15.12        11.97         0.95         6.21        23.05        13.78 
TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 
        2.89        16.50        26.33        15.95         1.38         1.12 
TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 
        3.75        32.05        58.78        23.11         7.10         1.15 
TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1794 
       30.18         0.92        40.96         6.67        12.43         0.99 
TCGA-14-1795 TCGA-14-1821 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 
        1.97        17.79         7.63         5.88         7.17        17.49 
TCGA-14-2555 TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 
        7.96         3.42        17.59        29.03         4.57        10.29 
TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 
       14.01         9.14        21.24        13.97         6.41         8.61 
TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 
       14.27         3.39        25.38         3.65         7.17        12.66 
TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 
        3.25         0.13         9.67         4.87         1.08         7.53 
TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 
        0.16         4.08        24.23         7.00         7.04         6.64 
TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 
       17.19         8.02        18.90         4.73        12.10         1.78 
TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 
       22.49        14.07        16.80        14.96        17.79        28.54 
TCGA-26-1438 TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 
       10.03        13.87         9.73         7.13         9.37         9.40 
TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 
        8.88        18.97        19.33         5.06        16.60         9.86 
TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 
       24.23        40.54        21.30        30.05        14.04        11.51 
TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 
       24.76        18.08        16.77        16.08         7.59         2.86 
TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 
       14.40        15.78         0.20         2.53         9.21         8.35 
TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 
        7.63         8.48         1.22         1.55         2.83         0.13 
TCGA-28-2502 TCGA-28-2506 TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 
        0.66         6.74        15.39        21.07         0.49         0.10 
TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 
       15.85        19.50         1.18         4.67        12.69        14.86 
TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 TCGA-32-2632 TCGA-32-2634 
       16.93        12.23        20.78        15.02         8.84        22.78 
TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 
       25.18        21.14         3.72        12.59        19.86        10.85 
TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-3392 TCGA-41-3393 
       19.23         0.85        13.35         8.94         0.99         4.44 
TCGA-41-3915 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T 
       11.84        15.12        12.46         4.08         1.45        25.58 
TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 
        3.45        20.91         4.34        14.33         8.22         7.50 
TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4935 
        4.80         4.54         3.09         3.65         9.17        36.85 
TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 
       16.70         3.29         2.70        17.06         8.35        20.98 
TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 
        4.83         5.03        23.90        34.45        18.64        36.20 
TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 
        5.92         6.28        20.55       117.50         7.69        43.89 
TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 
       60.10        40.18         0.26        21.01        53.62         6.38 
TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       17.69        26.76        37.38        46.95        48.30        49.94 
TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 
       49.12       122.73        81.96        75.25        47.93        72.92 
TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       50.86        91.13        44.52        36.56        78.28        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG 
       18.84        30.21        39.78        37.45        33.57        72.95 
TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R 
       31.63        24.20        25.48        30.12         5.98        31.40 
TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K 
       27.45        27.81        29.23        14.40        18.51        12.10 
TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 
       11.24        17.88        30.74        16.18        19.96        63.88 
TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G 
       46.06        24.59        30.21        27.81        17.19        17.19 
TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 
       54.25        23.21        17.46        13.71        18.61        18.02 
TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 
       14.56        17.46        13.38         8.45         6.81       182.33 
TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 
       18.94        17.49        15.16       211.17        52.11        22.42 
TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 
       49.02        75.16        46.06        65.75         1.22        87.45 
TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 
        7.04        11.64       133.74        19.89        16.83        94.52 
TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 
      114.08         7.96         2.40        11.47        62.96       156.23 
TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 
      154.36        14.99       105.21         6.54         8.84        90.77 
TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 
       30.67        26.30        10.36         7.96        94.32        18.94 
TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7309 TCGA-DU-8158 
       44.02        25.91        60.30        23.31         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 
       23.74        14.60        20.68        21.40        19.13        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT 
       15.48        14.17        33.27        29.85        31.69        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 
       20.98        22.29        11.41        26.76        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI 
      139.04        84.33        51.52         7.50        44.42        38.89 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 
        0.56        50.14        67.46        79.99        57.93       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH 
       78.21        95.57       130.78        14.30        29.13        93.21 
TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO 
        3.65        19.46        12.43        16.18        21.30        75.02 
TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 
       15.32         0.76        36.82       146.14        13.08        73.48 
TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 
      145.05        32.35        39.48         0.23         0.20        47.77 
TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 
       25.48        52.21        36.82        18.77        14.93        42.54 
TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 
       41.33        18.44        15.35        17.88        22.55        20.61 
TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 
       20.09        28.34        13.68        14.24        16.01        14.96 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX 
       22.52        32.61        38.27        10.72        18.38        18.71 
TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 
       23.70        14.76        21.53        15.02        16.44        22.26 
TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 
       28.54        10.78        36.66        48.69         5.72        27.52 
TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 
        0.10         6.67        11.54        40.11         0.13         0.03 
TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7478 TCGA-HT-7479 
       16.54         3.75        17.42         6.54         6.38        40.34 
TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 
       75.19        95.93       106.95       172.77         4.01         5.03 
TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 
       29.85        23.18       122.47         4.57        17.29         3.16 
TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 
       22.06        45.99        56.09        57.60         0.23        14.27 
TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 
        0.16        16.24         0.76        44.68         6.05        42.74 
TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 
        0.10        31.69        14.96         0.10         0.10         2.96 
TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 
       17.52         6.90        14.53        39.48        19.23        39.09 
TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 
        0.23        50.63         0.49        23.61        37.15         0.33 
TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 
        0.13         3.68         5.33        35.47         3.72        11.28 
TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 
       31.43         1.64        16.24         9.40        63.55         0.10 
TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 
       37.87        33.01        12.23         6.25         0.10         0.46 
TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 
        2.50         5.56        13.78         0.23        29.59        34.19 
TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 
       28.27        15.72         0.23        26.04         0.13        20.22 
TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 
        0.07        27.35         0.10         5.33         2.70        16.93 
TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H 
        1.81        16.14        16.83        17.52        17.65         2.43 
TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 
       10.52        15.35        11.05         0.10        56.58        45.44 
TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 
       41.49        68.32        69.27        35.44        39.75        40.01 
TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       42.54        24.92        31.63        12.76        28.87        20.71 
TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX 
       19.00        14.40        14.40         0.23         6.71         7.99 
TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 
        2.37         2.30         9.44         5.88         7.96         7.59 
TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 
        1.28         0.23        10.42        13.25        11.64        10.95 
TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W 
        9.01        13.61         9.60         7.56        12.23        19.20 
TCGA-P5-A77X TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X 
        3.45         4.41        15.16         2.53        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX 
       14.04        19.33        14.83        14.53        13.61        12.23 
TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
       13.41         9.17        10.29        14.53        16.34        16.73 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
        1.91        16.50        16.70        11.08        12.99        88.83 
TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 
       94.03        32.65        30.87         5.46         9.90        28.08 
TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV 
        2.07        19.59        30.67        62.17        87.12        18.77 
TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 
       41.10        40.93        35.38        36.82        24.39        25.81 
TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UB 
       29.85        32.61        35.15        98.24        95.93       123.65 
TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL 
       75.25       135.22        85.55        38.56        84.99        31.10 
TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ 
       19.86        26.47        18.61        18.64        14.07        36.13 
TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 
        7.92        26.93        23.51        20.02         8.19         2.04 
TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 
       20.68        15.06        18.54        28.37        27.16       169.84 
TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V 
       10.39        99.06        30.05        98.63        31.59        18.71 
TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF 
       20.48        54.77        48.33        49.32        34.78        65.39 
TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I 
       24.92        16.18        59.05        40.64        30.44        28.08 
TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R 
       24.16        40.83        24.79        33.24        25.38        18.61 
TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI 
       14.93        23.80        21.37        19.69        15.98         2.04 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP 
       40.41        44.09        36.69        33.73        31.20        30.05 
TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE 
       26.14        25.87        33.93        61.41        26.99        31.36 
TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE 
       45.93        43.20        13.51         0.10         7.89        39.16 
TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI 
       20.02        23.47        37.05        16.01        23.21         8.05 
TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B 
       51.06        13.32        43.96        39.88        43.40        45.80 
TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 TCGA-02-0001 TCGA-02-0003 
       46.88        37.71        20.81         7.63        11.77         4.73 
TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 
       18.35        23.18        10.59        35.41        20.71        82.59 
TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 
       20.61        87.06        77.65        20.12        53.10        42.74 
TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 
       24.59        12.16        90.58         2.83        14.14         3.62 
TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 
       10.72        10.52        18.31         6.87        14.73         3.22 
TCGA-02-0052 TCGA-02-0054 TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 
       12.59         6.54        19.86         8.35         9.57         6.02 
TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 
       19.73        26.43        28.70        25.05         5.49        10.19 
TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 
       27.25        89.72        22.72        12.62        51.32         8.81 
TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0107 
       57.76        16.96         3.48        27.02        65.00        17.65 
TCGA-02-0111 TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 
       23.18        92.65        99.98        15.65        48.95        16.54 
TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 TCGA-02-0281 TCGA-02-0285 
       16.93        17.72        10.75        14.47         3.98        13.87 
TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 
       14.20        15.95        12.23         9.90         7.73        10.62 
TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 
        7.33        15.91        25.71         4.37        25.12        10.59 
TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 
       12.39        14.50        10.55        47.11        11.34         9.27 
TCGA-02-0451 TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 
       16.21        12.92        15.32        15.45        20.32         2.70 
TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 
        6.15        20.38        47.61         6.94         3.98        22.72 
TCGA-06-0129 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 
       33.67        25.35        14.30        26.70        24.23        11.90 
TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 
        0.20        10.29         2.20        11.74         2.33        20.09 
TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0152 TCGA-06-0154 
       17.79        10.09         8.61        19.46        12.33        13.94 
TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 
       10.45         3.19        10.82         9.44        11.80         3.42 
TCGA-06-0164 TCGA-06-0165 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 
       56.91        10.65        19.66         3.29        13.12         4.47 
TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 
        3.22         4.04        91.00        88.14        20.25         3.65 
TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 TCGA-06-0190 
       69.90        73.84        27.22        44.58        15.42        10.42 
TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 
       38.96         4.67         7.40         5.56         0.39         7.66 
TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 TCGA-06-0216 
        8.42         7.40        11.84         0.53        15.02        24.16 
TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 
        0.72        19.82        13.64        13.32        20.42        48.69 
TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 TCGA-06-0410 TCGA-06-0412 
       10.82         9.01         0.26        72.36         4.70         9.57 
TCGA-06-0413 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 
        3.16        12.62         5.75         5.75         9.80         2.10 
TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 
       23.57        14.20        26.40        46.88         7.86         2.70 
TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 
        2.70         0.92        43.46        46.19         7.17        40.41 
TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1800 
       16.57        20.78        26.76        23.93         6.84        26.79 
TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 
       11.84        15.32        13.61        33.90         1.08        12.49 
TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 
        4.93        17.65        12.56        30.64         5.95        16.64 
TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 
        5.98         4.37         0.43        31.50         7.79         5.39 
TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 TCGA-08-0344 
      120.56         7.36        22.68        37.84         4.18       115.86 
TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 
        1.74         8.42        25.71        12.16         9.80        29.23 
TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 
       65.33         1.28         8.42        17.95        24.56        31.10 
TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 
       37.58        22.29         3.39        12.23        14.93        18.02 
TCGA-08-0389 TCGA-08-0390 TCGA-08-0509 TCGA-08-0510 TCGA-08-0512 TCGA-08-0514 
       15.35        13.97        12.56         4.27        42.15        11.08 
TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 
       19.59        58.68        19.33        10.75         4.80         7.27 
TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 
       15.98        18.41         7.56        14.73        12.99        34.92 
TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 
       10.45         7.59        94.78         0.10        38.17        25.97 
TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 
       26.66        12.13         3.65        20.38        28.41        15.06 
TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 
       53.85        43.23         7.63         9.73        14.93        14.86 
TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0827 TCGA-12-0828 
       24.79        18.48        10.62        23.51        38.76         8.94 
TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 
       20.58       127.59         5.82         7.59        33.21        15.98 
TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 
       12.23        15.85         9.11        14.53         3.98         4.14 
TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 TCGA-14-0867 TCGA-14-0871 
        2.24        11.24         1.35         5.39         2.04        28.93 
TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 TCGA-15-1447 
       19.30         0.79        13.78        50.53        19.10        53.19 
TCGA-15-1449 TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 
       13.28         3.91        26.07        16.37        11.77        21.90 
TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1388 TCGA-19-1389 
        0.66        10.75         9.07         5.95        12.95         4.64 
TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 
       31.33        14.86         5.49         1.58         7.92         2.33 
TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 
        7.30         5.26        14.93        11.28        17.88        14.53 
TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5215 TCGA-28-5216 TCGA-28-5219 
       11.77        31.27        23.44        11.01        13.64        22.68 
TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 
       12.76         5.42         7.36        11.38         5.42         3.75 
TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        1.61        17.72        26.30 

  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
              0.20               0.03 
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
            117.40             211.17 
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
             14.53              16.01 
[1] "0.2 - 117.4 (14.5)" "0.0 - 211.2 (16.0)"
[1] "hr=" "1.7"
D27V2, continuous
D27V3, binary
                    cls
clus                   0   1
  15Q GAIN MUTATED    25  12
  15Q GAIN WILD-TYPE 548 500
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  15Q GAIN MUTATED     25   12
  15Q GAIN WILD-TYPE  548  500
                        clus
vv                       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  BRAIN                                25                548
  CENTRAL NERVOUS SYSTEM               12                500
[1] 2 2
[1] FALSE
D27V4, binary
                    cls
clus                   0   1
  15Q GAIN MUTATED    16  21
  15Q GAIN WILD-TYPE 437 611
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  15Q GAIN MUTATED     16   21
  15Q GAIN WILD-TYPE  437  611
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  FEMALE               16                437
  MALE                 21                611
[1] 2 2
[1] FALSE
D27V5, binary
                    cls
clus                   0   1
  15Q GAIN MUTATED    10  27
  15Q GAIN WILD-TYPE 248 743
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  15Q GAIN MUTATED     10   27
  15Q GAIN WILD-TYPE  248  743
     clus
vv    15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  NO                10                248
  YES               27                743
[1] 2 2
[1] FALSE
D27V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  15Q GAIN MUTATED             7                             1                3
  15Q GAIN WILD-TYPE         187                            29              126
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  15Q GAIN MUTATED                   2                   1
  15Q GAIN WILD-TYPE               187                  17
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  15Q GAIN MUTATED                                23
  15Q GAIN WILD-TYPE                             502
D27V7, multiclass
                                 clus
vv                                15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  ASTROCYTOMA                                    7                187
  GLIOBLASTOMA MULTIFORME (GBM)                  1                 29
  OLIGOASTROCYTOMA                               3                126
  OLIGODENDROGLIOMA                              2                187
  TREATED PRIMARY GBM                            1                 17
  UNTREATED PRIMARY (DE NOVO) GBM               23                502
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  15Q GAIN MUTATED                                  0     0
  15Q GAIN WILD-TYPE                                1    21
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  15Q GAIN MUTATED                           2    35
  15Q GAIN WILD-TYPE                        69   924
D27V8, multiclass
                                  clus
vv                                 15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           0                 21
  BLACK OR AFRICAN AMERICAN                       2                 69
  WHITE                                          35                924
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D27V9, binary
                    cls
clus                   0   1
  15Q GAIN MUTATED     0  32
  15Q GAIN WILD-TYPE  44 889
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  15Q GAIN MUTATED      0   32
  15Q GAIN WILD-TYPE   44  889
                        clus
vv                       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  HISPANIC OR LATINO                    0                 44
  NOT HISPANIC OR LATINO               32                889
[1] 2 2
[1] FALSE

Clustering(28) Variable = 16P GAIN MUTATION ANALYSIS
D28V1, survival
                    sevent
clus2                  0   1
  16P GAIN MUTATED    18  36
  16P GAIN WILD-TYPE 462 562
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                54               1024 
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                36                562 
$`16P GAIN MUTATED`
TCGA-19-A6J4 TCGA-DH-A66B TCGA-12-1598 TCGA-12-1602 TCGA-12-3646 TCGA-14-1454 
        3.98        42.05        15.65         6.77        44.02        30.18 
TCGA-14-3477 TCGA-27-1832 TCGA-28-2506 TCGA-28-2509 TCGA-41-2573 TCGA-CS-5397 
        3.78         9.86         6.74         4.77         8.94         6.38 
TCGA-DB-A4XH TCGA-DU-6392 TCGA-DU-6400 TCGA-DU-7007 TCGA-DU-7010 TCGA-DU-A5TS 
       31.63       211.17         1.22        62.96        14.99        31.69 
TCGA-E1-A7YD TCGA-FG-5962 TCGA-HT-A5R7 TCGA-HT-A618 TCGA-S9-A6WH TCGA-S9-A7QW 
       14.30        47.77        20.22        16.83        38.56        15.06 
TCGA-TM-A84I TCGA-VM-A8CA TCGA-02-0051 TCGA-02-0069 TCGA-02-0075 TCGA-02-0079 
       28.08        13.51        15.09        28.70        20.84        27.25 
TCGA-02-0106 TCGA-02-0113 TCGA-06-0128 TCGA-06-0166 TCGA-06-0188 TCGA-06-0197 
       11.67        92.65        22.72         5.85        44.58         5.56 
TCGA-06-0237 TCGA-06-0409 TCGA-06-1086 TCGA-06-2558 TCGA-06-2567 TCGA-08-0245 
       13.64        72.36         6.84        12.49         4.37        37.84 
TCGA-08-0386 TCGA-08-0510 TCGA-08-0516 TCGA-12-0692 TCGA-12-0821 TCGA-12-0827 
       18.02         4.27        19.59         3.65        10.62        38.76 
TCGA-12-1088 TCGA-15-1447 TCGA-15-1449 TCGA-16-0850 TCGA-19-1388 TCGA-28-5207 
      127.59        53.19        13.28        16.37        12.95        11.28 

$`16P GAIN WILD-TYPE`
TCGA-06-6391 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DU-7300 
        1.48        51.55        46.88        46.72        31.82        62.01 
TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 TCGA-FG-A87N 
       17.16        23.90        20.09        17.82        20.45        18.64 
TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 TCGA-06-5408 
       21.40        45.60        42.77        59.38        15.32        11.74 
TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 
        3.55         8.35         4.54         8.81         8.98         8.55 
TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 
        6.71         2.73         3.75         6.15         4.57         5.23 
TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 
        8.32        12.85         4.77         1.55         4.77         4.96 
TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL 
       26.79         1.87         3.12         2.56        14.60        17.72 
TCGA-12-0615 TCGA-12-1092 TCGA-12-1599 TCGA-12-1600 TCGA-12-3644 TCGA-12-3648 
       15.35        21.73        25.68        14.73        59.77        26.93 
TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 
       15.22        10.95        12.69        34.92        14.53        14.93 
TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 
        3.22         2.04        15.12        11.97         0.95         6.21 
TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 
       23.05        13.78         3.25         2.89        16.50        26.33 
TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 
       15.95         1.38         1.12         3.75        32.05        58.78 
TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 
       23.11         7.10         1.15         0.92        40.96         6.67 
TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 TCGA-14-1823 TCGA-14-1825 
       12.43         0.99         1.97        17.79        17.85         7.63 
TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-4157 TCGA-16-0848 
        5.88         7.17        17.49         7.96         3.42        17.59 
TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 
       29.03         4.57        10.29        14.01         9.14        21.24 
TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 
       13.97         6.41         8.61        14.27         3.39        25.38 
TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 
        3.65         7.17        12.66         3.25         0.13         9.67 
TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 
        4.87         1.08         7.53         0.16         4.08        24.23 
TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 
        7.00         7.04         6.64        17.19         8.02        18.90 
TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 
        4.73        12.10         1.78        22.49        14.07        16.80 
TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 TCGA-26-1440 
       14.96        17.79        28.54        10.03        13.87         9.73 
TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX 
        7.13         9.37         9.40         8.88        18.97        19.33 
TCGA-27-1830 TCGA-27-1831 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 
        5.06        16.60        24.23        40.54        21.30        30.05 
TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 
       14.04        11.51        24.76        18.08        16.77        16.08 
TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 
        7.59         2.86        14.40        15.78         0.20         2.53 
TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 
        9.21         8.35         7.63         8.48         1.22         1.55 
TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 
        2.83         0.13         0.66        15.39        21.07         0.49 
TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 
        0.10        15.85        19.50         1.18         4.67        12.69 
TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 
       14.86        16.93        12.23        20.78        15.02        15.95 
TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 
        8.84        22.78        25.18        21.14         3.72        12.59 
TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2575 
       19.86        10.85        19.23         0.85        13.35         9.53 
TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 
        0.99         4.44        11.84         0.20        15.12        12.46 
TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 
        4.08         1.45        25.58         3.45        20.91         4.34 
TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 
       14.33         8.22         7.50         4.80         4.54         3.09 
TCGA-76-4929 TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 
        3.65         9.17         2.53        36.85        16.70         3.29 
TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 
        2.70        17.06         8.35        20.98         4.83         5.03 
TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA 
       23.90        34.45        18.64        36.20         5.92         6.28 
TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 
       20.55       117.50         7.69        43.89        36.36        60.10 
TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-6186 TCGA-CS-6188 
       40.18         0.26        21.01        53.62        17.69        26.76 
TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 
       37.38        46.95        48.30        49.94        49.12       122.73 
TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 
       81.96        75.25        47.93        72.92        50.86        91.13 
TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB 
       44.52        36.56        78.28        46.42        18.84        30.21 
TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A64L TCGA-DB-A64O 
       39.78        37.45        33.57        72.95        24.20        25.48 
TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V 
       30.12         5.98        31.40        27.45        27.81        29.23 
TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O 
       14.40        18.51        12.10        11.24        17.88        30.74 
TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       16.18        19.96        63.88        46.06        24.59        30.21 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 
       15.16        52.11        22.42        49.02        75.16        46.06 
TCGA-DU-6399 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
       65.75        87.45         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 
       16.83        94.52       114.08         7.96         2.40        11.47 
TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 
      156.23       154.36       105.21         6.54         8.84       117.40 
TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 
       90.77        30.67        26.30        10.36         7.96        94.32 
TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 
       18.94        44.02        25.91        60.30        23.31        41.98 
TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 
        2.76         5.10        23.74        14.60        20.68        21.40 
TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR 
       19.13        16.96        15.48        14.17        33.27        29.85 
TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 
       24.43        26.17        24.99        33.96        25.55        21.57 
TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R 
       95.11        20.98        22.29        11.41        26.76        21.30 
TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       17.98       139.04        84.33        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 
       44.42        38.89         0.56        50.14        67.46        41.13 
TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 
       79.99        57.93       134.27        78.21        95.57       130.78 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL 
       29.13        93.21         3.65        19.46        12.43        16.18 
TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV 
       21.30        75.02        51.88        15.32         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       36.82       146.14        13.08        73.48       145.05        32.35 
TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 
       39.48         0.23         0.20        25.48        52.21        36.82 
TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 
       18.77        14.93        42.54        41.33        18.44        15.35 
TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 
       17.88        22.55        20.61        20.09        28.34        13.68 
TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT 
       14.24        16.01        14.96        22.52        32.61        38.27 
TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L 
       10.72        18.38        18.71        23.70        14.76        21.53 
TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 
       15.02        16.44        22.26        28.54        10.78        36.66 
TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 
       48.69         5.72        27.52         0.10         6.67        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
        6.54        24.26         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 
        0.76        44.68         6.05        42.74         0.10        31.69 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 
       14.96         0.10         0.10         2.96        17.52         6.90 
TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 
       14.53        39.48        19.23        39.09         0.23        50.63 
TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 
        0.49        23.61        37.15         0.33         0.13         3.68 
TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 
        5.33        35.47         3.72        11.28        31.43         1.64 
TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
       16.24         9.40        63.55         0.10        37.87        33.01 
TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 
       12.23         6.25         0.10         0.46         2.50         5.56 
TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 
       13.78         0.23        29.59        34.19        28.27        15.72 
TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB 
        0.23        26.04         0.13         0.07        27.35         0.10 
TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A61B 
        5.33         2.70        16.93         1.81        16.14        17.52 
TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O 
       17.65         2.43        10.52        15.35        11.05         0.10 
TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 
       56.58        45.44        41.49        68.32        69.27        35.44 
TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK 
       39.75        40.01        42.54        24.92        31.63        12.76 
TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV 
       28.87        20.71        19.00        14.40        14.40         0.23 
TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 
        6.71         7.99         2.37         2.30         9.44         5.88 
TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X 
        7.96         7.59         1.28         0.23        10.42        13.25 
TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 
       11.64        10.95         9.01        13.61         9.60         7.56 
TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R 
       12.23        19.20         3.45         2.37         4.41        15.16 
TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU 
        2.53        12.62        15.85        14.04        19.33        14.83 
TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 
       14.53        13.61        12.23        13.41         9.17        10.29 
TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC 
       14.53        16.34        16.73         1.91        16.50        16.70 
TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X 
       11.08        12.99        88.83        94.03        32.65        30.87 
TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
        5.46         9.90        28.08         2.07        19.59        30.67 
TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY 
       62.17        87.12        18.77        41.10        40.93        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       36.82        24.39        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE 
       98.24        95.93         5.85       123.65        75.25       135.22 
TCGA-S9-A6WG TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO 
       85.55        84.99        31.10        19.86        26.47        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.64        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QX 
       19.99        20.02         8.19         2.04        20.68        18.54 
TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 
       28.37        27.16       169.84        10.39        99.06        30.05 
TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 
       98.63        31.59        18.71        20.48        54.77        48.33 
TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F 
       49.32        34.78        65.39        24.92        16.18        59.05 
TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O 
       40.64        30.44        24.16        40.83        24.79        33.24 
TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG 
       25.38        18.61        14.93        23.80        21.37        19.69 
TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN 
       15.98         2.04        40.41        44.09        36.69        33.73 
TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV 
       31.20        30.05        26.14        25.87        33.93        61.41 
TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CB TCGA-VM-A8CD 
       26.99        31.36        45.93        43.20         0.10         7.89 
TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS 
       39.16        20.02        23.47        37.05        16.01        23.21 
TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A 
        8.05        51.06        13.32        43.96        39.88        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 TCGA-02-0001 
       45.80        46.88        37.71        20.81         7.63        11.77 
TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 
        4.73        18.35        23.18        10.59        35.41        20.71 
TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 
       82.59        20.61        87.06        77.65        20.12        53.10 
TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 
       42.74        24.59        12.16        90.58         2.83        14.14 
TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 
        3.62        10.72        10.52        18.31         6.87        14.73 
TCGA-02-0048 TCGA-02-0052 TCGA-02-0054 TCGA-02-0055 TCGA-02-0057 TCGA-02-0058 
        3.22        12.59         6.54         2.50        19.86         8.35 
TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0070 TCGA-02-0071 
        9.57         6.02        19.73        26.43        25.05         5.49 
TCGA-02-0074 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 
       10.19        89.72        22.72        12.62        51.32         8.81 
TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0107 
       57.76        16.96         3.48        27.02        65.00        17.65 
TCGA-02-0111 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 
       23.18        99.98        15.65        48.95        16.54        16.93 
TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 
       17.72        10.75        14.47         3.98        13.87        14.20 
TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 
       15.95        12.23         9.90         7.73        10.62         7.33 
TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 
       15.91        25.71         4.37        25.12        10.59        12.39 
TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 
       14.50        10.55        47.11        11.34         9.27        16.21 
TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 
        3.35        16.80        12.92        15.32        15.45        20.32 
TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 
        2.70         6.15        20.38        47.61         6.94         3.98 
TCGA-06-0129 TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 
       33.67        12.95        25.35        14.30        26.70        24.23 
TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 
       11.90         0.20        10.29         2.20        11.74         2.33 
TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 
       20.09        17.79        10.09         8.61        19.46        46.59 
TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 
       12.33        13.94        10.45         3.19        10.82         9.44 
TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 TCGA-06-0168 TCGA-06-0169 
       11.80         3.42        56.91        10.65        19.66         3.29 
TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 
       13.12         4.47         3.22         4.04        91.00         4.18 
TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 
       88.14        20.25         3.65        69.90        73.84        27.22 
TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 TCGA-06-0201 
       15.42        10.42        38.96         4.67         7.40         0.39 
TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 
        7.66         8.42         7.40        11.84         0.53        15.02 
TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 
       24.16         0.72        19.82        13.32        20.42        48.69 
TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 
       10.82         9.01         0.26         4.70         9.57         3.16 
TCGA-06-0414 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 
       35.11        12.62         5.75         5.75         9.80         2.10 
TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 
       23.57        14.20        26.40        46.88         7.86         2.70 
TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 
        2.70         0.92        43.46        46.19         7.17        40.41 
TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1087 TCGA-06-1800 
       16.57        20.78        26.76        23.93         4.04        26.79 
TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 TCGA-06-2559 
       11.84        15.32        13.61        33.90         1.08         4.93 
TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 
       17.65        12.56        30.64         5.95        16.64         5.98 
TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 
        0.43        31.50         7.79         5.39       120.56         7.36 
TCGA-08-0244 TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 
       22.68         4.18       115.86         1.74         8.42        25.71 
TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 
       12.16         9.80        29.23        65.33         1.28         8.42 
TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 
       17.95        24.56        31.10        37.58        22.29         3.39 
TCGA-08-0375 TCGA-08-0380 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 
       12.23        14.93        15.35        13.97         0.72        12.56 
TCGA-08-0512 TCGA-08-0514 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 
       42.15        11.08        58.68        19.33        10.75         4.80 
TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 
        7.27        15.98        18.41         7.56        14.73        12.99 
TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 
       34.92        10.45         7.59        94.78         0.10        38.17 
TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 
       25.97        26.66        12.13        20.38        28.41        15.06 
TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 
       53.85        43.23         7.63         9.73        14.93        14.86 
TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0822 TCGA-12-0826 TCGA-12-0828 
       91.76        24.79        18.48        23.51        27.78         8.94 
TCGA-12-0829 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 
       20.58         5.82         7.59        33.21        15.98        12.23 
TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 TCGA-14-0787 
       15.85         9.11        14.53         3.98         4.14         2.24 
TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 TCGA-14-0867 TCGA-14-0871 TCGA-14-1037 
       11.24         1.35         5.39         2.04        28.93        19.30 
TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 TCGA-16-0846 TCGA-16-0849 
        0.79        13.78        50.53        19.10         3.91        26.07 
TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 
       11.77        21.90         0.66        10.75         9.07         5.95 
TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 
        4.64        31.33        14.86         5.49         1.58         7.92 
TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 TCGA-28-5208 TCGA-28-5209 
        2.33         7.30         5.26        14.93        17.88        14.53 
TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5215 TCGA-28-5216 TCGA-28-5218 
       11.77        31.27        23.44        11.01        13.64         5.16 
TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 
       22.68        12.76         5.42         7.36        11.38         5.42 
TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        3.75         1.61        17.72        26.30 

  16P GAIN MUTATED 16P GAIN WILD-TYPE 
              1.22               0.03 
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
            211.17             182.33 
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
            15.370             15.995 
[1] "1.2 - 211.2 (15.4)" "0.0 - 182.3 (16.0)"
[1] "hr=" "1.1"
D28V2, continuous
D28V3, binary
                    cls
clus                   0   1
  16P GAIN MUTATED    38  16
  16P GAIN WILD-TYPE 535 496
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16P GAIN MUTATED     38   16
  16P GAIN WILD-TYPE  535  496
                        clus
vv                       16P GAIN MUTATED 16P GAIN WILD-TYPE
  BRAIN                                38                535
  CENTRAL NERVOUS SYSTEM               16                496
[1] 2 2
[1] FALSE
D28V4, binary
                    cls
clus                   0   1
  16P GAIN MUTATED    27  27
  16P GAIN WILD-TYPE 426 605
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16P GAIN MUTATED     27   27
  16P GAIN WILD-TYPE  426  605
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  FEMALE               27                426
  MALE                 27                605
[1] 2 2
[1] FALSE
D28V5, binary
                    cls
clus                   0   1
  16P GAIN MUTATED     7  45
  16P GAIN WILD-TYPE 251 725
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16P GAIN MUTATED      7   45
  16P GAIN WILD-TYPE  251  725
     clus
vv    16P GAIN MUTATED 16P GAIN WILD-TYPE
  NO                 7                251
  YES               45                725
[1] 2 2
[1] FALSE
D28V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  16P GAIN MUTATED            10                             1                2
  16P GAIN WILD-TYPE         184                            29              127
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  16P GAIN MUTATED                   4                   1
  16P GAIN WILD-TYPE               185                  17
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  16P GAIN MUTATED                                36
  16P GAIN WILD-TYPE                             489
D28V7, multiclass
                                 clus
vv                                16P GAIN MUTATED 16P GAIN WILD-TYPE
  ASTROCYTOMA                                   10                184
  GLIOBLASTOMA MULTIFORME (GBM)                  1                 29
  OLIGOASTROCYTOMA                               2                127
  OLIGODENDROGLIOMA                              4                185
  TREATED PRIMARY GBM                            1                 17
  UNTREATED PRIMARY (DE NOVO) GBM               36                489
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  16P GAIN MUTATED                                  0     1
  16P GAIN WILD-TYPE                                1    20
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  16P GAIN MUTATED                           6    46
  16P GAIN WILD-TYPE                        65   913
D28V8, multiclass
                                  clus
vv                                 16P GAIN MUTATED 16P GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           1                 20
  BLACK OR AFRICAN AMERICAN                       6                 65
  WHITE                                          46                913
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D28V9, binary
                    cls
clus                   0   1
  16P GAIN MUTATED     0  49
  16P GAIN WILD-TYPE  44 872
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16P GAIN MUTATED      0   49
  16P GAIN WILD-TYPE   44  872
                        clus
vv                       16P GAIN MUTATED 16P GAIN WILD-TYPE
  HISPANIC OR LATINO                    0                 44
  NOT HISPANIC OR LATINO               49                872
[1] 2 2
[1] FALSE

Clustering(29) Variable = 16Q GAIN MUTATION ANALYSIS
D29V1, survival
                    sevent
clus2                  0   1
  16Q GAIN MUTATED    19  38
  16Q GAIN WILD-TYPE 461 560
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                57               1021 
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                38                560 
$`16Q GAIN MUTATED`
TCGA-19-A6J4 TCGA-12-1598 TCGA-12-3646 TCGA-14-1454 TCGA-14-1821 TCGA-14-3477 
        3.98        15.65        44.02        30.18        17.79         3.78 
TCGA-19-2620 TCGA-28-2506 TCGA-28-2509 TCGA-41-2573 TCGA-CS-5397 TCGA-DB-A4XH 
        4.87         6.74         4.77         8.94         6.38        31.63 
TCGA-DU-6392 TCGA-DU-6400 TCGA-DU-7007 TCGA-DU-7010 TCGA-DU-A5TS TCGA-E1-5302 
      211.17         1.22        62.96        14.99        31.69        50.14 
TCGA-E1-5304 TCGA-E1-A7YD TCGA-FG-5962 TCGA-HT-A5R7 TCGA-HT-A616 TCGA-HT-A618 
       41.13        14.30        47.77        20.22         1.81        16.83 
TCGA-S9-A7J0 TCGA-S9-A7QW TCGA-TM-A84I TCGA-TM-A84Q TCGA-VM-A8CA TCGA-02-0051 
       20.02        15.06        28.08        25.38        13.51        15.09 
TCGA-02-0069 TCGA-02-0075 TCGA-02-0079 TCGA-02-0106 TCGA-02-0113 TCGA-06-0128 
       28.70        20.84        27.25        11.67        92.65        22.72 
TCGA-06-0166 TCGA-06-0188 TCGA-06-0197 TCGA-06-0237 TCGA-06-0409 TCGA-06-0410 
        5.85        44.58         5.56        13.64        72.36         4.70 
TCGA-06-1086 TCGA-06-2558 TCGA-06-2567 TCGA-08-0245 TCGA-08-0386 TCGA-08-0510 
        6.84        12.49         4.37        37.84        18.02         4.27 
TCGA-08-0516 TCGA-12-0692 TCGA-12-0821 TCGA-12-0827 TCGA-15-1447 TCGA-15-1449 
       19.59         3.65        10.62        38.76        53.19        13.28 
TCGA-16-0850 TCGA-19-1388 TCGA-28-5207 
       16.37        12.95        11.28 

$`16Q GAIN WILD-TYPE`
TCGA-06-6391 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        1.48        51.55        46.88        46.72        31.82        42.05 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       62.01        17.16        23.90        20.09        17.82        20.45 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 
       18.64        21.40        45.60        42.77        59.38        15.32 
TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 
       11.74         3.55         8.35         4.54         8.81         8.98 
TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 
        8.55         6.71         2.73         3.75         6.15         4.57 
TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 
        5.23         8.32        12.85         4.77         1.55         4.77 
TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK 
        4.96        26.79         1.87         3.12         2.56        14.60 
TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1599 TCGA-12-1600 TCGA-12-1602 
       17.72        15.35        21.73        25.68        14.73         6.77 
TCGA-12-3644 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 
       59.77        26.93        15.22        10.95        12.69        34.92 
TCGA-12-3653 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 
       14.53        14.93         3.22         2.04        15.12        11.97 
TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 
        0.95         6.21        23.05        13.78         3.25         2.89 
TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 
       16.50        26.33        15.95         1.38         1.12         3.75 
TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 TCGA-14-1455 
       32.05        58.78        23.11         7.10         1.15         0.92 
TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 TCGA-14-1823 
       40.96         6.67        12.43         0.99         1.97        17.85 
TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-4157 
        7.63         5.88         7.17        17.49         7.96         3.42 
TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 
       17.59        29.03         4.57        10.29        14.01         9.14 
TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 
       21.24        13.97         6.41         8.61        14.27         3.39 
TCGA-19-1390 TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 
       25.38         3.65         7.17        12.66         3.25         0.13 
TCGA-19-2619 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 
        9.67         1.08         7.53         0.16         4.08        24.23 
TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 
        7.00         7.04         6.64        17.19         8.02        18.90 
TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 
        4.73        12.10         1.78        22.49        14.07        16.80 
TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 TCGA-26-1440 
       14.96        17.79        28.54        10.03        13.87         9.73 
TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX 
        7.13         9.37         9.40         8.88        18.97        19.33 
TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 
        5.06        16.60         9.86        24.23        40.54        21.30 
TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 
       30.05        14.04        11.51        24.76        18.08        16.77 
TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 
       16.08         7.59         2.86        14.40        15.78         0.20 
TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 
        2.53         9.21         8.35         7.63         8.48         1.22 
TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-32-1970 TCGA-32-1973 
        1.55         2.83         0.13         0.66        15.39        21.07 
TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 
        0.49         0.10        15.85        19.50         1.18         4.67 
TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 
       12.69        14.86        16.93        12.23        20.78        15.02 
TCGA-32-2615 TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 
       15.95         8.84        22.78        25.18        21.14         3.72 
TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 
       12.59        19.86        10.85        19.23         0.85        13.35 
TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 TCGA-41-4097 TCGA-41-5651 
        9.53         0.99         4.44        11.84         0.20        15.12 
TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 
       12.46         4.08         1.45        25.58         3.45        20.91 
TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 
        4.34        14.33         8.22         7.50         4.80         4.54 
TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 
        3.09         3.65         9.17         2.53        36.85        16.70 
TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 
        3.29         2.70        17.06         8.35        20.98         4.83 
TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R 
        5.03        23.90        34.45        18.64        36.20         5.92 
TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 
        6.28        20.55       117.50         7.69        43.89        36.36 
TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-6186 
       60.10        40.18         0.26        21.01        53.62        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 
       26.76        37.38        46.95        48.30        49.94        49.12 
TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 
      122.73        81.96        75.25        47.93        72.92        50.86 
TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA 
       91.13        44.52        36.56        78.28        46.42        18.84 
TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A64L 
       30.21        39.78        37.45        33.57        72.95        24.20 
TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U 
       25.48        30.12         5.98        31.40        27.45        27.81 
TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M 
       29.23        14.40        18.51        12.10        11.24        17.88 
TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 
       30.74        16.18        19.96        63.88        46.06        24.59 
TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       30.21        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       17.49        15.16        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       46.06        65.75        87.45         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 
       19.89        16.83        94.52       114.08         7.96         2.40 
TCGA-DU-7006 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 
       11.47       156.23       154.36       105.21         6.54         8.84 
TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 
      117.40        90.77        30.67        26.30        10.36         7.96 
TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 
       94.32        18.94        44.02        25.91        60.30        23.31 
TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 
       41.98         2.76         5.10        23.74        14.60        20.68 
TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP 
       21.40        19.13        16.96        15.48        14.17        33.27 
TCGA-DU-A5TR TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 
       29.85        24.43        26.17        24.99        33.96        25.55 
TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L 
       21.57        95.11        20.98        22.29        11.41        26.76 
TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC 
       21.30        17.98       139.04        84.33        51.52        37.38 
TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5303 TCGA-E1-5305 
        7.50        44.42        38.89         0.56        67.46        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YE 
       57.93       134.27        78.21        95.57       130.78        29.13 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       93.21         3.65        19.46        12.43        16.18        21.30 
TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW 
       75.02        51.88        15.32         0.76        32.45        36.82 
TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 
      146.14        13.08        73.48       145.05        32.35        39.48 
TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 
        0.23         0.20        25.48        52.21        36.82        18.77 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 
       14.93        42.54        41.33        18.44        15.35        17.88 
TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 
       22.55        20.61        20.09        28.34        13.68        14.24 
TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU 
       16.01        14.96        22.52        32.61        38.27        10.72 
TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ 
       18.38        18.71        23.70        14.76        21.53        15.02 
TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 
       16.44        22.26        28.54        10.78        36.66        48.69 
TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 
        5.72        27.52         0.10         6.67        11.54        40.11 
TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 
        0.13         0.03        16.54         3.75        17.42         6.54 
TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 
       24.26         6.38        40.34        75.19        95.93       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
        4.57        17.29         3.16        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       57.60         0.23        14.27         0.16        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 
       44.68         6.05        42.74         0.10        31.69        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
        0.10         0.10         2.96        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 
       39.48        19.23        39.09         0.23        50.63         0.49 
TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
       23.61        37.15         0.33         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 
       35.47         3.72        11.28        31.43         1.64        16.24 
TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 
        9.40        63.55         0.10        37.87        33.01        12.23 
TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 
        6.25         0.10         0.46         2.50         5.56        13.78 
TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS 
        0.23        29.59        34.19        28.27        15.72         0.23 
TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC 
       26.04         0.13         0.07        27.35         0.10         5.33 
TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A617 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H 
        2.70        16.93        16.14        17.52        17.65         2.43 
TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 
       10.52        15.35        11.05         0.10        56.58        45.44 
TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 
       41.49        68.32        69.27        35.44        39.75        40.01 
TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       42.54        24.92        31.63        12.76        28.87        20.71 
TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX 
       19.00        14.40        14.40         0.23         6.71         7.99 
TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 
        2.37         2.30         9.44         5.88         7.96         7.59 
TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 
        1.28         0.23        10.42        13.25        11.64        10.95 
TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W 
        9.01        13.61         9.60         7.56        12.23        19.20 
TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V 
        3.45         2.37         4.41        15.16         2.53        12.62 
TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW 
       15.85        14.04        19.33        14.83        14.53        13.61 
TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 
       12.23        13.41         9.17        10.29        14.53        16.34 
TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 
       16.73         1.91        16.50        16.70        11.08        12.99 
TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z 
       88.83        94.03        32.65        30.87         5.46         9.90 
TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU 
       28.08         2.07        19.59        30.67        62.17        87.12 
TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       18.77        41.10        40.93        35.38        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 
       25.81        29.85        32.61        35.15        98.24        95.93 
TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH 
        5.85       123.65        75.25       135.22        85.55        38.56 
TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP 
       84.99        31.10        19.86        26.47        18.61        18.64 
TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ 
       14.07        36.13         7.92        26.93        23.51        19.99 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ 
        8.19         2.04        20.68        18.54        28.37        27.16 
TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 
      169.84        10.39        99.06        30.05        98.63        31.59 
TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA 
       18.71        20.48        54.77        48.33        49.32        34.78 
TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H 
       65.39        24.92        16.18        59.05        40.64        30.44 
TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84R TCGA-TM-A84S 
       24.16        40.83        24.79        33.24        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ 
       23.80        21.37        19.69        15.98         2.04        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ 
       44.09        36.69        33.73        31.20        30.05        26.14 
TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 
       25.87        33.93        61.41        26.99        31.36        45.93 
TCGA-VM-A8C9 TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH 
       43.20         0.10         7.89        39.16        20.02        23.47 
TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K 
       37.05        16.01        23.21         8.05        51.06        13.32 
TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D 
       43.96        39.88        43.40        45.80        46.88        37.71 
TCGA-WY-A85E TCGA-06-0209 TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 
       20.81         7.63        11.77         4.73        18.35        23.18 
TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 
       10.59        35.41        20.71        82.59        20.61        87.06 
TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 
       77.65        20.12        53.10        42.74        24.59        12.16 
TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 
       90.58         2.83        14.14         3.62        10.72        10.52 
TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 TCGA-02-0052 TCGA-02-0054 
       18.31         6.87        14.73         3.22        12.59         6.54 
TCGA-02-0055 TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 
        2.50        19.86         8.35         9.57         6.02        19.73 
TCGA-02-0068 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0080 TCGA-02-0083 
       26.43        25.05         5.49        10.19        89.72        22.72 
TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 
       12.62        51.32         8.81        57.76        16.96         3.48 
TCGA-02-0102 TCGA-02-0104 TCGA-02-0107 TCGA-02-0111 TCGA-02-0114 TCGA-02-0115 
       27.02        65.00        17.65        23.18        99.98        15.65 
TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 
       48.95        16.54        16.93        17.72        10.75        14.47 
TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 
        3.98        13.87        14.20        15.95        12.23         9.90 
TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 
        7.73        10.62         7.33        15.91        25.71         4.37 
TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 
       25.12        10.59        12.39        14.50        10.55        47.11 
TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 
       11.34         9.27        16.21         3.35        16.80        12.92 
TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 
       15.32        15.45        20.32         2.70         6.15        20.38 
TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0129 TCGA-06-0130 TCGA-06-0132 
       47.61         6.94         3.98        33.67        12.95        25.35 
TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 
       14.30        26.70        24.23        11.90         0.20        10.29 
TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 
        2.20        11.74         2.33        20.09        17.79        10.09 
TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 
        8.61        19.46        46.59        12.33        13.94        10.45 
TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 
        3.19        10.82         9.44        11.80         3.42        56.91 
TCGA-06-0165 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 
       10.65        19.66         3.29        13.12         4.47         3.22 
TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 
        4.04        91.00         4.18        88.14        20.25         3.65 
TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 
       69.90        73.84        27.22        15.42        10.42        38.96 
TCGA-06-0194 TCGA-06-0195 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 
        4.67         7.40         0.39         7.66         8.42         7.40 
TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 
       11.84         0.53        15.02        24.16         0.72        19.82 
TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 
       13.32        20.42        48.69        10.82         9.01         0.26 
TCGA-06-0412 TCGA-06-0413 TCGA-06-0414 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 
        9.57         3.16        35.11        12.62         5.75         5.75 
TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 
        9.80         2.10        23.57        14.20        26.40        46.88 
TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 
        7.86         2.70         2.70         0.92        43.46        46.19 
TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 
        7.17        40.41        16.57        20.78        26.76        23.93 
TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 
        4.04        26.79        11.84        15.32        13.61        33.90 
TCGA-06-2557 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 
        1.08         4.93        17.65        12.56        30.64         5.95 
TCGA-06-2565 TCGA-06-2566 TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 
       16.64         5.98         0.43        31.50         7.79         5.39 
TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 
      120.56         7.36        22.68         4.18       115.86         1.74 
TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 
        8.42        25.71        12.16         9.80        29.23        65.33 
TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 
        1.28         8.42        17.95        24.56        31.10        37.58 
TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0389 TCGA-08-0390 
       22.29         3.39        12.23        14.93        15.35        13.97 
TCGA-08-0392 TCGA-08-0509 TCGA-08-0512 TCGA-08-0514 TCGA-08-0517 TCGA-08-0518 
        0.72        12.56        42.15        11.08        58.68        19.33 
TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 
       10.75         4.80         7.27        15.98        18.41         7.56 
TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 
       14.73        12.99        34.92        10.45         7.59        94.78 
TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0703 
        0.10        38.17        25.97        26.66        12.13        20.38 
TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 
       28.41        15.06        53.85        43.23         7.63         9.73 
TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0822 
       14.93        14.86        91.76        24.79        18.48        23.51 
TCGA-12-0826 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 
       27.78         8.94        20.58       127.59         5.82         7.59 
TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 
       33.21        15.98        12.23        15.85         9.11        14.53 
TCGA-12-1098 TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 
        3.98         4.14         2.24        11.24         1.35         5.39 
TCGA-14-0867 TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 
        2.04        28.93        19.30         0.79        13.78        50.53 
TCGA-15-1446 TCGA-16-0846 TCGA-16-0849 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 
       19.10         3.91        26.07        11.77        21.90         0.66 
TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 
       10.75         9.07         5.95         4.64        31.33        14.86 
TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 
        5.49         1.58         7.92         2.33         7.30         5.26 
TCGA-28-5204 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 
       14.93        17.88        14.53        11.77        31.27        23.44 
TCGA-28-5215 TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 
       11.01        13.64         5.16        22.68        12.76         5.42 
TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 
        7.36        11.38         5.42         3.75         1.61        17.72 
TCGA-87-5896 
       26.30 

  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
              1.22               0.03 
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
            211.17             182.33 
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
             15.65              15.98 
[1] "1.2 - 211.2 (15.7)" "0.0 - 182.3 (16.0)"
[1] "hr=" "1.2"
D29V2, continuous
D29V3, binary
                    cls
clus                   0   1
  16Q GAIN MUTATED    38  19
  16Q GAIN WILD-TYPE 535 493
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16Q GAIN MUTATED     38   19
  16Q GAIN WILD-TYPE  535  493
                        clus
vv                       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  BRAIN                                38                535
  CENTRAL NERVOUS SYSTEM               19                493
[1] 2 2
[1] FALSE
D29V4, binary
                    cls
clus                   0   1
  16Q GAIN MUTATED    27  30
  16Q GAIN WILD-TYPE 426 602
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16Q GAIN MUTATED     27   30
  16Q GAIN WILD-TYPE  426  602
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  FEMALE               27                426
  MALE                 30                602
[1] 2 2
[1] FALSE
D29V5, binary
                    cls
clus                   0   1
  16Q GAIN MUTATED     9  46
  16Q GAIN WILD-TYPE 249 724
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16Q GAIN MUTATED      9   46
  16Q GAIN WILD-TYPE  249  724
     clus
vv    16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  NO                 9                249
  YES               46                724
[1] 2 2
[1] FALSE
D29V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  16Q GAIN MUTATED            13                             1                1
  16Q GAIN WILD-TYPE         181                            29              128
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  16Q GAIN MUTATED                   5                   1
  16Q GAIN WILD-TYPE               184                  17
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  16Q GAIN MUTATED                                36
  16Q GAIN WILD-TYPE                             489
D29V7, multiclass
                                 clus
vv                                16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  ASTROCYTOMA                                   13                181
  GLIOBLASTOMA MULTIFORME (GBM)                  1                 29
  OLIGOASTROCYTOMA                               1                128
  OLIGODENDROGLIOMA                              5                184
  TREATED PRIMARY GBM                            1                 17
  UNTREATED PRIMARY (DE NOVO) GBM               36                489
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  16Q GAIN MUTATED                                  0     1
  16Q GAIN WILD-TYPE                                1    20
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  16Q GAIN MUTATED                           6    49
  16Q GAIN WILD-TYPE                        65   910
D29V8, multiclass
                                  clus
vv                                 16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           1                 20
  BLACK OR AFRICAN AMERICAN                       6                 65
  WHITE                                          49                910
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D29V9, binary
                    cls
clus                   0   1
  16Q GAIN MUTATED     0  51
  16Q GAIN WILD-TYPE  44 870
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16Q GAIN MUTATED      0   51
  16Q GAIN WILD-TYPE   44  870
                        clus
vv                       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  HISPANIC OR LATINO                    0                 44
  NOT HISPANIC OR LATINO               51                870
[1] 2 2
[1] FALSE

Clustering(30) Variable = 17P GAIN MUTATION ANALYSIS
D30V1, survival
                    sevent
clus2                  0   1
  17P GAIN MUTATED    18  54
  17P GAIN WILD-TYPE 462 544
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                72               1006 
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                54                544 
$`17P GAIN MUTATED`
TCGA-19-A6J4 TCGA-CS-6665 TCGA-06-6700 TCGA-06-A5U1 TCGA-12-1600 TCGA-12-1602 
        3.98        51.55         4.77         1.87        14.73         6.77 
TCGA-12-5301 TCGA-14-0865 TCGA-14-1794 TCGA-14-3477 TCGA-19-1390 TCGA-27-2521 
        2.04        16.50         0.99         3.78        25.38        16.77 
TCGA-28-1746 TCGA-28-2506 TCGA-32-2615 TCGA-32-4210 TCGA-41-2575 TCGA-41-4097 
        0.20         6.74        15.95         3.72         9.53         0.20 
TCGA-RR-A6KA TCGA-DB-A64P TCGA-DH-A669 TCGA-DH-A66F TCGA-DU-7013 TCGA-DU-A6S7 
        6.28        30.12        30.21        17.19         8.84        20.98 
TCGA-E1-5304 TCGA-E1-A7YD TCGA-E1-A7YS TCGA-FG-5962 TCGA-FG-7634 TCGA-FG-A6J3 
       41.13        14.30        15.32        47.77        15.35        22.26 
TCGA-HT-7477 TCGA-IK-7675 TCGA-QH-A6CV TCGA-S9-A6TS TCGA-S9-A6U1 TCGA-S9-A6WL 
       24.26        19.00        14.53        62.17        25.81        31.10 
TCGA-TM-A84M TCGA-VM-A8CA TCGA-VW-A8FI TCGA-02-0003 TCGA-02-0047 TCGA-02-0266 
       24.79        13.51         8.05         4.73        14.73        17.72 
TCGA-02-0281 TCGA-02-0325 TCGA-02-0456 TCGA-02-2466 TCGA-06-0151 TCGA-06-0166 
        3.98        10.62         3.35        16.80        46.59         5.85 
TCGA-06-0173 TCGA-06-0188 TCGA-06-0195 TCGA-06-0216 TCGA-06-0409 TCGA-06-0410 
        4.47        44.58         7.40        24.16        72.36         4.70 
TCGA-06-0414 TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 TCGA-06-1087 TCGA-06-1801 
       35.11        14.20        26.40        46.88         4.04        11.84 
TCGA-06-2557 TCGA-06-6694 TCGA-08-0510 TCGA-12-0821 TCGA-12-0822 TCGA-12-0827 
        1.08         7.36         4.27        10.62        23.51        38.76 
TCGA-12-1096 TCGA-14-0813 TCGA-16-0849 TCGA-19-1388 TCGA-28-5207 TCGA-28-5218 
        9.11         1.35        26.07        12.95        11.28         5.16 

$`17P GAIN WILD-TYPE`
TCGA-06-6391 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B TCGA-DU-7300 
        1.48        46.88        46.72        31.82        42.05        62.01 
TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 TCGA-FG-A87N 
       17.16        23.90        20.09        17.82        20.45        18.64 
TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 TCGA-06-5408 
       21.40        45.60        42.77        59.38        15.32        11.74 
TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 
        3.55         8.35         4.54         8.81         8.98         8.55 
TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 
        6.71         2.73         3.75         6.15         4.57         5.23 
TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6701 TCGA-06-A5U0 
        8.32        12.85         4.77         1.55         4.96        26.79 
TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 
        3.12         2.56        14.60        17.72        15.35        21.73 
TCGA-12-1598 TCGA-12-1599 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 
       15.65        25.68        59.77        44.02        26.93        15.22 
TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 TCGA-12-5299 
       10.95        12.69        34.92        14.53        14.93         3.22 
TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 
       15.12        11.97         0.95         6.21        23.05        13.78 
TCGA-14-0812 TCGA-14-0862 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 
        3.25         2.89        26.33        15.95         1.38         1.12 
TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 
        3.75        32.05        58.78        23.11         7.10         1.15 
TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1795 
       30.18         0.92        40.96         6.67        12.43         1.97 
TCGA-14-1821 TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 
       17.79        17.85         7.63         5.88         7.17        17.49 
TCGA-14-2555 TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 
        7.96         3.42        17.59        29.03         4.57        10.29 
TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 
       14.01         9.14        21.24        13.97         6.41         8.61 
TCGA-19-0963 TCGA-19-0964 TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 
       14.27         3.39         3.65         7.17        12.66         3.25 
TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 
        0.13         9.67         4.87         1.08         7.53         0.16 
TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 
        4.08        24.23         7.00         7.04         6.64        17.19 
TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 
        8.02        18.90         4.73        12.10         1.78        22.49 
TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 
       14.07        16.80        14.96        17.79        28.54        10.03 
TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 
       13.87         9.73         7.13         9.37         9.40         8.88 
TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 
       18.97        19.33         5.06        16.60         9.86        24.23 
TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 
       40.54        21.30        30.05        14.04        11.51        24.76 
TCGA-27-2519 TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 
       18.08        16.08         7.59         2.86        14.40        15.78 
TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 
        2.53         9.21         8.35         7.63         8.48         1.22 
TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2509 TCGA-32-1970 
        1.55         2.83         0.13         0.66         4.77        15.39 
TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 
       21.07         0.49         0.10        15.85        19.50         1.18 
TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 
        4.67        12.69        14.86        16.93        12.23        20.78 
TCGA-32-2495 TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 TCGA-32-4211 
       15.02         8.84        22.78        25.18        21.14        12.59 
TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 
       19.86        10.85        19.23         0.85        13.35         8.94 
TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R 
        0.99         4.44        11.84        15.12        12.46         4.08 
TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 
        1.45        25.58         3.45        20.91         4.34        14.33 
TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 
        8.22         7.50         4.80         4.54         3.09         3.65 
TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 
        9.17         2.53        36.85        16.70         3.29         2.70 
TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 
       17.06         8.35        20.98         4.83         5.03        23.90 
TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KC TCGA-CS-4938 
       34.45        18.64        36.20         5.92        20.55       117.50 
TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 
        7.69        43.89        36.36        60.10        40.18         0.26 
TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 
       21.01        53.62         6.38        17.69        26.76        37.38 
TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 
       46.95        48.30        49.94        49.12       122.73        81.96 
TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 
       75.25        47.93        72.92        50.86        91.13        44.52 
TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD 
       36.56        78.28        46.42        18.84        30.21        39.78 
TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O 
       37.45        33.57        72.95        31.63        24.20        25.48 
TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W 
        5.98        31.40        27.45        27.81        29.23        14.40 
TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A66D TCGA-DH-A66G 
       19.96        63.88        46.06        24.59        27.81        17.19 
TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 
       54.25        23.21        17.46        13.71        18.61        18.02 
TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 
       14.56        17.46         6.74        13.38         8.45         6.81 
TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 
      182.33        18.94        17.49        15.16       211.17        52.11 
TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 
       22.42        49.02        75.16        46.06        65.75         1.22 
TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 
       87.45         7.04        11.64       133.74        19.89        16.83 
TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 
       94.52       114.08         7.96         2.40        11.47        62.96 
TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7014 
      156.23       154.36        14.99       105.21         6.54       117.40 
TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 
       90.77        30.67        26.30        10.36         7.96        94.32 
TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 
       18.94        44.02        25.91        60.30        23.31        41.98 
TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 
        2.76         5.10        23.74        14.60        20.68        21.40 
TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR 
       19.13        16.96        15.48        14.17        33.27        29.85 
TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 
       31.69        24.43        26.17        24.99        33.96        25.55 
TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R 
       21.57        95.11        22.29        11.41        26.76        21.30 
TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       17.98       139.04        84.33        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5305 
       44.42        38.89         0.56        50.14        67.46        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YE 
       57.93       134.27        78.21        95.57       130.78        29.13 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       93.21         3.65        19.46        12.43        16.18        21.30 
TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY 
       75.02        51.88         0.76        32.45        36.82       146.14 
TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 
       13.08        73.48       145.05        32.35        39.48         0.23 
TCGA-F6-A8O4 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 
        0.20        25.48        52.21        36.82        18.77        14.93 
TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 
       42.54        41.33        18.44        17.88        22.55        20.61 
TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 
       20.09        28.34        13.68        14.24        16.01        14.96 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX 
       22.52        32.61        38.27        10.72        18.38        18.71 
TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A70Y 
       23.70        14.76        21.53        15.02        16.44        28.54 
TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 
       10.78        36.66        48.69         5.72        27.52         0.10 
TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 
        6.67        11.54        40.11         0.13         0.03        16.54 
TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 
        3.75        17.42         6.54         6.38        40.34        75.19 
TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 
       95.93       106.95       172.77         4.01         5.03        29.85 
TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 
       23.18       122.47         4.57        17.29         3.16        22.06 
TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 
       45.99        56.09        57.60         0.23        14.27         0.16 
TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 
       16.24         0.76        44.68         6.05        42.74         0.10 
TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 
       31.69        14.96         0.10         0.10         2.96        17.52 
TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 
        6.90        14.53        39.48        19.23        39.09         0.23 
TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 
       50.63         0.49        23.61        37.15         0.33         0.13 
TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 
        3.68         5.33        35.47         3.72        11.28        31.43 
TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 
        1.64        16.24         9.40        63.55         0.10        37.87 
TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 
       33.01        12.23         6.25         0.10         0.46         2.50 
TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 
        5.56        13.78         0.23        29.59        34.19        28.27 
TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 
       15.72         0.23        26.04         0.13        20.22         0.07 
TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 
       27.35         0.10         5.33         2.70        16.93         1.81 
TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J 
       16.14        16.83        17.52        17.65         2.43        10.52 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 
       15.35        11.05         0.10        56.58        45.44        41.49 
TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       68.32        69.27        35.44        39.75        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-KT-A74X 
       24.92        31.63        12.76        28.87        20.71        14.40 
TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ 
       14.40         0.23         6.71         7.99         2.37         2.30 
TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U 
        9.44         5.88         7.96         7.59         1.28         0.23 
TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 
       10.42        13.25        11.64        10.95         9.01        13.61 
TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 
        9.60         7.56        12.23        19.20         3.45         2.37 
TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z 
        4.41        15.16         2.53        12.62        15.85        14.04 
TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ 
       19.33        14.83        13.61        12.23        13.41         9.17 
TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA 
       10.29        14.53        16.34        16.73         1.91        16.50 
TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO 
       16.70        11.08        12.99        88.83        94.03        32.65 
TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 
       30.87         5.46         9.90        28.08         2.07        19.59 
TCGA-RY-A847 TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY 
       30.67        87.12        18.77        41.10        40.93        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       36.82        24.39        29.85        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       95.93         5.85       123.65        75.25       135.22        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP 
       38.56        84.99        19.86        26.47        18.61        18.64 
TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ 
       14.07        36.13         7.92        26.93        23.51        19.99 
TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX 
       20.02         8.19         2.04        20.68        15.06        18.54 
TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 
       28.37        27.16       169.84        10.39        99.06        30.05 
TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 
       98.63        31.59        18.71        20.48        54.77        48.33 
TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F 
       49.32        34.78        65.39        24.92        16.18        59.05 
TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84O 
       40.64        30.44        28.08        24.16        40.83        33.24 
TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG 
       25.38        18.61        14.93        23.80        21.37        19.69 
TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN 
       15.98         2.04        40.41        44.09        36.69        33.73 
TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV 
       31.20        30.05        26.14        25.87        33.93        61.41 
TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CB TCGA-VM-A8CD 
       26.99        31.36        45.93        43.20         0.10         7.89 
TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS 
       39.16        20.02        23.47        37.05        16.01        23.21 
TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B 
       51.06        13.32        43.96        39.88        43.40        45.80 
TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 TCGA-02-0001 TCGA-02-0006 
       46.88        37.71        20.81         7.63        11.77        18.35 
TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 
       23.18        10.59        35.41        20.71        82.59        20.61 
TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 
       87.06        77.65        20.12        53.10        42.74        24.59 
TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 
       12.16        90.58         2.83        14.14         3.62        10.72 
TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 
       10.52        18.31         6.87         3.22        15.09        12.59 
TCGA-02-0054 TCGA-02-0055 TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 
        6.54         2.50        19.86         8.35         9.57         6.02 
TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 
       19.73        26.43        28.70        25.05         5.49        10.19 
TCGA-02-0075 TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 
       20.84        27.25        89.72        22.72        12.62        51.32 
TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 
        8.81        57.76        16.96         3.48        27.02        65.00 
TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 
       11.67        17.65        23.18        92.65        99.98        15.65 
TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0269 TCGA-02-0271 TCGA-02-0285 
       48.95        16.54        16.93        10.75        14.47        13.87 
TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0326 
       14.20        15.95        12.23         9.90         7.73         7.33 
TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 
       15.91        25.71         4.37        25.12        10.59        12.39 
TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 
       14.50        10.55        47.11        11.34         9.27        16.21 
TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 
       12.92        15.32        15.45        20.32         2.70         6.15 
TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 
       20.38        47.61         6.94         3.98        22.72        33.67 
TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 
       12.95        25.35        14.30        26.70        24.23        11.90 
TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 
        0.20        10.29         2.20        11.74         2.33        20.09 
TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0152 TCGA-06-0154 
       17.79        10.09         8.61        19.46        12.33        13.94 
TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 
       10.45         3.19        10.82         9.44        11.80         3.42 
TCGA-06-0164 TCGA-06-0165 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0174 
       56.91        10.65        19.66         3.29        13.12         3.22 
TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 
        4.04        91.00         4.18        88.14        20.25         3.65 
TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 
       69.90        73.84        27.22        15.42        10.42        38.96 
TCGA-06-0194 TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 
        4.67         5.56         0.39         7.66         8.42         7.40 
TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 
       11.84         0.53        15.02         0.72        19.82        13.64 
TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 
       13.32        20.42        48.69        10.82         9.01         0.26 
TCGA-06-0412 TCGA-06-0413 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 
        9.57         3.16        12.62         5.75         5.75         9.80 
TCGA-06-0649 TCGA-06-0650 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 
        2.10        23.57         7.86         2.70         2.70         0.92 
TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 
       43.46        46.19         7.17        40.41        16.57        20.78 
TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1800 TCGA-06-1802 TCGA-06-1804 
       26.76        23.93         6.84        26.79        15.32        13.61 
TCGA-06-1805 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 
       33.90        12.49         4.93        17.65        12.56        30.64 
TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 
        5.95        16.64         5.98         4.37         0.43        31.50 
TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 
        7.79         5.39       120.56        22.68        37.84         4.18 
TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 
      115.86         1.74         8.42        25.71        12.16         9.80 
TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 
       29.23        65.33         1.28         8.42        17.95        24.56 
TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 
       31.10        37.58        22.29         3.39        12.23        14.93 
TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 TCGA-08-0512 
       18.02        15.35        13.97         0.72        12.56        42.15 
TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 
       11.08        19.59        58.68        19.33        10.75         4.80 
TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 
        7.27        15.98        18.41         7.56        14.73        12.99 
TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 
       34.92        10.45         7.59        94.78         0.10        38.17 
TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 
       25.97        26.66        12.13         3.65        20.38        28.41 
TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 
       15.06        53.85        43.23         7.63         9.73        14.93 
TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0826 TCGA-12-0828 
       14.86        91.76        24.79        18.48        27.78         8.94 
TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 
       20.58       127.59         5.82         7.59        33.21        15.98 
TCGA-12-1094 TCGA-12-1095 TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 TCGA-14-0787 
       12.23        15.85        14.53         3.98         4.14         2.24 
TCGA-14-0789 TCGA-14-0817 TCGA-14-0867 TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 
       11.24         5.39         2.04        28.93        19.30         0.79 
TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 TCGA-15-1447 TCGA-15-1449 TCGA-16-0846 
       13.78        50.53        19.10        53.19        13.28         3.91 
TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 
       16.37        11.77        21.90         0.66        10.75         9.07 
TCGA-19-1387 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 
        5.95         4.64        31.33        14.86         5.49         1.58 
TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 TCGA-28-5208 
        7.92         2.33         7.30         5.26        14.93        17.88 
TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5215 TCGA-28-5216 
       14.53        11.77        31.27        23.44        11.01        13.64 
TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 
       22.68        12.76         5.42         7.36        11.38         5.42 
TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        3.75         1.61        17.72        26.30 

  17P GAIN MUTATED 17P GAIN WILD-TYPE 
              0.20               0.03 
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
             72.36             211.17 
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
             14.25              16.18 
[1] "0.2 - 72.4 (14.2)"  "0.0 - 211.2 (16.2)"
[1] "hr=" "1.8"
D30V2, continuous
D30V3, binary
                    cls
clus                   0   1
  17P GAIN MUTATED    51  21
  17P GAIN WILD-TYPE 522 491
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17P GAIN MUTATED     51   21
  17P GAIN WILD-TYPE  522  491
                        clus
vv                       17P GAIN MUTATED 17P GAIN WILD-TYPE
  BRAIN                                51                522
  CENTRAL NERVOUS SYSTEM               21                491
[1] 2 2
[1] FALSE
D30V4, binary
                    cls
clus                   0   1
  17P GAIN MUTATED    21  51
  17P GAIN WILD-TYPE 432 581
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17P GAIN MUTATED     21   51
  17P GAIN WILD-TYPE  432  581
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  FEMALE               21                432
  MALE                 51                581
[1] 2 2
[1] FALSE
D30V5, binary
                    cls
clus                   0   1
  17P GAIN MUTATED    17  52
  17P GAIN WILD-TYPE 241 718
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17P GAIN MUTATED     17   52
  17P GAIN WILD-TYPE  241  718
     clus
vv    17P GAIN MUTATED 17P GAIN WILD-TYPE
  NO                17                241
  YES               52                718
[1] 2 2
[1] FALSE
D30V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  17P GAIN MUTATED            11                             4                1
  17P GAIN WILD-TYPE         183                            26              128
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  17P GAIN MUTATED                   9                   1
  17P GAIN WILD-TYPE               180                  17
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  17P GAIN MUTATED                                46
  17P GAIN WILD-TYPE                             479
D30V7, multiclass
                                 clus
vv                                17P GAIN MUTATED 17P GAIN WILD-TYPE
  ASTROCYTOMA                                   11                183
  GLIOBLASTOMA MULTIFORME (GBM)                  4                 26
  OLIGOASTROCYTOMA                               1                128
  OLIGODENDROGLIOMA                              9                180
  TREATED PRIMARY GBM                            1                 17
  UNTREATED PRIMARY (DE NOVO) GBM               46                479
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  17P GAIN MUTATED                                  0     1
  17P GAIN WILD-TYPE                                1    20
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  17P GAIN MUTATED                           7    61
  17P GAIN WILD-TYPE                        64   898
D30V8, multiclass
                                  clus
vv                                 17P GAIN MUTATED 17P GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           1                 20
  BLACK OR AFRICAN AMERICAN                       7                 64
  WHITE                                          61                898
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D30V9, binary
                    cls
clus                   0   1
  17P GAIN MUTATED     2  64
  17P GAIN WILD-TYPE  42 857
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17P GAIN MUTATED      2   64
  17P GAIN WILD-TYPE   42  857
                        clus
vv                       17P GAIN MUTATED 17P GAIN WILD-TYPE
  HISPANIC OR LATINO                    2                 42
  NOT HISPANIC OR LATINO               64                857
[1] 2 2
[1] FALSE

Clustering(31) Variable = 17Q GAIN MUTATION ANALYSIS
D31V1, survival
                    sevent
clus2                  0   1
  17Q GAIN MUTATED    20  66
  17Q GAIN WILD-TYPE 460 532
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                86                992 
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                66                532 
$`17Q GAIN MUTATED`
TCGA-19-A6J4 TCGA-CS-6665 TCGA-06-6700 TCGA-06-A5U1 TCGA-12-1092 TCGA-12-1600 
        3.98        51.55         4.77         1.87        21.73        14.73 
TCGA-12-1602 TCGA-12-5301 TCGA-14-0865 TCGA-14-1794 TCGA-14-3477 TCGA-19-1390 
        6.77         2.04        16.50         0.99         3.78        25.38 
TCGA-27-1835 TCGA-27-2521 TCGA-28-1746 TCGA-28-2506 TCGA-32-2495 TCGA-32-2615 
       21.30        16.77         0.20         6.74        15.02        15.95 
TCGA-32-4210 TCGA-41-2575 TCGA-41-3915 TCGA-41-4097 TCGA-RR-A6KA TCGA-DB-A64P 
        3.72         9.53        11.84         0.20         6.28        30.12 
TCGA-DB-A64Q TCGA-DH-A669 TCGA-DH-A66F TCGA-DU-7013 TCGA-DU-A6S7 TCGA-E1-5304 
        5.98        30.21        17.19         8.84        20.98        41.13 
TCGA-E1-A7YD TCGA-E1-A7YS TCGA-FG-5962 TCGA-FG-7634 TCGA-FG-A6J3 TCGA-HT-7477 
       14.30        15.32        47.77        15.35        22.26        24.26 
TCGA-IK-7675 TCGA-QH-A6CV TCGA-S9-A6TS TCGA-S9-A6U1 TCGA-S9-A6UA TCGA-S9-A6WL 
       19.00        14.53        62.17        25.81         5.85        31.10 
TCGA-TM-A84M TCGA-TQ-A7RK TCGA-VM-A8CA TCGA-VM-A8CH TCGA-VW-A8FI TCGA-02-0003 
       24.79        44.09        13.51        23.47         8.05         4.73 
TCGA-02-0047 TCGA-02-0266 TCGA-02-0281 TCGA-02-0325 TCGA-02-0456 TCGA-02-2466 
       14.73        17.72         3.98        10.62         3.35        16.80 
TCGA-06-0151 TCGA-06-0166 TCGA-06-0173 TCGA-06-0188 TCGA-06-0195 TCGA-06-0216 
       46.59         5.85         4.47        44.58         7.40        24.16 
TCGA-06-0237 TCGA-06-0409 TCGA-06-0410 TCGA-06-0414 TCGA-06-0686 TCGA-06-0743 
       13.64        72.36         4.70        35.11        14.20        26.40 
TCGA-06-0744 TCGA-06-1087 TCGA-06-1801 TCGA-06-2557 TCGA-06-6694 TCGA-08-0510 
       46.88         4.04        11.84         1.08         7.36         4.27 
TCGA-12-0619 TCGA-12-0821 TCGA-12-0822 TCGA-12-0827 TCGA-12-1096 TCGA-14-0813 
       34.92        10.62        23.51        38.76         9.11         1.35 
TCGA-15-1449 TCGA-16-0846 TCGA-19-1388 TCGA-28-5207 TCGA-28-5215 TCGA-28-5218 
       13.28         3.91        12.95        11.28        11.01         5.16 
TCGA-32-2616 TCGA-76-6280 
        7.36        11.38 

$`17Q GAIN WILD-TYPE`
TCGA-06-6391 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B TCGA-DU-7300 
        1.48        46.88        46.72        31.82        42.05        62.01 
TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 TCGA-FG-A87N 
       17.16        23.90        20.09        17.82        20.45        18.64 
TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 TCGA-06-5408 
       21.40        45.60        42.77        59.38        15.32        11.74 
TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 
        3.55         8.35         4.54         8.81         8.98         8.55 
TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 
        6.71         2.73         3.75         6.15         4.57         5.23 
TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6701 TCGA-06-A5U0 
        8.32        12.85         4.77         1.55         4.96        26.79 
TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 TCGA-12-1598 
        3.12         2.56        14.60        17.72        15.35        15.65 
TCGA-12-1599 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 
       25.68        59.77        44.02        26.93        15.22        10.95 
TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 TCGA-12-5299 TCGA-14-0736 
       12.69        34.92        14.53        14.93         3.22        15.12 
TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 
       11.97         0.95         6.21        23.05        13.78         3.25 
TCGA-14-0862 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 
        2.89        26.33        15.95         1.38         1.12         3.75 
TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 TCGA-14-1454 
       32.05        58.78        23.11         7.10         1.15        30.18 
TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1795 TCGA-14-1821 
        0.92        40.96         6.67        12.43         1.97        17.79 
TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 
       17.85         7.63         5.88         7.17        17.49         7.96 
TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 
        3.42        17.59        29.03         4.57        10.29        14.01 
TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 
        9.14        21.24        13.97         6.41         8.61        14.27 
TCGA-19-0964 TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 
        3.39         3.65         7.17        12.66         3.25         0.13 
TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 
        9.67         4.87         1.08         7.53         0.16         4.08 
TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 
       24.23         7.00         7.04         6.64        17.19         8.02 
TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 
       18.90         4.73        12.10         1.78        22.49        14.07 
TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 
       16.80        14.96        17.79        28.54        10.03        13.87 
TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 
        9.73         7.13         9.37         9.40         8.88        18.97 
TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 
       19.33         5.06        16.60         9.86        24.23        40.54 
TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2523 
       30.05        14.04        11.51        24.76        18.08        16.08 
TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1747 TCGA-28-1749 
        7.59         2.86        14.40        15.78         2.53         9.21 
TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 
        8.35         7.63         8.48         1.22         1.55         2.83 
TCGA-28-1757 TCGA-28-2502 TCGA-28-2509 TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 
        0.13         0.66         4.77        15.39        21.07         0.49 
TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 
        0.10        15.85        19.50         1.18         4.67        12.69 
TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2632 TCGA-32-2634 
       14.86        16.93        12.23        20.78         8.84        22.78 
TCGA-32-2638 TCGA-32-4208 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 
       25.18        21.14        12.59        19.86        10.85        19.23 
TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-3392 TCGA-41-3393 TCGA-41-5651 
        0.85        13.35         8.94         0.99         4.44        15.12 
TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 
       12.46         4.08         1.45        25.58         3.45        20.91 
TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 
        4.34        14.33         8.22         7.50         4.80         4.54 
TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 
        3.09         3.65         9.17         2.53        36.85        16.70 
TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 
        3.29         2.70        17.06         8.35        20.98         4.83 
TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R 
        5.03        23.90        34.45        18.64        36.20         5.92 
TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 
       20.55       117.50         7.69        43.89        36.36        60.10 
TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.26        21.01        53.62         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 
       26.76        37.38        46.95        48.30        49.94        49.12 
TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 
      122.73        81.96        75.25        47.93        72.92        50.86 
TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA 
       91.13        44.52        36.56        78.28        46.42        18.84 
TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH 
       30.21        39.78        37.45        33.57        72.95        31.63 
TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V 
       24.20        25.48        31.40        27.45        27.81        29.23 
TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O 
       14.40        18.51        12.10        11.24        17.88        30.74 
TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A66D 
       16.18        19.96        63.88        46.06        24.59        27.81 
TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV 
       17.19        54.25        23.21        17.46        13.71        18.61 
TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 
       18.02        14.56        17.46         6.74        13.38         8.45 
TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 
        6.81       182.33        18.94        17.49        15.16       211.17 
TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
       52.11        22.42        49.02        75.16        46.06        65.75 
TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
        1.22        87.45         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 
       16.83        94.52       114.08         7.96         2.40        11.47 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 
       62.96       156.23       154.36        14.99       105.21         6.54 
TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 
      117.40        90.77        30.67        26.30        10.36         7.96 
TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 
       94.32        18.94        44.02        25.91        60.30        23.31 
TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 
       41.98         2.76         5.10        23.74        14.60        20.68 
TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP 
       21.40        19.13        16.96        15.48        14.17        33.27 
TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY 
       29.85        31.69        24.43        26.17        24.99        33.96 
TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L 
       25.55        21.57        95.11        22.29        11.41        26.76 
TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC 
       21.30        17.98       139.04        84.33        51.52        37.38 
TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 
        7.50        44.42        38.89         0.56        50.14        67.46 
TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 
       79.99        57.93       134.27        78.21        95.57       130.78 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL 
       29.13        93.21         3.65        19.46        12.43        16.18 
TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW 
       21.30        75.02        51.88         0.76        32.45        36.82 
TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 
      146.14        13.08        73.48       145.05        32.35        39.48 
TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 
        0.23         0.20        25.48        52.21        36.82        18.77 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7636 TCGA-FG-7638 
       14.93        42.54        41.33        18.44        17.88        22.55 
TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 
       20.61        20.09        28.34        13.68        14.24        16.01 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       14.96        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 
       18.71        23.70        14.76        21.53        15.02        16.44 
TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 
       28.54        10.78        36.66        48.69         5.72        27.52 
TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 
        0.10         6.67        11.54        40.11         0.13         0.03 
TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7478 TCGA-HT-7479 
       16.54         3.75        17.42         6.54         6.38        40.34 
TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 
       75.19        95.93       106.95       172.77         4.01         5.03 
TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 
       29.85        23.18       122.47         4.57        17.29         3.16 
TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 
       22.06        45.99        56.09        57.60         0.23        14.27 
TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 
        0.16        16.24         0.76        44.68         6.05        42.74 
TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 
        0.10        31.69        14.96         0.10         0.10         2.96 
TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 
       17.52         6.90        14.53        39.48        19.23        39.09 
TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 
        0.23        50.63         0.49        23.61        37.15         0.33 
TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 
        0.13         3.68         5.33        35.47         3.72        11.28 
TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 
       31.43         1.64        16.24         9.40        63.55         0.10 
TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 
       37.87        33.01        12.23         6.25         0.10         0.46 
TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 
        2.50         5.56        13.78         0.23        29.59        34.19 
TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 
       28.27        15.72         0.23        26.04         0.13        20.22 
TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 
        0.07        27.35         0.10         5.33         2.70        16.93 
TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H 
        1.81        16.14        16.83        17.52        17.65         2.43 
TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 
       10.52        15.35        11.05         0.10        56.58        45.44 
TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 
       41.49        68.32        69.27        35.44        39.75        40.01 
TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       42.54        24.92        31.63        12.76        28.87        20.71 
TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY 
       14.40        14.40         0.23         6.71         7.99         2.37 
TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 
        2.30         9.44         5.88         7.96         7.59         1.28 
TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 
        0.23        10.42        13.25        11.64        10.95         9.01 
TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X 
       13.61         9.60         7.56        12.23        19.20         3.45 
TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X 
        2.37         4.41        15.16         2.53        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY 
       14.04        19.33        14.83        13.61        12.23        13.41 
TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 
        9.17        10.29        14.53        16.34        16.73         1.91 
TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML 
       16.50        16.70        11.08        12.99        88.83        94.03 
TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 
       32.65        30.87         5.46         9.90        28.08         2.07 
TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX 
       19.59        30.67        87.12        18.77        41.10        40.93 
TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       35.38        36.82        24.39        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       98.24        95.93       123.65        75.25       135.22        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP 
       38.56        84.99        19.86        26.47        18.61        18.64 
TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ 
       14.07        36.13         7.92        26.93        23.51        19.99 
TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX 
       20.02         8.19         2.04        20.68        15.06        18.54 
TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 
       28.37        27.16       169.84        10.39        99.06        30.05 
TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 
       98.63        31.59        18.71        20.48        54.77        48.33 
TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F 
       49.32        34.78        65.39        24.92        16.18        59.05 
TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84O 
       40.64        30.44        28.08        24.16        40.83        33.24 
TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG 
       25.38        18.61        14.93        23.80        21.37        19.69 
TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO 
       15.98         2.04        40.41        36.69        33.73        31.20 
TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW 
       30.05        26.14        25.87        33.93        61.41        26.99 
TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE 
       31.36        45.93        43.20         0.10         7.89        39.16 
TCGA-VM-A8CF TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-W9-A837 TCGA-WH-A86K 
       20.02        37.05        16.01        23.21        51.06        13.32 
TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D 
       43.96        39.88        43.40        45.80        46.88        37.71 
TCGA-WY-A85E TCGA-06-0209 TCGA-02-0001 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 
       20.81         7.63        11.77        18.35        23.18        10.59 
TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 
       35.41        20.71        82.59        20.61        87.06        77.65 
TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 
       20.12        53.10        42.74        24.59        12.16        90.58 
TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 
        2.83        14.14         3.62        10.72        10.52        18.31 
TCGA-02-0046 TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0055 
        6.87         3.22        15.09        12.59         6.54         2.50 
TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 
       19.86         8.35         9.57         6.02        19.73        26.43 
TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 TCGA-02-0079 
       28.70        25.05         5.49        10.19        20.84        27.25 
TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 
       89.72        22.72        12.62        51.32         8.81        57.76 
TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0106 TCGA-02-0107 
       16.96         3.48        27.02        65.00        11.67        17.65 
TCGA-02-0111 TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 
       23.18        92.65        99.98        15.65        48.95        16.54 
TCGA-02-0260 TCGA-02-0269 TCGA-02-0271 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 
       16.93        10.75        14.47        13.87        14.20        15.95 
TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 
       12.23         9.90         7.73         7.33        15.91        25.71 
TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 
        4.37        25.12        10.59        12.39        14.50        10.55 
TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-2470 TCGA-02-2483 
       47.11        11.34         9.27        16.21        12.92        15.32 
TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 
       15.45        20.32         2.70         6.15        20.38        47.61 
TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 TCGA-06-0132 
        6.94         3.98        22.72        33.67        12.95        25.35 
TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 
       14.30        26.70        24.23        11.90         0.20        10.29 
TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 
        2.20        11.74         2.33        20.09        17.79        10.09 
TCGA-06-0149 TCGA-06-0150 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 
        8.61        19.46        12.33        13.94        10.45         3.19 
TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 
       10.82         9.44        11.80         3.42        56.91        10.65 
TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 
       19.66         3.29        13.12         3.22         4.04        91.00 
TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 
        4.18        88.14        20.25         3.65        69.90        73.84 
TCGA-06-0187 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0197 
       27.22        15.42        10.42        38.96         4.67         5.56 
TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 
        0.39         7.66         8.42         7.40        11.84         0.53 
TCGA-06-0214 TCGA-06-0219 TCGA-06-0221 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 
       15.02         0.72        19.82        13.32        20.42        48.69 
TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0412 TCGA-06-0413 TCGA-06-0644 
       10.82         9.01         0.26         9.57         3.16        12.62 
TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0745 
        5.75         5.75         9.80         2.10        23.57         7.86 
TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 
        2.70         2.70         0.92        43.46        46.19         7.17 
TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 
       40.41        16.57        20.78        26.76        23.93         6.84 
TCGA-06-1800 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 TCGA-06-2558 TCGA-06-2559 
       26.79        15.32        13.61        33.90        12.49         4.93 
TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 
       17.65        12.56        30.64         5.95        16.64         5.98 
TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 
        4.37         0.43        31.50         7.79         5.39       120.56 
TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 
       22.68        37.84         4.18       115.86         1.74         8.42 
TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 
       25.71        12.16         9.80        29.23        65.33         1.28 
TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 
        8.42        17.95        24.56        31.10        37.58        22.29 
TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 
        3.39        12.23        14.93        18.02        15.35        13.97 
TCGA-08-0392 TCGA-08-0509 TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 
        0.72        12.56        42.15        11.08        19.59        58.68 
TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 
       19.33        10.75         4.80         7.27        15.98        18.41 
TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 
        7.56        14.73        12.99        10.45         7.59        94.78 
TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 
        0.10        38.17        25.97        26.66        12.13         3.65 
TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 
       20.38        28.41        15.06        53.85        43.23         7.63 
TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 
        9.73        14.93        14.86        91.76        24.79        18.48 
TCGA-12-0826 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 
       27.78         8.94        20.58       127.59         5.82         7.59 
TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1097 TCGA-12-1098 
       33.21        15.98        12.23        15.85        14.53         3.98 
TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 TCGA-14-0817 TCGA-14-0867 TCGA-14-0871 
        4.14         2.24        11.24         5.39         2.04        28.93 
TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 TCGA-15-1447 
       19.30         0.79        13.78        50.53        19.10        53.19 
TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 
       26.07        16.37        11.77        21.90         0.66        10.75 
TCGA-19-1386 TCGA-19-1387 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 
        9.07         5.95         4.64        31.33        14.86         5.49 
TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 
        1.58         7.92         2.33         7.30         5.26        14.93 
TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5216 
       17.88        14.53        11.77        31.27        23.44        13.64 
TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 
       22.68        12.76         5.42         5.42         3.75         1.61 
TCGA-81-5911 TCGA-87-5896 
       17.72        26.30 

  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
              0.20               0.03 
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
             72.36             211.17 
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
            13.575             16.240 
[1] "0.2 - 72.4 (13.6)"  "0.0 - 211.2 (16.2)"
[1] "hr=" "1.9"
D31V2, continuous
D31V3, binary
                    cls
clus                   0   1
  17Q GAIN MUTATED    61  25
  17Q GAIN WILD-TYPE 512 487
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17Q GAIN MUTATED     61   25
  17Q GAIN WILD-TYPE  512  487
                        clus
vv                       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  BRAIN                                61                512
  CENTRAL NERVOUS SYSTEM               25                487
[1] 2 2
[1] FALSE
D31V4, binary
                    cls
clus                   0   1
  17Q GAIN MUTATED    28  58
  17Q GAIN WILD-TYPE 425 574
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17Q GAIN MUTATED     28   58
  17Q GAIN WILD-TYPE  425  574
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  FEMALE               28                425
  MALE                 58                574
[1] 2 2
[1] FALSE
D31V5, binary
                    cls
clus                   0   1
  17Q GAIN MUTATED    22  61
  17Q GAIN WILD-TYPE 236 709
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17Q GAIN MUTATED     22   61
  17Q GAIN WILD-TYPE  236  709
     clus
vv    17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  NO                22                236
  YES               61                709
[1] 2 2
[1] FALSE
D31V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  17Q GAIN MUTATED            13                             4                3
  17Q GAIN WILD-TYPE         181                            26              126
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  17Q GAIN MUTATED                   9                   2
  17Q GAIN WILD-TYPE               180                  16
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  17Q GAIN MUTATED                                55
  17Q GAIN WILD-TYPE                             470
D31V7, multiclass
                                 clus
vv                                17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  ASTROCYTOMA                                   13                181
  GLIOBLASTOMA MULTIFORME (GBM)                  4                 26
  OLIGOASTROCYTOMA                               3                126
  OLIGODENDROGLIOMA                              9                180
  TREATED PRIMARY GBM                            2                 16
  UNTREATED PRIMARY (DE NOVO) GBM               55                470
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  17Q GAIN MUTATED                                  0     1
  17Q GAIN WILD-TYPE                                1    20
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  17Q GAIN MUTATED                           7    74
  17Q GAIN WILD-TYPE                        64   885
D31V8, multiclass
                                  clus
vv                                 17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           1                 20
  BLACK OR AFRICAN AMERICAN                       7                 64
  WHITE                                          74                885
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D31V9, binary
                    cls
clus                   0   1
  17Q GAIN MUTATED     4  72
  17Q GAIN WILD-TYPE  40 849
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17Q GAIN MUTATED      4   72
  17Q GAIN WILD-TYPE   40  849
                        clus
vv                       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  HISPANIC OR LATINO                    4                 40
  NOT HISPANIC OR LATINO               72                849
[1] 2 2
[1] FALSE

Clustering(32) Variable = 18P GAIN MUTATION ANALYSIS
D32V1, survival
                    sevent
clus2                  0   1
  18P GAIN MUTATED    19  59
  18P GAIN WILD-TYPE 461 539
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                78               1000 
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                59                539 
$`18P GAIN MUTATED`
TCGA-06-5858 TCGA-06-6698 TCGA-12-1092 TCGA-12-1598 TCGA-12-1602 TCGA-12-3651 
        6.15         4.77        21.73        15.65         6.77        12.69 
TCGA-12-3653 TCGA-12-5295 TCGA-14-1794 TCGA-14-1823 TCGA-14-3477 TCGA-19-0960 
       14.53        14.93         0.99        17.85         3.78         8.61 
TCGA-19-1392 TCGA-19-1787 TCGA-19-2629 TCGA-26-5136 TCGA-27-2521 TCGA-28-2506 
        3.65        12.66        24.23        18.97        16.77         6.74 
TCGA-28-2509 TCGA-32-1973 TCGA-32-1986 TCGA-32-2632 TCGA-32-5222 TCGA-41-2573 
        4.77        21.07        12.69         8.84        19.23         8.94 
TCGA-41-3915 TCGA-76-4934 TCGA-CS-4938 TCGA-CS-4943 TCGA-DB-5277 TCGA-DH-A7UT 
       11.84         2.53       117.50        36.36        50.86        17.46 
TCGA-DU-5849 TCGA-DU-7010 TCGA-DU-7012 TCGA-DU-8165 TCGA-DU-A5TS TCGA-DU-A5TY 
       14.56        14.99         6.54        19.13        31.69        33.96 
TCGA-E1-5304 TCGA-E1-A7YE TCGA-E1-A7YQ TCGA-E1-A7YV TCGA-HT-8111 TCGA-HW-7489 
       41.13        29.13        51.88        32.45         0.23        41.49 
TCGA-QH-A6CS TCGA-QH-A6X9 TCGA-S9-A89Z TCGA-WY-A85E TCGA-06-0209 TCGA-02-0025 
       19.33         1.91        20.48        20.81         7.63        42.74 
TCGA-02-0074 TCGA-02-0104 TCGA-02-0266 TCGA-02-0271 TCGA-02-0281 TCGA-02-0325 
       10.19        65.00        17.72        14.47         3.98        10.62 
TCGA-06-0128 TCGA-06-0130 TCGA-06-0147 TCGA-06-0188 TCGA-06-0197 TCGA-06-0238 
       22.72        12.95        17.79        44.58         5.56        13.32 
TCGA-06-0402 TCGA-06-0410 TCGA-06-0414 TCGA-06-0686 TCGA-06-1087 TCGA-06-1805 
        0.26         4.70        35.11        14.20         4.04        33.90 
TCGA-06-2557 TCGA-06-2559 TCGA-06-6389 TCGA-08-0353 TCGA-12-0657 TCGA-12-0827 
        1.08         4.93         7.79         8.42         0.10        38.76 
TCGA-12-1090 TCGA-14-0867 TCGA-14-0871 TCGA-15-1447 TCGA-15-1449 TCGA-76-6283 
        7.59         2.04        28.93        53.19        13.28         5.42 

$`18P GAIN WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K 
       42.05        62.01        17.16        23.90        20.09        17.82 
TCGA-FG-A713 TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M 
       20.45        18.64        21.40        45.60        42.77        59.38 
TCGA-06-1806 TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 
       15.32        11.74         3.55         8.35         4.54         8.81 
TCGA-06-5414 TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5859 
        8.98         8.55         6.71         2.73         3.75         4.57 
TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 
        5.23         8.32        12.85         1.55         4.77         4.96 
TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL 
       26.79         1.87         3.12         2.56        14.60        17.72 
TCGA-12-0615 TCGA-12-1599 TCGA-12-1600 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 
       15.35        25.68        14.73        59.77        44.02        26.93 
TCGA-12-3649 TCGA-12-3650 TCGA-12-3652 TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 
       15.22        10.95        34.92         3.22         2.04        15.12 
TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 
       11.97         0.95         6.21        23.05        13.78         3.25 
TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 
        2.89        16.50        26.33        15.95         1.38         1.12 
TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 
        3.75        32.05        58.78        23.11         7.10         1.15 
TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1795 
       30.18         0.92        40.96         6.67        12.43         1.97 
TCGA-14-1821 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 
       17.79         7.63         5.88         7.17        17.49         7.96 
TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 
        3.42        17.59        29.03         4.57        10.29        14.01 
TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0963 TCGA-19-0964 
        9.14        21.24        13.97         6.41        14.27         3.39 
TCGA-19-1390 TCGA-19-1786 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 
       25.38         7.17         3.25         0.13         9.67         4.87 
TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2631 TCGA-19-4065 
        1.08         7.53         0.16         4.08         7.00         7.04 
TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 
        6.64        17.19         8.02        18.90         4.73        12.10 
TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I 
        1.78        22.49        14.07        16.80        14.96        17.79 
TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 
       28.54        10.03        13.87         9.73         7.13         9.37 
TCGA-26-5132 TCGA-26-5135 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 
        9.40         8.88        19.33         5.06        16.60         9.86 
TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 
       24.23        40.54        21.30        30.05        14.04        11.51 
TCGA-27-2518 TCGA-27-2519 TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 
       24.76        18.08        16.08         7.59         2.86        14.40 
TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 
       15.78         0.20         2.53         9.21         8.35         7.63 
TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 
        8.48         1.22         1.55         2.83         0.13         0.66 
TCGA-32-1970 TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 
       15.39         0.49         0.10        15.85        19.50         1.18 
TCGA-32-1982 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 
        4.67        14.86        16.93        12.23        20.78        15.02 
TCGA-32-2615 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 
       15.95        22.78        25.18        21.14         3.72        12.59 
TCGA-32-4213 TCGA-32-4719 TCGA-41-2571 TCGA-41-2572 TCGA-41-2575 TCGA-41-3392 
       19.86        10.85         0.85        13.35         9.53         0.99 
TCGA-41-3393 TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S 
        4.44         0.20        15.12        12.46         4.08         1.45 
TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 
       25.58         3.45        20.91         4.34        14.33         8.22 
TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 
        7.50         4.80         4.54         3.09         3.65         9.17 
TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 
       36.85        16.70         3.29         2.70        17.06         8.35 
TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 
       20.98         4.83         5.03        23.90        34.45        18.64 
TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4941 TCGA-CS-4942 
       36.20         5.92         6.28        20.55         7.69        43.89 
TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 
       60.10        40.18         0.26        21.01        53.62         6.38 
TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       17.69        26.76        37.38        46.95        48.30        49.94 
TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 
       49.12       122.73        81.96        75.25        47.93        72.92 
TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA 
       91.13        44.52        36.56        78.28        46.42        18.84 
TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH 
       30.21        39.78        37.45        33.57        72.95        31.63 
TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S 
       24.20        25.48        30.12         5.98        31.40        27.45 
TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L 
       27.81        29.23        14.40        18.51        12.10        11.24 
TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 
       17.88        30.74        16.18        19.96        63.88        46.06 
TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR 
       24.59        30.21        27.81        17.19        17.19        54.25 
TCGA-DH-A7US TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5851 TCGA-DU-5852 
       23.21        13.71        18.61        18.02        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       15.16       211.17        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 
      133.74        19.89        16.83        94.52       114.08         7.96 
TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7011 
        2.40        11.47        62.96       156.23       154.36       105.21 
TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        8.84       117.40        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 
        7.96        94.32        18.94        44.02        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP 
       20.68        21.40        16.96        15.48        14.17        33.27 
TCGA-DU-A5TR TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A6S2 TCGA-DU-A6S3 
       29.85        24.43        26.17        24.99        25.55        21.57 
TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R 
       95.11        20.98        22.29        11.41        26.76        21.30 
TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       17.98       139.04        84.33        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5305 
       44.42        38.89         0.56        50.14        67.46        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       57.93       134.27        78.21        95.57       130.78        14.30 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       93.21         3.65        19.46        12.43        16.18        21.30 
TCGA-E1-A7YO TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 
       75.02        15.32         0.76        36.82       146.14        13.08 
TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 
       73.48       145.05        32.35        39.48         0.23         0.20 
TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 
       47.77        25.48        52.21        36.82        18.77        14.93 
TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 
       42.54        41.33        18.44        15.35        17.88        22.55 
TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 
       20.61        20.09        28.34        13.68        14.24        16.01 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       14.96        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 
       18.71        23.70        14.76        21.53        15.02        16.44 
TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q 
       22.26        28.54        10.78        36.66        48.69         5.72 
TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 
       27.52         0.10         6.67        11.54        40.11         0.13 
TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 
        0.03        16.54         3.75        17.42         6.54        24.26 
TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 
        6.38        40.34        75.19        95.93       106.95       172.77 
TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 
        4.01         5.03        29.85        23.18       122.47         4.57 
TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 
       17.29         3.16        22.06        45.99        56.09        57.60 
TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
        0.23        14.27         0.16        16.24         0.76        44.68 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 
        6.05        42.74         0.10        31.69        14.96         0.10 
TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 
        0.10         2.96        17.52         6.90        14.53        39.48 
TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 
       19.23        39.09         0.23        50.63         0.49        23.61 
TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
       37.15         0.33         0.13         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 
        3.72        11.28        31.43         1.64        16.24         9.40 
TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 
       63.55         0.10        37.87        33.01        12.23         6.25 
TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8113 
        0.10         0.46         2.50         5.56        13.78        29.59 
TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 
       34.19        28.27        15.72         0.23        26.04         0.13 
TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 
       20.22         0.07        27.35         0.10         5.33         2.70 
TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C 
       16.93         1.81        16.14        16.83        17.52        17.65 
TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
        2.43        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 
       45.44        68.32        69.27        35.44        39.75        40.01 
TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       42.54        24.92        31.63        12.76        28.87        20.71 
TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX 
       19.00        14.40        14.40         0.23         6.71         7.99 
TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 
        2.37         2.30         9.44         5.88         7.96         7.59 
TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 
        1.28         0.23        10.42        13.25        11.64        10.95 
TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W 
        9.01        13.61         9.60         7.56        12.23        19.20 
TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V 
        3.45         2.37         4.41        15.16         2.53        12.62 
TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX 
       15.85        14.04        14.83        14.53        13.61        12.23 
TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
       13.41         9.17        10.29        14.53        16.34        16.73 
TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML 
       16.50        16.70        11.08        12.99        88.83        94.03 
TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 
       32.65        30.87         5.46         9.90        28.08         2.07 
TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW 
       19.59        30.67        62.17        87.12        18.77        41.10 
TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 
       40.93        35.38        36.82        24.39        25.81        29.85 
TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB 
       32.61        35.15        98.24        95.93         5.85       123.65 
TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL 
       75.25       135.22        85.55        38.56        84.99        31.10 
TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ 
       19.86        26.47        18.61        18.64        14.07        36.13 
TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 
        7.92        26.93        23.51        19.99        20.02         8.19 
TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ 
        2.04        20.68        15.06        18.54        28.37        27.16 
TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 
      169.84        10.39        99.06        30.05        98.63        31.59 
TCGA-S9-A89V TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF 
       18.71        54.77        48.33        49.32        34.78        65.39 
TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I 
       24.92        16.18        59.05        40.64        30.44        28.08 
TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R 
       24.16        40.83        24.79        33.24        25.38        18.61 
TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI 
       14.93        23.80        21.37        19.69        15.98         2.04 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP 
       40.41        44.09        36.69        33.73        31.20        30.05 
TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE 
       26.14        25.87        33.93        61.41        26.99        31.36 
TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE 
       45.93        43.20        13.51         0.10         7.89        39.16 
TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI 
       20.02        23.47        37.05        16.01        23.21         8.05 
TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B 
       51.06        13.32        43.96        39.88        43.40        45.80 
TCGA-WY-A85C TCGA-WY-A85D TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 
       46.88        37.71        11.77         4.73        18.35        23.18 
TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 
       10.59        35.41        20.71        82.59        20.61        87.06 
TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 
       77.65        20.12        53.10        24.59        12.16        90.58 
TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 
        2.83        14.14         3.62        10.72        10.52        18.31 
TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 
        6.87        14.73         3.22        15.09        12.59         6.54 
TCGA-02-0055 TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 
        2.50        19.86         8.35         9.57         6.02        19.73 
TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 TCGA-02-0075 TCGA-02-0079 
       26.43        28.70        25.05         5.49        20.84        27.25 
TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 
       89.72        22.72        12.62        51.32         8.81        57.76 
TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 
       16.96         3.48        27.02        11.67        17.65        23.18 
TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 
       92.65        99.98        15.65        48.95        16.54        16.93 
TCGA-02-0269 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 
       10.75        13.87        14.20        15.95        12.23         9.90 
TCGA-02-0324 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 
        7.73         7.33        15.91        25.71         4.37        25.12 
TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 
       10.59        12.39        14.50        10.55        47.11        11.34 
TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 
        9.27        16.21         3.35        16.80        12.92        15.32 
TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 
       15.45        20.32         2.70         6.15        20.38        47.61 
TCGA-06-0126 TCGA-06-0127 TCGA-06-0129 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 
        6.94         3.98        33.67        25.35        14.30        26.70 
TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 
       24.23        11.90         0.20        10.29         2.20        11.74 
TCGA-06-0145 TCGA-06-0146 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 
        2.33        20.09        10.09         8.61        19.46        46.59 
TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 
       12.33        13.94        10.45         3.19        10.82         9.44 
TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 
       11.80         3.42        56.91        10.65         5.85        19.66 
TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 
        3.29        13.12         4.47         3.22         4.04        91.00 
TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 
        4.18        88.14        20.25         3.65        69.90        73.84 
TCGA-06-0187 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 
       27.22        15.42        10.42        38.96         4.67         7.40 
TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 
        0.39         7.66         8.42         7.40        11.84         0.53 
TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 TCGA-06-0240 
       15.02        24.16         0.72        19.82        13.64        20.42 
TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0409 TCGA-06-0412 TCGA-06-0413 
       48.69        10.82         9.01        72.36         9.57         3.16 
TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 
       12.62         5.75         5.75         9.80         2.10        23.57 
TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 
       26.40        46.88         7.86         2.70         2.70         0.92 
TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 
       43.46        46.19         7.17        40.41        16.57        20.78 
TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 
       26.76        23.93         6.84        26.79        11.84        15.32 
TCGA-06-1804 TCGA-06-2558 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 
       13.61        12.49        17.65        12.56        30.64         5.95 
TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 TCGA-06-6390 
       16.64         5.98         4.37         0.43        31.50         5.39 
TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 TCGA-08-0344 
      120.56         7.36        22.68        37.84         4.18       115.86 
TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 
        1.74         8.42        25.71        12.16         9.80        29.23 
TCGA-08-0351 TCGA-08-0352 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 
       65.33         1.28        17.95        24.56        31.10        37.58 
TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 
       22.29         3.39        12.23        14.93        18.02        15.35 
TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 TCGA-08-0510 TCGA-08-0512 TCGA-08-0514 
       13.97         0.72        12.56         4.27        42.15        11.08 
TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 
       19.59        58.68        19.33        10.75         4.80         7.27 
TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 
       15.98        18.41         7.56        14.73        12.99        34.92 
TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 
       10.45         7.59        94.78        38.17        25.97        26.66 
TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 
       12.13         3.65        20.38        28.41        15.06        53.85 
TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 
       43.23         7.63         9.73        14.93        14.86        91.76 
TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0826 TCGA-12-0828 
       24.79        18.48        10.62        23.51        27.78         8.94 
TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 
       20.58       127.59         5.82        33.21        15.98        12.23 
TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 TCGA-14-0787 
       15.85         9.11        14.53         3.98         4.14         2.24 
TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 
       11.24         1.35         5.39        19.30         0.79        13.78 
TCGA-15-1444 TCGA-15-1446 TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 
       50.53        19.10         3.91        26.07        16.37        11.77 
TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1388 
       21.90         0.66        10.75         9.07         5.95        12.95 
TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 
        4.64        31.33        14.86         5.49         1.58         7.92 
TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 
        2.33         7.30         5.26        14.93        11.28        17.88 
TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5215 TCGA-28-5216 
       14.53        11.77        31.27        23.44        11.01        13.64 
TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 
        5.16        22.68        12.76         5.42         7.36        11.38 
TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        3.75         1.61        17.72        26.30 

  18P GAIN MUTATED 18P GAIN WILD-TYPE 
              0.10               0.03 
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
            117.50             211.17 
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
            14.335             16.180 
[1] "0.1 - 117.5 (14.3)" "0.0 - 211.2 (16.2)"
[1] "hr=" "1.7"
D32V2, continuous
D32V3, binary
                    cls
clus                   0   1
  18P GAIN MUTATED    58  20
  18P GAIN WILD-TYPE 515 492
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18P GAIN MUTATED     58   20
  18P GAIN WILD-TYPE  515  492
                        clus
vv                       18P GAIN MUTATED 18P GAIN WILD-TYPE
  BRAIN                                58                515
  CENTRAL NERVOUS SYSTEM               20                492
[1] 2 2
[1] FALSE
D32V4, binary
                    cls
clus                   0   1
  18P GAIN MUTATED    35  43
  18P GAIN WILD-TYPE 418 589
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18P GAIN MUTATED     35   43
  18P GAIN WILD-TYPE  418  589
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  FEMALE               35                418
  MALE                 43                589
[1] 2 2
[1] FALSE
D32V5, binary
                    cls
clus                   0   1
  18P GAIN MUTATED    15  60
  18P GAIN WILD-TYPE 243 710
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18P GAIN MUTATED     15   60
  18P GAIN WILD-TYPE  243  710
     clus
vv    18P GAIN MUTATED 18P GAIN WILD-TYPE
  NO                15                243
  YES               60                710
[1] 2 2
[1] FALSE
D32V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  18P GAIN MUTATED            11                             1                4
  18P GAIN WILD-TYPE         183                            29              125
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  18P GAIN MUTATED                   5                   0
  18P GAIN WILD-TYPE               184                  18
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  18P GAIN MUTATED                                57
  18P GAIN WILD-TYPE                             468
D32V7, multiclass
                                 clus
vv                                18P GAIN MUTATED 18P GAIN WILD-TYPE
  ASTROCYTOMA                                   11                183
  GLIOBLASTOMA MULTIFORME (GBM)                  1                 29
  OLIGOASTROCYTOMA                               4                125
  OLIGODENDROGLIOMA                              5                184
  TREATED PRIMARY GBM                            0                 18
  UNTREATED PRIMARY (DE NOVO) GBM               57                468
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  18P GAIN MUTATED                                  0     0
  18P GAIN WILD-TYPE                                1    21
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  18P GAIN MUTATED                           5    70
  18P GAIN WILD-TYPE                        66   889
D32V8, multiclass
                                  clus
vv                                 18P GAIN MUTATED 18P GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           0                 21
  BLACK OR AFRICAN AMERICAN                       5                 66
  WHITE                                          70                889
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D32V9, binary
                    cls
clus                   0   1
  18P GAIN MUTATED     2  66
  18P GAIN WILD-TYPE  42 855
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18P GAIN MUTATED      2   66
  18P GAIN WILD-TYPE   42  855
                        clus
vv                       18P GAIN MUTATED 18P GAIN WILD-TYPE
  HISPANIC OR LATINO                    2                 42
  NOT HISPANIC OR LATINO               66                855
[1] 2 2
[1] FALSE

Clustering(33) Variable = 18Q GAIN MUTATION ANALYSIS
D33V1, survival
                    sevent
clus2                  0   1
  18Q GAIN MUTATED    16  59
  18Q GAIN WILD-TYPE 464 539
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                75               1003 
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                59                539 
$`18Q GAIN MUTATED`
TCGA-06-5408 TCGA-06-5858 TCGA-06-6698 TCGA-12-1092 TCGA-12-1598 TCGA-12-1602 
       11.74         6.15         4.77        21.73        15.65         6.77 
TCGA-12-3651 TCGA-12-3653 TCGA-12-5295 TCGA-14-1794 TCGA-14-1823 TCGA-14-3477 
       12.69        14.53        14.93         0.99        17.85         3.78 
TCGA-19-0960 TCGA-19-1392 TCGA-19-1787 TCGA-19-2629 TCGA-26-5136 TCGA-27-2521 
        8.61         3.65        12.66        24.23        18.97        16.77 
TCGA-28-2506 TCGA-28-2509 TCGA-32-1986 TCGA-32-2632 TCGA-32-5222 TCGA-41-2573 
        6.74         4.77        12.69         8.84        19.23         8.94 
TCGA-41-2575 TCGA-41-3915 TCGA-76-4925 TCGA-76-4934 TCGA-CS-4943 TCGA-DB-5277 
        9.53        11.84         4.80         2.53        36.36        50.86 
TCGA-DU-7010 TCGA-DU-7012 TCGA-DU-8165 TCGA-DU-A5TS TCGA-DU-A5TY TCGA-E1-5304 
       14.99         6.54        19.13        31.69        33.96        41.13 
TCGA-E1-A7YE TCGA-E1-A7YL TCGA-E1-A7YQ TCGA-E1-A7YV TCGA-HT-8111 TCGA-HW-7489 
       29.13        16.18        51.88        32.45         0.23        41.49 
TCGA-QH-A6CS TCGA-S9-A89Z TCGA-06-0209 TCGA-02-0074 TCGA-02-0104 TCGA-02-0266 
       19.33        20.48         7.63        10.19        65.00        17.72 
TCGA-02-0271 TCGA-02-0281 TCGA-02-0325 TCGA-06-0128 TCGA-06-0130 TCGA-06-0147 
       14.47         3.98        10.62        22.72        12.95        17.79 
TCGA-06-0188 TCGA-06-0197 TCGA-06-0238 TCGA-06-0402 TCGA-06-0410 TCGA-06-0414 
       44.58         5.56        13.32         0.26         4.70        35.11 
TCGA-06-0686 TCGA-06-0876 TCGA-06-1087 TCGA-06-1805 TCGA-06-2557 TCGA-06-6389 
       14.20        46.19         4.04        33.90         1.08         7.79 
TCGA-08-0353 TCGA-12-0657 TCGA-12-0827 TCGA-14-0867 TCGA-14-0871 TCGA-15-1447 
        8.42         0.10        38.76         2.04        28.93        53.19 
TCGA-15-1449 TCGA-16-0850 TCGA-76-6283 
       13.28        16.37         5.42 

$`18Q GAIN WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K 
       42.05        62.01        17.16        23.90        20.09        17.82 
TCGA-FG-A713 TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M 
       20.45        18.64        21.40        45.60        42.77        59.38 
TCGA-06-1806 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 
       15.32         3.55         8.35         4.54         8.81         8.98 
TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5859 TCGA-06-6388 
        8.55         6.71         2.73         3.75         4.57         5.23 
TCGA-06-6695 TCGA-06-6697 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 
        8.32        12.85         1.55         4.77         4.96        26.79 
TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 
        1.87         3.12         2.56        14.60        17.72        15.35 
TCGA-12-1599 TCGA-12-1600 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 
       25.68        14.73        59.77        44.02        26.93        15.22 
TCGA-12-3650 TCGA-12-3652 TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 
       10.95        34.92         3.22         2.04        15.12        11.97 
TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 
        0.95         6.21        23.05        13.78         3.25         2.89 
TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 
       16.50        26.33        15.95         1.38         1.12         3.75 
TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 TCGA-14-1454 
       32.05        58.78        23.11         7.10         1.15        30.18 
TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1795 TCGA-14-1821 
        0.92        40.96         6.67        12.43         1.97        17.79 
TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-4157 
        7.63         5.88         7.17        17.49         7.96         3.42 
TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 
       17.59        29.03         4.57        10.29        14.01         9.14 
TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 
       21.24        13.97         6.41        14.27         3.39        25.38 
TCGA-19-1786 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 
        7.17         3.25         0.13         9.67         4.87         1.08 
TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 
        7.53         0.16         4.08         7.00         7.04         6.64 
TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 
       17.19         8.02        18.90         4.73        12.10         1.78 
TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 
       22.49        14.07        16.80        14.96        17.79        28.54 
TCGA-26-1438 TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 
       10.03        13.87         9.73         7.13         9.37         9.40 
TCGA-26-5135 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 
        8.88        19.33         5.06        16.60         9.86        24.23 
TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 
       40.54        21.30        30.05        14.04        11.51        24.76 
TCGA-27-2519 TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 
       18.08        16.08         7.59         2.86        14.40        15.78 
TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 
        0.20         2.53         9.21         8.35         7.63         8.48 
TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-32-1970 
        1.22         1.55         2.83         0.13         0.66        15.39 
TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 
       21.07         0.49         0.10        15.85        19.50         1.18 
TCGA-32-1982 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 
        4.67        14.86        16.93        12.23        20.78        15.02 
TCGA-32-2615 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 
       15.95        22.78        25.18        21.14         3.72        12.59 
TCGA-32-4213 TCGA-32-4719 TCGA-41-2571 TCGA-41-2572 TCGA-41-3392 TCGA-41-3393 
       19.86        10.85         0.85        13.35         0.99         4.44 
TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T 
        0.20        15.12        12.46         4.08         1.45        25.58 
TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 
        3.45        20.91         4.34        14.33         8.22         7.50 
TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4935 TCGA-76-6191 
        4.54         3.09         3.65         9.17        36.85        16.70 
TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 
        3.29         2.70        17.06         8.35        20.98         4.83 
TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R 
        5.03        23.90        34.45        18.64        36.20         5.92 
TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4944 
        6.28        20.55       117.50         7.69        43.89        60.10 
TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.26        21.01        53.62         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 
       26.76        37.38        46.95        48.30        49.94        49.12 
TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5278 
      122.73        81.96        75.25        47.93        72.92        91.13 
TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB 
       44.52        36.56        78.28        46.42        18.84        30.21 
TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L 
       39.78        37.45        33.57        72.95        31.63        24.20 
TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U 
       25.48        30.12         5.98        31.40        27.45        27.81 
TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M 
       29.23        14.40        18.51        12.10        11.24        17.88 
TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 
       30.74        16.18        19.96        63.88        46.06        24.59 
TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       30.21        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 
       17.49        15.16       211.17        52.11        22.42        49.02 
TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 
       75.16        46.06        65.75         1.22        87.45         7.04 
TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 
       11.64       133.74        19.89        16.83        94.52       114.08 
TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 
        7.96         2.40        11.47        62.96       156.23       154.36 
TCGA-DU-7011 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
      105.21         8.84       117.40        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 
       10.36         7.96        94.32        18.94        44.02        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 
       60.30        23.31        41.98         2.76         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       14.60        20.68        21.40        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A6S2 
       33.27        29.85        24.43        26.17        24.99        25.55 
TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L 
       21.57        95.11        20.98        22.29        11.41        26.76 
TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC 
       21.30        17.98       139.04        84.33        51.52        37.38 
TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 
        7.50        44.42        38.89         0.56        50.14        67.46 
TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 
       79.99        57.93       134.27        78.21        95.57       130.78 
TCGA-E1-A7YD TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YM 
       14.30        93.21         3.65        19.46        12.43        21.30 
TCGA-E1-A7YO TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 
       75.02        15.32         0.76        36.82       146.14        13.08 
TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 
       73.48       145.05        32.35        39.48         0.23         0.20 
TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 
       47.77        25.48        52.21        36.82        18.77        14.93 
TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 
       42.54        41.33        18.44        15.35        17.88        22.55 
TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 
       20.61        20.09        28.34        13.68        14.24        16.01 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       14.96        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 
       18.71        23.70        14.76        21.53        15.02        16.44 
TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q 
       22.26        28.54        10.78        36.66        48.69         5.72 
TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 
       27.52         0.10         6.67        11.54        40.11         0.13 
TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 
        0.03        16.54         3.75        17.42         6.54        24.26 
TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 
        6.38        40.34        75.19        95.93       106.95       172.77 
TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 
        4.01         5.03        29.85        23.18       122.47         4.57 
TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 
       17.29         3.16        22.06        45.99        56.09        57.60 
TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
        0.23        14.27         0.16        16.24         0.76        44.68 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 
        6.05        42.74         0.10        31.69        14.96         0.10 
TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 
        0.10         2.96        17.52         6.90        14.53        39.48 
TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 
       19.23        39.09         0.23        50.63         0.49        23.61 
TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
       37.15         0.33         0.13         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 
        3.72        11.28        31.43         1.64        16.24         9.40 
TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 
       63.55         0.10        37.87        33.01        12.23         6.25 
TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8113 
        0.10         0.46         2.50         5.56        13.78        29.59 
TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 
       34.19        28.27        15.72         0.23        26.04         0.13 
TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 
       20.22         0.07        27.35         0.10         5.33         2.70 
TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C 
       16.93         1.81        16.14        16.83        17.52        17.65 
TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
        2.43        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 
       45.44        68.32        69.27        35.44        39.75        40.01 
TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       42.54        24.92        31.63        12.76        28.87        20.71 
TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX 
       19.00        14.40        14.40         0.23         6.71         7.99 
TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 
        2.37         2.30         9.44         5.88         7.96         7.59 
TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 
        1.28         0.23        10.42        13.25        11.64        10.95 
TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W 
        9.01        13.61         9.60         7.56        12.23        19.20 
TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V 
        3.45         2.37         4.41        15.16         2.53        12.62 
TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX 
       15.85        14.04        14.83        14.53        13.61        12.23 
TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
       13.41         9.17        10.29        14.53        16.34        16.73 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
        1.91        16.50        16.70        11.08        12.99        88.83 
TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 
       94.03        32.65        30.87         5.46         9.90        28.08 
TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV 
        2.07        19.59        30.67        62.17        87.12        18.77 
TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 
       41.10        40.93        35.38        36.82        24.39        25.81 
TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA 
       29.85        32.61        35.15        98.24        95.93         5.85 
TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI 
      123.65        75.25       135.22        85.55        38.56        84.99 
TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ 
       31.10        19.86        26.47        18.61        18.64        14.07 
TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 
       36.13         7.92        26.93        23.51        19.99        20.02 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY 
        8.19         2.04        20.68        15.06        18.54        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 
       27.16       169.84        10.39        99.06        30.05        98.63 
TCGA-S9-A7R8 TCGA-S9-A89V TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA 
       31.59        18.71        54.77        48.33        49.32        34.78 
TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H 
       65.39        24.92        16.18        59.05        40.64        30.44 
TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q 
       28.08        24.16        40.83        24.79        33.24        25.38 
TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH 
       18.61        14.93        23.80        21.37        19.69        15.98 
TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO 
        2.04        40.41        44.09        36.69        33.73        31.20 
TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW 
       30.05        26.14        25.87        33.93        61.41        26.99 
TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD 
       31.36        45.93        43.20        13.51         0.10         7.89 
TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS 
       39.16        20.02        23.47        37.05        16.01        23.21 
TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A 
        8.05        51.06        13.32        43.96        39.88        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-02-0001 TCGA-02-0003 
       45.80        46.88        37.71        20.81        11.77         4.73 
TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 
       18.35        23.18        10.59        35.41        20.71        82.59 
TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 
       20.61        87.06        77.65        20.12        53.10        42.74 
TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 
       24.59        12.16        90.58         2.83        14.14         3.62 
TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 
       10.72        10.52        18.31         6.87        14.73         3.22 
TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0055 TCGA-02-0057 TCGA-02-0058 
       15.09        12.59         6.54         2.50        19.86         8.35 
TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 
        9.57         6.02        19.73        26.43        28.70        25.05 
TCGA-02-0071 TCGA-02-0075 TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 
        5.49        20.84        27.25        89.72        22.72        12.62 
TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 
       51.32         8.81        57.76        16.96         3.48        27.02 
TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 
       11.67        17.65        23.18        92.65        99.98        15.65 
TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0269 TCGA-02-0285 TCGA-02-0289 
       48.95        16.54        16.93        10.75        13.87        14.20 
TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0326 TCGA-02-0330 
       15.95        12.23         9.90         7.73         7.33        15.91 
TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 
       25.71         4.37        25.12        10.59        12.39        14.50 
TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 
       10.55        47.11        11.34         9.27        16.21         3.35 
TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 
       16.80        12.92        15.32        15.45        20.32         2.70 
TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0129 
        6.15        20.38        47.61         6.94         3.98        33.67 
TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 
       25.35        14.30        26.70        24.23        11.90         0.20 
TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0148 
       10.29         2.20        11.74         2.33        20.09        10.09 
TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 
        8.61        19.46        46.59        12.33        13.94        10.45 
TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 
        3.19        10.82         9.44        11.80         3.42        56.91 
TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 
       10.65         5.85        19.66         3.29        13.12         4.47 
TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 
        3.22         4.04        91.00         4.18        88.14        20.25 
TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0189 TCGA-06-0190 
        3.65        69.90        73.84        27.22        15.42        10.42 
TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 
       38.96         4.67         7.40         0.39         7.66         8.42 
TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 
        7.40        11.84         0.53        15.02        24.16         0.72 
TCGA-06-0221 TCGA-06-0237 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 
       19.82        13.64        20.42        48.69        10.82         9.01 
TCGA-06-0409 TCGA-06-0412 TCGA-06-0413 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 
       72.36         9.57         3.16        12.62         5.75         5.75 
TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 
        9.80         2.10        23.57        26.40        46.88         7.86 
TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0878 TCGA-06-0879 
        2.70         2.70         0.92        43.46         7.17        40.41 
TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1800 
       16.57        20.78        26.76        23.93         6.84        26.79 
TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 
       11.84        15.32        13.61        12.49         4.93        17.65 
TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 
       12.56        30.64         5.95        16.64         5.98         4.37 
TCGA-06-2569 TCGA-06-2570 TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 
        0.43        31.50         5.39       120.56         7.36        22.68 
TCGA-08-0245 TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 
       37.84         4.18       115.86         1.74         8.42        25.71 
TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 TCGA-08-0354 
       12.16         9.80        29.23        65.33         1.28        17.95 
TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 
       24.56        31.10        37.58        22.29         3.39        12.23 
TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 
       14.93        18.02        15.35        13.97         0.72        12.56 
TCGA-08-0510 TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 
        4.27        42.15        11.08        19.59        58.68        19.33 
TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 
       10.75         4.80         7.27        15.98        18.41         7.56 
TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 
       14.73        12.99        34.92        10.45         7.59        94.78 
TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 
       38.17        25.97        26.66        12.13         3.65        20.38 
TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 
       28.41        15.06        53.85        43.23         7.63         9.73 
TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 
       14.93        14.86        91.76        24.79        18.48        10.62 
TCGA-12-0822 TCGA-12-0826 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 
       23.51        27.78         8.94        20.58       127.59         5.82 
TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 
        7.59        33.21        15.98        12.23        15.85         9.11 
TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 
       14.53         3.98         4.14         2.24        11.24         1.35 
TCGA-14-0817 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 
        5.39        19.30         0.79        13.78        50.53        19.10 
TCGA-16-0846 TCGA-16-0849 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 
        3.91        26.07        11.77        21.90         0.66        10.75 
TCGA-19-1386 TCGA-19-1387 TCGA-19-1388 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 
        9.07         5.95        12.95         4.64        31.33        14.86 
TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 
        5.49         1.58         7.92         2.33         7.30         5.26 
TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 
       14.93        11.28        17.88        14.53        11.77        31.27 
TCGA-28-5214 TCGA-28-5215 TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 
       23.44        11.01        13.64         5.16        22.68        12.76 
TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 
        5.42         7.36        11.38         3.75         1.61        17.72 
TCGA-87-5896 
       26.30 

  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
              0.10               0.03 
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
             65.00             211.17 
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
             13.32              16.18 
[1] "0.1 - 65.0 (13.3)"  "0.0 - 211.2 (16.2)"
[1] "hr=" "1.9"
D33V2, continuous
D33V3, binary
                    cls
clus                   0   1
  18Q GAIN MUTATED    59  16
  18Q GAIN WILD-TYPE 514 496
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18Q GAIN MUTATED     59   16
  18Q GAIN WILD-TYPE  514  496
                        clus
vv                       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  BRAIN                                59                514
  CENTRAL NERVOUS SYSTEM               16                496
[1] 2 2
[1] FALSE
D33V4, binary
                    cls
clus                   0   1
  18Q GAIN MUTATED    35  40
  18Q GAIN WILD-TYPE 418 592
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18Q GAIN MUTATED     35   40
  18Q GAIN WILD-TYPE  418  592
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  FEMALE               35                418
  MALE                 40                592
[1] 2 2
[1] FALSE
D33V5, binary
                    cls
clus                   0   1
  18Q GAIN MUTATED    11  61
  18Q GAIN WILD-TYPE 247 709
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18Q GAIN MUTATED     11   61
  18Q GAIN WILD-TYPE  247  709
     clus
vv    18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  NO                11                247
  YES               61                709
[1] 2 2
[1] FALSE
D33V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  18Q GAIN MUTATED            10                             1                3
  18Q GAIN WILD-TYPE         184                            29              126
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  18Q GAIN MUTATED                   3                   0
  18Q GAIN WILD-TYPE               186                  18
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  18Q GAIN MUTATED                                58
  18Q GAIN WILD-TYPE                             467
D33V7, multiclass
                                 clus
vv                                18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  ASTROCYTOMA                                   10                184
  GLIOBLASTOMA MULTIFORME (GBM)                  1                 29
  OLIGOASTROCYTOMA                               3                126
  OLIGODENDROGLIOMA                              3                186
  TREATED PRIMARY GBM                            0                 18
  UNTREATED PRIMARY (DE NOVO) GBM               58                467
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  18Q GAIN MUTATED                                  0     0
  18Q GAIN WILD-TYPE                                1    21
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  18Q GAIN MUTATED                           6    66
  18Q GAIN WILD-TYPE                        65   893
D33V8, multiclass
                                  clus
vv                                 18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           0                 21
  BLACK OR AFRICAN AMERICAN                       6                 65
  WHITE                                          66                893
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D33V9, binary
                    cls
clus                   0   1
  18Q GAIN MUTATED     1  65
  18Q GAIN WILD-TYPE  43 856
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18Q GAIN MUTATED      1   65
  18Q GAIN WILD-TYPE   43  856
                        clus
vv                       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  HISPANIC OR LATINO                    1                 43
  NOT HISPANIC OR LATINO               65                856
[1] 2 2
[1] FALSE

Clustering(34) Variable = 19P GAIN MUTATION ANALYSIS
D34V1, survival
                    sevent
clus2                  0   1
  19P GAIN MUTATED   109 209
  19P GAIN WILD-TYPE 371 389
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
               318                760 
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
               209                389 
$`19P GAIN MUTATED`
TCGA-FG-A60K TCGA-R8-A73M TCGA-06-1806 TCGA-06-5414 TCGA-06-5415 TCGA-06-5416 
       17.82        59.38        15.32         8.98         8.55         6.71 
TCGA-06-6388 TCGA-06-6695 TCGA-06-6699 TCGA-06-A6S0 TCGA-12-1598 TCGA-12-1599 
        5.23         8.32         1.55         3.12        15.65        25.68 
TCGA-12-1600 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 TCGA-12-3652 TCGA-12-3653 
       14.73        26.93        15.22        10.95        34.92        14.53 
TCGA-14-0783 TCGA-14-0790 TCGA-14-0866 TCGA-14-1034 TCGA-14-1402 TCGA-14-1450 
        6.21        13.78        26.33        15.95        32.05        58.78 
TCGA-14-1452 TCGA-14-1454 TCGA-14-1823 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 
        7.10        30.18        17.85         7.17        17.49         7.96 
TCGA-14-4157 TCGA-16-0848 TCGA-16-1055 TCGA-16-1056 TCGA-16-1062 TCGA-19-1390 
        3.42        17.59        10.29        14.01        21.24        25.38 
TCGA-19-1392 TCGA-19-1786 TCGA-19-1789 TCGA-19-2629 TCGA-19-5950 TCGA-19-5951 
        3.65         7.17         3.25        24.23        17.19         8.02 
TCGA-19-5953 TCGA-19-5955 TCGA-19-5958 TCGA-19-5959 TCGA-19-A60I TCGA-26-1799 
        4.73         1.78        14.07        16.80        17.79         9.37 
TCGA-27-1833 TCGA-27-2518 TCGA-27-2521 TCGA-27-2524 TCGA-27-2528 TCGA-28-1749 
       24.23        24.76        16.77         7.59        15.78         9.21 
TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-2502 TCGA-28-2506 TCGA-32-1970 
        7.63         8.48         1.22         0.66         6.74        15.39 
TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1982 TCGA-32-1987 TCGA-32-2495 
        0.10        15.85        19.50         4.67        14.86        15.02 
TCGA-32-2632 TCGA-32-2638 TCGA-32-4208 TCGA-32-4211 TCGA-32-5222 TCGA-41-2572 
        8.84        25.18        21.14        12.59        19.23        13.35 
TCGA-41-2575 TCGA-41-3393 TCGA-41-3915 TCGA-41-5651 TCGA-4W-AA9R TCGA-4W-AA9S 
        9.53         4.44        11.84        15.12         4.08         1.45 
TCGA-4W-AA9T TCGA-74-6578 TCGA-76-4934 TCGA-76-6656 TCGA-76-6661 TCGA-76-6663 
       25.58        14.33         2.53         4.83        23.90        18.64 
TCGA-76-6664 TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-6186 
       36.20         6.28        20.55        21.01        53.62        17.69 
TCGA-CS-6188 TCGA-DB-5274 TCGA-DB-5278 TCGA-DB-A4XD TCGA-DB-A4XG TCGA-DB-A64L 
       26.76        75.25        91.13        39.78        72.95        24.20 
TCGA-DB-A64P TCGA-DB-A64R TCGA-DB-A75L TCGA-DH-A66F TCGA-DU-5854 TCGA-DU-5874 
       30.12        31.40        11.24        17.19         8.45        15.16 
TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6397 TCGA-DU-6400 TCGA-DU-6406 TCGA-DU-7009 
       52.11        22.42        46.06         1.22        16.83       154.36 
TCGA-DU-7015 TCGA-DU-7019 TCGA-DU-7298 TCGA-DU-7306 TCGA-DU-8164 TCGA-DU-A5TT 
       90.77        26.30        18.94        41.98        21.40        24.43 
TCGA-DU-A6S2 TCGA-DU-A76K TCGA-DU-A7TJ TCGA-E1-5304 TCGA-E1-5318 TCGA-E1-A7YJ 
       25.55        11.41         0.56        41.13        78.21        19.46 
TCGA-E1-A7YL TCGA-E1-A7YS TCGA-FG-5962 TCGA-FG-6692 TCGA-FG-7643 TCGA-FG-8186 
       16.18        15.32        47.77        18.44        20.09        16.01 
TCGA-FG-8188 TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A710 TCGA-FG-A87Q TCGA-HT-7469 
       14.96        10.72        18.38        36.66         5.72        11.54 
TCGA-HT-7687 TCGA-HT-7695 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7875 TCGA-HT-7882 
        0.10        14.53         0.49        23.61         0.33         3.72 
TCGA-HT-8012 TCGA-HT-8104 TCGA-HT-A5RA TCGA-HT-A5RC TCGA-HT-A615 TCGA-HT-A61B 
        9.40        12.23        27.35         5.33        16.93        17.52 
TCGA-HW-7495 TCGA-KT-A7W1 TCGA-P5-A5F0 TCGA-P5-A72U TCGA-P5-A730 TCGA-QH-A65X 
       35.44        14.40         9.44         0.23        10.95        15.85 
TCGA-QH-A6CV TCGA-QH-A6CZ TCGA-QH-A6XC TCGA-QH-A86X TCGA-R8-A6MK TCGA-R8-A6ML 
       14.53         9.17        16.70        11.08        88.83        94.03 
TCGA-RY-A83X TCGA-RY-A83Y TCGA-S9-A6TV TCGA-S9-A6TY TCGA-S9-A6U2 TCGA-S9-A6WE 
       30.87         5.46        18.77        35.38        29.85       135.22 
TCGA-S9-A6WM TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-TM-A7C3 
       19.86         8.19         2.04        27.16       169.84        54.77 
TCGA-TM-A84B TCGA-TM-A84G TCGA-TQ-A7RG TCGA-TQ-A7RI TCGA-TQ-A7RN TCGA-TQ-A7RP 
       24.92        40.64        19.69         2.04        33.73        30.05 
TCGA-TQ-A7RQ TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CE TCGA-VW-A7QS TCGA-W9-A837 
       26.14        13.51         0.10        39.16        23.21        51.06 
TCGA-06-0209 TCGA-02-0007 TCGA-02-0009 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 
        7.63        23.18        10.59        20.61        87.06        77.65 
TCGA-02-0023 TCGA-02-0037 TCGA-02-0038 TCGA-02-0043 TCGA-02-0051 TCGA-02-0057 
       20.12         3.62        10.72        18.31        15.09        19.86 
TCGA-02-0064 TCGA-02-0068 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 
       19.73        26.43        25.05         5.49        10.19        20.84 
TCGA-02-0102 TCGA-02-0106 TCGA-02-0111 TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 
       27.02        11.67        23.18        92.65        99.98        15.65 
TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 TCGA-02-0285 
       48.95        16.54        16.93        17.72        10.75        13.87 
TCGA-02-0289 TCGA-02-0290 TCGA-02-0333 TCGA-02-0430 TCGA-02-2466 TCGA-02-2485 
       14.20        15.95         4.37        10.55        16.80        15.45 
TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 
        2.70         6.15        20.38        47.61         6.94         3.98 
TCGA-06-0137 TCGA-06-0145 TCGA-06-0147 TCGA-06-0148 TCGA-06-0150 TCGA-06-0151 
       26.70         2.33        17.79        10.09        19.46        46.59 
TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 
       12.33        13.94        10.45         3.19        10.82         9.44 
TCGA-06-0164 TCGA-06-0173 TCGA-06-0174 TCGA-06-0177 TCGA-06-0179 TCGA-06-0185 
       56.91         4.47         3.22         4.18        20.25        73.84 
TCGA-06-0190 TCGA-06-0192 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0211 
       10.42        38.96         0.39         7.66         8.42        11.84 
TCGA-06-0216 TCGA-06-0221 TCGA-06-0237 TCGA-06-0394 TCGA-06-0402 TCGA-06-0409 
       24.16        19.82        13.64        10.82         0.26        72.36 
TCGA-06-0410 TCGA-06-0414 TCGA-06-0645 TCGA-06-0650 TCGA-06-0743 TCGA-06-0744 
        4.70        35.11         5.75        23.57        26.40        46.88 
TCGA-06-0747 TCGA-06-0879 TCGA-06-1086 TCGA-06-1087 TCGA-06-1802 TCGA-06-2563 
        2.70        40.41         6.84         4.04        15.32        30.64 
TCGA-06-2565 TCGA-08-0246 TCGA-08-0347 TCGA-08-0352 TCGA-08-0353 TCGA-08-0355 
       16.64         4.18        25.71         1.28         8.42        24.56 
TCGA-08-0356 TCGA-08-0357 TCGA-08-0375 TCGA-08-0386 TCGA-08-0390 TCGA-08-0509 
       31.10        37.58        12.23        18.02        13.97        12.56 
TCGA-08-0510 TCGA-08-0514 TCGA-08-0518 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 
        4.27        11.08        19.33         7.27        15.98        18.41 
TCGA-08-0531 TCGA-12-0657 TCGA-12-0670 TCGA-12-0688 TCGA-12-0703 TCGA-12-0707 
        7.56         0.10        25.97        26.66        20.38        28.41 
TCGA-12-0769 TCGA-12-0772 TCGA-12-0780 TCGA-12-0819 TCGA-12-0826 TCGA-12-0829 
       15.06        53.85        14.86        24.79        27.78        20.58 
TCGA-12-1094 TCGA-12-1099 TCGA-14-0789 TCGA-14-0817 TCGA-14-0867 TCGA-15-1446 
       12.23         4.14        11.24         5.39         2.04        19.10 
TCGA-15-1449 TCGA-16-0846 TCGA-19-0955 TCGA-19-1386 TCGA-19-1388 TCGA-26-5139 
       13.28         3.91        11.77         9.07        12.95         1.58 
TCGA-28-2513 TCGA-28-2514 TCGA-28-5208 TCGA-28-5209 TCGA-28-5214 TCGA-28-5216 
        7.30         5.26        17.88        14.53        23.44        13.64 
TCGA-28-5218 TCGA-28-6450 TCGA-76-6280 TCGA-76-6660 TCGA-81-5911 TCGA-87-5896 
        5.16         5.42        11.38         3.75        17.72        26.30 

$`19P GAIN WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A713 
       42.05        62.01        17.16        23.90        20.09        20.45 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-06-5408 TCGA-06-5410 
       18.64        21.40        45.60        42.77        11.74         3.55 
TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 
        8.35         4.54         8.81         2.73         3.75         6.15 
TCGA-06-5859 TCGA-06-6697 TCGA-06-6698 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 
        4.57        12.85         4.77         4.77         4.96        26.79 
TCGA-06-A5U1 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 
        1.87         2.56        14.60        17.72        15.35        21.73 
TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 TCGA-12-3651 TCGA-12-5295 TCGA-12-5299 
        6.77        59.77        44.02        12.69        14.93         3.22 
TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0786 TCGA-14-0812 
        2.04        15.12        11.97         0.95        23.05         3.25 
TCGA-14-0862 TCGA-14-0865 TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 TCGA-14-1451 
        2.89        16.50         1.38         1.12         3.75        23.11 
TCGA-14-1453 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1794 
        1.15         0.92        40.96         6.67        12.43         0.99 
TCGA-14-1795 TCGA-14-1821 TCGA-14-1825 TCGA-14-1827 TCGA-14-3477 TCGA-16-1045 
        1.97        17.79         7.63         5.88         3.78        29.03 
TCGA-16-1047 TCGA-16-1060 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 
        4.57         9.14        13.97         6.41         8.61        14.27 
TCGA-19-0964 TCGA-19-1787 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 
        3.39        12.66         0.13         9.67         4.87         1.08 
TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 
        7.53         0.16         4.08         7.00         7.04         6.64 
TCGA-19-5952 TCGA-19-5954 TCGA-19-5956 TCGA-19-5960 TCGA-19-A6J5 TCGA-26-1438 
       18.90        12.10        22.49        14.96        28.54        10.03 
TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 
       13.87         9.73         7.13         9.40         8.88        18.97 
TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1834 TCGA-27-1835 
       19.33         5.06        16.60         9.86        40.54        21.30 
TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2519 TCGA-27-2523 TCGA-27-2526 
       30.05        14.04        11.51        18.08        16.08         2.86 
TCGA-27-2527 TCGA-28-1746 TCGA-28-1747 TCGA-28-1750 TCGA-28-1755 TCGA-28-1756 
       14.40         0.20         2.53         8.35         1.55         2.83 
TCGA-28-1757 TCGA-28-2509 TCGA-32-1973 TCGA-32-1976 TCGA-32-1980 TCGA-32-1986 
        0.13         4.77        21.07         0.49         1.18        12.69 
TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2615 TCGA-32-2634 TCGA-32-4210 
       16.93        12.23        20.78        15.95        22.78         3.72 
TCGA-32-4213 TCGA-32-4719 TCGA-41-2571 TCGA-41-2573 TCGA-41-3392 TCGA-41-4097 
       19.86        10.85         0.85         8.94         0.99         0.20 
TCGA-41-6646 TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6581 TCGA-74-6584 
       12.46         3.45        20.91         4.34         8.22         7.50 
TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4935 
        4.80         4.54         3.09         3.65         9.17        36.85 
TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 
       16.70         3.29         2.70        17.06         8.35        20.98 
TCGA-76-6657 TCGA-76-6662 TCGA-OX-A56R TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 
        5.03        34.45         5.92       117.50         7.69        43.89 
TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5397 TCGA-CS-6290 
       36.36        60.10        40.18         0.26         6.38        37.38 
TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 
       46.95        48.30        49.94        49.12       122.73        81.96 
TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       47.93        72.92        50.86        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XH 
       46.42        18.84        30.21        37.45        33.57        31.63 
TCGA-DB-A64O TCGA-DB-A64Q TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W 
       25.48         5.98        27.45        27.81        29.23        14.40 
TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       18.51        12.10        17.88        30.74        16.18        19.96 
TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66G 
       63.88        46.06        24.59        30.21        27.81        17.19 
TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 
       54.25        23.21        17.46        13.71        18.61        18.02 
TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5855 TCGA-DU-5870 
       14.56        17.46         6.74        13.38         6.81       182.33 
TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-6392 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6399 
       18.94        17.49       211.17        49.02        75.16        65.75 
TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6407 
       87.45         7.04        11.64       133.74        19.89        94.52 
TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 
      114.08         7.96         2.40        11.47        62.96       156.23 
TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7018 
       14.99       105.21         6.54         8.84       117.40        30.67 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 
       10.36         7.96        94.32        44.02        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 
       23.31         2.76         5.10        23.74        14.60        20.68 
TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR 
       19.13        16.96        15.48        14.17        33.27        29.85 
TCGA-DU-A5TS TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S3 TCGA-DU-A6S6 
       31.69        26.17        24.99        33.96        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 
       20.98        22.29        26.76        21.30        17.98       139.04 
TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI 
       84.33        51.52        37.38         7.50        44.42        38.89 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5319 
       50.14        67.46        79.99        57.93       134.27        95.57 
TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YK 
      130.78        14.30        29.13        93.21         3.65        12.43 
TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW 
       21.30        75.02        51.88         0.76        32.45        36.82 
TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 
      146.14        13.08        73.48       145.05        32.35        39.48 
TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 
        0.23         0.20        25.48        52.21        36.82        18.77 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 
       14.93        42.54        41.33        15.35        17.88        22.55 
TCGA-FG-7641 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8189 TCGA-FG-8191 
       20.61        28.34        13.68        14.24        22.52        32.61 
TCGA-FG-A4MT TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ 
       38.27        18.71        23.70        14.76        21.53        15.02 
TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A711 TCGA-FN-7833 
       16.44        22.26        28.54        10.78        48.69        27.52 
TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 
        0.10         6.67        40.11         0.13         0.03        16.54 
TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 
        3.75        17.42         6.54        24.26         6.38        40.34 
TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 
       75.19        95.93       106.95       172.77         4.01         5.03 
TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 
       29.85        23.18       122.47         4.57        17.29         3.16 
TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 
       22.06        45.99        56.09        57.60         0.23        14.27 
TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 
        0.16        16.24         0.76        44.68         6.05        42.74 
TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 
       31.69        14.96         0.10         0.10         2.96        17.52 
TCGA-HT-7694 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 
        6.90        39.48        19.23        39.09         0.23        50.63 
TCGA-HT-7874 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7884 
       37.15         0.13         3.68         5.33        35.47        11.28 
TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 
       31.43         1.64        16.24        63.55         0.10        37.87 
TCGA-HT-8019 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 
       33.01         6.25         0.10         0.46         2.50         5.56 
TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 
       13.78         0.23        29.59        34.19        28.27        15.72 
TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RB 
        0.23        26.04         0.13        20.22         0.07         0.10 
TCGA-HT-A614 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61C TCGA-HT-A74H 
        2.70         1.81        16.14        16.83        17.65         2.43 
TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 
       10.52        15.35        11.05         0.10        56.58        45.44 
TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       41.49        68.32        69.27        39.75        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 
       24.92        31.63        12.76        28.87        20.71        19.00 
TCGA-KT-A74X TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ 
       14.40         0.23         6.71         7.99         2.37         2.30 
TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72W TCGA-P5-A72X 
        5.88         7.96         7.59         1.28        10.42        13.25 
TCGA-P5-A72Z TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       11.64         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       19.20         3.45         2.37         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CW TCGA-QH-A6CX 
       12.62        14.04        19.33        14.83        13.61        12.23 
TCGA-QH-A6CY TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 
       13.41        10.29        14.53        16.34        16.73         1.91 
TCGA-QH-A6XA TCGA-QH-A870 TCGA-R8-A6MO TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 
       16.50        12.99        32.65         9.90        28.08         2.07 
TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TW TCGA-S9-A6TX 
       19.59        30.67        62.17        87.12        41.10        40.93 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       36.82        24.39        25.81        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WG TCGA-S9-A6WH 
       95.93         5.85       123.65        75.25        85.55        38.56 
TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ 
       84.99        31.10        26.47        18.61        18.64        14.07 
TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 
       36.13         7.92        26.93        23.51        19.99        20.02 
TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7R2 TCGA-S9-A7R3 
       20.68        15.06        18.54        28.37        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C4 
       30.05        98.63        31.59        18.71        20.48        48.33 
TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84H 
       49.32        34.78        65.39        16.18        59.05        30.44 
TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q 
       28.08        24.16        40.83        24.79        33.24        25.38 
TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RH TCGA-TQ-A7RJ 
       18.61        14.93        23.80        21.37        15.98        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RO TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV 
       44.09        36.69        31.20        25.87        33.93        61.41 
TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CD TCGA-VM-A8CF 
       26.99        31.36        45.93        43.20         7.89        20.02 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A8FI TCGA-WH-A86K TCGA-WY-A858 
       23.47        37.05        16.01         8.05        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 
TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 
       11.77         4.73        18.35        35.41        20.71        82.59 
TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 
       53.10        42.74        24.59        12.16        90.58         2.83 
TCGA-02-0034 TCGA-02-0039 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 TCGA-02-0052 
       14.14        10.52         6.87        14.73         3.22        12.59 
TCGA-02-0054 TCGA-02-0055 TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0069 
        6.54         2.50         8.35         9.57         6.02        28.70 
TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 
       27.25        89.72        22.72        12.62        51.32         8.81 
TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0104 TCGA-02-0107 TCGA-02-0271 
       57.76        16.96         3.48        65.00        17.65        14.47 
TCGA-02-0281 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 
        3.98        12.23         9.90         7.73        10.62         7.33 
TCGA-02-0330 TCGA-02-0332 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 
       15.91        25.71        25.12        10.59        12.39        14.50 
TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2470 
       47.11        11.34         9.27        16.21         3.35        12.92 
TCGA-02-2483 TCGA-02-2486 TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 TCGA-06-0132 
       15.32        20.32        22.72        33.67        12.95        25.35 
TCGA-06-0133 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 
       14.30        24.23        11.90         0.20        10.29         2.20 
TCGA-06-0143 TCGA-06-0146 TCGA-06-0149 TCGA-06-0160 TCGA-06-0162 TCGA-06-0165 
       11.74        20.09         8.61        11.80         3.42        10.65 
TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0175 TCGA-06-0176 
        5.85        19.66         3.29        13.12         4.04        91.00 
TCGA-06-0178 TCGA-06-0182 TCGA-06-0184 TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 
       88.14         3.65        69.90        27.22        44.58        15.42 
TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 TCGA-06-0210 TCGA-06-0213 TCGA-06-0214 
        4.67         7.40         5.56         7.40         0.53        15.02 
TCGA-06-0219 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0397 TCGA-06-0412 
        0.72        13.32        20.42        48.69         9.01         9.57 
TCGA-06-0413 TCGA-06-0644 TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 TCGA-06-0686 
        3.16        12.62         5.75         9.80         2.10        14.20 
TCGA-06-0745 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 
        7.86         2.70         0.92        43.46        46.19         7.17 
TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1800 TCGA-06-1801 
       16.57        20.78        26.76        23.93        26.79        11.84 
TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 
       13.61        33.90         1.08        12.49         4.93        17.65 
TCGA-06-2562 TCGA-06-2564 TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 
       12.56         5.95         5.98         4.37         0.43        31.50 
TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 TCGA-08-0245 
        7.79         5.39       120.56         7.36        22.68        37.84 
TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 
      115.86         1.74         8.42        12.16         9.80        29.23 
TCGA-08-0351 TCGA-08-0354 TCGA-08-0358 TCGA-08-0359 TCGA-08-0380 TCGA-08-0389 
       65.33        17.95        22.29         3.39        14.93        15.35 
TCGA-08-0392 TCGA-08-0512 TCGA-08-0516 TCGA-08-0517 TCGA-08-0520 TCGA-08-0521 
        0.72        42.15        19.59        58.68        10.75         4.80 
TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 
       14.73        12.99        34.92        10.45         7.59        94.78 
TCGA-12-0662 TCGA-12-0691 TCGA-12-0692 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 
       38.17        12.13         3.65        43.23         7.63         9.73 
TCGA-12-0778 TCGA-12-0818 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0827 
       14.93        91.76        18.48        10.62        23.51        38.76 
TCGA-12-0828 TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 
        8.94       127.59         5.82         7.59        33.21        15.98 
TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-14-0787 TCGA-14-0813 
       15.85         9.11        14.53         3.98         2.24         1.35 
TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1447 
       28.93        19.30         0.79        13.78        50.53        53.19 
TCGA-16-0849 TCGA-16-0850 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1387 
       26.07        16.37        21.90         0.66        10.75         5.95 
TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-6173 TCGA-26-6174 
        4.64        31.33        14.86         5.49         7.92         2.33 
TCGA-28-5204 TCGA-28-5207 TCGA-28-5211 TCGA-28-5213 TCGA-28-5215 TCGA-28-5219 
       14.93        11.28        11.77        31.27        11.01        22.68 
TCGA-28-5220 TCGA-32-2616 TCGA-76-6283 TCGA-81-5910 
       12.76         7.36         5.42         1.61 

  19P GAIN MUTATED 19P GAIN WILD-TYPE 
              0.10               0.03 
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
            169.84             211.17 
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
             15.42              16.29 
[1] "0.1 - 169.8 (15.4)" "0.0 - 211.2 (16.3)"
[1] "hr=" "1.5"
D34V2, continuous
D34V3, binary
                    cls
clus                   0   1
  19P GAIN MUTATED   224  98
  19P GAIN WILD-TYPE 349 414
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19P GAIN MUTATED    224   98
  19P GAIN WILD-TYPE  349  414
                        clus
vv                       19P GAIN MUTATED 19P GAIN WILD-TYPE
  BRAIN                               224                349
  CENTRAL NERVOUS SYSTEM               98                414
[1] 2 2
[1] FALSE
D34V4, binary
                    cls
clus                   0   1
  19P GAIN MUTATED   129 193
  19P GAIN WILD-TYPE 324 439
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19P GAIN MUTATED    129  193
  19P GAIN WILD-TYPE  324  439
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  FEMALE              129                324
  MALE                193                439
[1] 2 2
[1] FALSE
D34V5, binary
                    cls
clus                   0   1
  19P GAIN MUTATED    64 240
  19P GAIN WILD-TYPE 194 530
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19P GAIN MUTATED     64  240
  19P GAIN WILD-TYPE  194  530
     clus
vv    19P GAIN MUTATED 19P GAIN WILD-TYPE
  NO                64                194
  YES              240                530
[1] 2 2
[1] FALSE
D34V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  19P GAIN MUTATED            21                            13               19
  19P GAIN WILD-TYPE         173                            17              110
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  19P GAIN MUTATED                  58                  10
  19P GAIN WILD-TYPE               131                   8
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  19P GAIN MUTATED                               201
  19P GAIN WILD-TYPE                             324
D34V7, multiclass
                                 clus
vv                                19P GAIN MUTATED 19P GAIN WILD-TYPE
  ASTROCYTOMA                                   21                173
  GLIOBLASTOMA MULTIFORME (GBM)                 13                 17
  OLIGOASTROCYTOMA                              19                110
  OLIGODENDROGLIOMA                             58                131
  TREATED PRIMARY GBM                           10                  8
  UNTREATED PRIMARY (DE NOVO) GBM              201                324
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  19P GAIN MUTATED                                  0     9
  19P GAIN WILD-TYPE                                1    12
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  19P GAIN MUTATED                          27   276
  19P GAIN WILD-TYPE                        44   683
D34V8, multiclass
                                  clus
vv                                 19P GAIN MUTATED 19P GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           9                 12
  BLACK OR AFRICAN AMERICAN                      27                 44
  WHITE                                         276                683
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D34V9, binary
                    cls
clus                   0   1
  19P GAIN MUTATED    16 269
  19P GAIN WILD-TYPE  28 652
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19P GAIN MUTATED     16  269
  19P GAIN WILD-TYPE   28  652
                        clus
vv                       19P GAIN MUTATED 19P GAIN WILD-TYPE
  HISPANIC OR LATINO                   16                 28
  NOT HISPANIC OR LATINO              269                652
[1] 2 2
[1] FALSE

Clustering(35) Variable = 19Q GAIN MUTATION ANALYSIS
D35V1, survival
                    sevent
clus2                  0   1
  19Q GAIN MUTATED    47 173
  19Q GAIN WILD-TYPE 433 425
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
               220                858 
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
               173                425 
$`19Q GAIN MUTATED`
TCGA-06-1806 TCGA-06-5414 TCGA-06-5415 TCGA-06-6388 TCGA-06-6695 TCGA-06-A6S0 
       15.32         8.98         8.55         5.23         8.32         3.12 
TCGA-12-1599 TCGA-12-1600 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 TCGA-12-3652 
       25.68        14.73        26.93        15.22        10.95        34.92 
TCGA-12-3653 TCGA-14-0790 TCGA-14-0866 TCGA-14-1034 TCGA-14-1402 TCGA-14-1450 
       14.53        13.78        26.33        15.95        32.05        58.78 
TCGA-14-1454 TCGA-14-1823 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-3477 
       30.18        17.85         7.17        17.49         7.96         3.78 
TCGA-16-0848 TCGA-16-1055 TCGA-16-1062 TCGA-19-1390 TCGA-19-1786 TCGA-19-1789 
       17.59        10.29        21.24        25.38         7.17         3.25 
TCGA-19-2620 TCGA-19-5950 TCGA-19-5953 TCGA-19-5955 TCGA-26-1799 TCGA-27-1833 
        4.87        17.19         4.73         1.78         9.37        24.23 
TCGA-27-2518 TCGA-27-2521 TCGA-27-2524 TCGA-27-2528 TCGA-28-1749 TCGA-28-1751 
       24.76        16.77         7.59        15.78         9.21         7.63 
TCGA-28-1752 TCGA-28-1753 TCGA-28-2506 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 
        8.48         1.22         6.74         0.10        15.85        19.50 
TCGA-32-1982 TCGA-32-2495 TCGA-32-2632 TCGA-32-2638 TCGA-32-5222 TCGA-41-2572 
        4.67        15.02         8.84        25.18        19.23        13.35 
TCGA-41-3393 TCGA-41-3915 TCGA-41-5651 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T 
        4.44        11.84        15.12         4.08         1.45        25.58 
TCGA-74-6578 TCGA-76-4934 TCGA-76-6656 TCGA-76-6661 TCGA-76-6663 TCGA-76-6664 
       14.33         2.53         4.83        23.90        18.64        36.20 
TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-5395 TCGA-CS-6186 TCGA-DU-6402 TCGA-DU-6406 
        6.28        20.55        21.01        17.69         7.04        16.83 
TCGA-DU-7019 TCGA-DU-A76K TCGA-DU-A7TJ TCGA-E1-A7YJ TCGA-E1-A7YL TCGA-FG-6692 
       26.30        11.41         0.56        19.46        16.18        18.44 
TCGA-FG-7643 TCGA-FG-A4MU TCGA-FG-A4MW TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7882 
       20.09        10.72        18.38         0.49        23.61         3.72 
TCGA-HT-8104 TCGA-HT-A5RA TCGA-HT-A5RC TCGA-KT-A7W1 TCGA-P5-A72U TCGA-QH-A6CV 
       12.23        27.35         5.33        14.40         0.23        14.53 
TCGA-QH-A6XC TCGA-S9-A6WM TCGA-TM-A7C3 TCGA-TQ-A7RP TCGA-06-0209 TCGA-02-0009 
       16.70        19.86        54.77        30.05         7.63        10.59 
TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0037 TCGA-02-0038 
       20.61        87.06        77.65        20.12         3.62        10.72 
TCGA-02-0043 TCGA-02-0051 TCGA-02-0057 TCGA-02-0064 TCGA-02-0068 TCGA-02-0070 
       18.31        15.09        19.86        19.73        26.43        25.05 
TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 TCGA-02-0102 TCGA-02-0106 TCGA-02-0111 
        5.49        10.19        20.84        27.02        11.67        23.18 
TCGA-02-0113 TCGA-02-0115 TCGA-02-0116 TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 
       92.65        15.65        48.95        16.93        17.72        10.75 
TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0333 TCGA-02-0430 TCGA-02-2485 
       13.87        14.20        15.95         4.37        10.55        15.45 
TCGA-06-0119 TCGA-06-0122 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0137 
        2.70         6.15        47.61         6.94         3.98        26.70 
TCGA-06-0145 TCGA-06-0147 TCGA-06-0148 TCGA-06-0150 TCGA-06-0151 TCGA-06-0155 
        2.33        17.79        10.09        19.46        46.59        10.45 
TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0164 TCGA-06-0173 TCGA-06-0174 
        3.19        10.82         9.44        56.91         4.47         3.22 
TCGA-06-0177 TCGA-06-0179 TCGA-06-0182 TCGA-06-0185 TCGA-06-0190 TCGA-06-0192 
        4.18        20.25         3.65        73.84        10.42        38.96 
TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0211 TCGA-06-0216 TCGA-06-0237 
        0.39         7.66         8.42        11.84        24.16        13.64 
TCGA-06-0394 TCGA-06-0402 TCGA-06-0409 TCGA-06-0410 TCGA-06-0414 TCGA-06-0645 
       10.82         0.26        72.36         4.70        35.11         5.75 
TCGA-06-0650 TCGA-06-0743 TCGA-06-0744 TCGA-06-0879 TCGA-06-1086 TCGA-06-1087 
       23.57        26.40        46.88        40.41         6.84         4.04 
TCGA-06-1802 TCGA-06-2563 TCGA-06-2565 TCGA-08-0246 TCGA-08-0347 TCGA-08-0352 
       15.32        30.64        16.64         4.18        25.71         1.28 
TCGA-08-0355 TCGA-08-0356 TCGA-08-0375 TCGA-08-0386 TCGA-08-0390 TCGA-08-0509 
       24.56        31.10        12.23        18.02        13.97        12.56 
TCGA-08-0510 TCGA-08-0514 TCGA-08-0518 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 
        4.27        11.08        19.33         7.27        15.98        18.41 
TCGA-08-0531 TCGA-12-0657 TCGA-12-0670 TCGA-12-0688 TCGA-12-0703 TCGA-12-0707 
        7.56         0.10        25.97        26.66        20.38        28.41 
TCGA-12-0769 TCGA-12-0772 TCGA-12-0778 TCGA-12-0780 TCGA-12-0819 TCGA-12-0826 
       15.06        53.85        14.93        14.86        24.79        27.78 
TCGA-12-0829 TCGA-12-1094 TCGA-12-1099 TCGA-14-0789 TCGA-14-0817 TCGA-14-0867 
       20.58        12.23         4.14        11.24         5.39         2.04 
TCGA-15-1446 TCGA-16-0846 TCGA-19-0955 TCGA-19-1386 TCGA-26-5139 TCGA-28-2513 
       19.10         3.91        11.77         9.07         1.58         7.30 
TCGA-28-2514 TCGA-28-5208 TCGA-28-5209 TCGA-28-5214 TCGA-28-5216 TCGA-28-5218 
        5.26        17.88        14.53        23.44        13.64         5.16 
TCGA-28-6450 TCGA-76-6280 TCGA-81-5911 TCGA-87-5896 
        5.42        11.38        17.72        26.30 

$`19Q GAIN WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K 
       42.05        62.01        17.16        23.90        20.09        17.82 
TCGA-FG-A713 TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M 
       20.45        18.64        21.40        45.60        42.77        59.38 
TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5416 
       11.74         3.55         8.35         4.54         8.81         6.71 
TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 TCGA-06-6697 TCGA-06-6698 
        2.73         3.75         6.15         4.57        12.85         4.77 
TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S1 
        1.55         4.77         4.96        26.79         1.87         2.56 
TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 TCGA-12-1602 
       14.60        17.72        15.35        21.73        15.65         6.77 
TCGA-12-3644 TCGA-12-3646 TCGA-12-3651 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 
       59.77        44.02        12.69        14.93         3.22         2.04 
TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0812 
       15.12        11.97         0.95         6.21        23.05         3.25 
TCGA-14-0862 TCGA-14-0865 TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 TCGA-14-1451 
        2.89        16.50         1.38         1.12         3.75        23.11 
TCGA-14-1452 TCGA-14-1453 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 
        7.10         1.15         0.92        40.96         6.67        12.43 
TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 TCGA-14-1825 TCGA-14-1827 TCGA-14-4157 
        0.99         1.97        17.79         7.63         5.88         3.42 
TCGA-16-1045 TCGA-16-1047 TCGA-16-1056 TCGA-16-1060 TCGA-16-1063 TCGA-16-1460 
       29.03         4.57        14.01         9.14        13.97         6.41 
TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1392 TCGA-19-1787 TCGA-19-1791 
        8.61        14.27         3.39         3.65        12.66         0.13 
TCGA-19-2619 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 
        9.67         1.08         7.53         0.16         4.08        24.23 
TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 TCGA-19-5951 TCGA-19-5952 TCGA-19-5954 
        7.00         7.04         6.64         8.02        18.90        12.10 
TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 
       22.49        14.07        16.80        14.96        17.79        28.54 
TCGA-26-1438 TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 TCGA-26-5132 TCGA-26-5135 
       10.03        13.87         9.73         7.13         9.40         8.88 
TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1834 
       18.97        19.33         5.06        16.60         9.86        40.54 
TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2519 TCGA-27-2523 
       21.30        30.05        14.04        11.51        18.08        16.08 
TCGA-27-2526 TCGA-27-2527 TCGA-28-1746 TCGA-28-1747 TCGA-28-1750 TCGA-28-1755 
        2.86        14.40         0.20         2.53         8.35         1.55 
TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2509 TCGA-32-1970 TCGA-32-1973 
        2.83         0.13         0.66         4.77        15.39        21.07 
TCGA-32-1976 TCGA-32-1980 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 
        0.49         1.18        12.69        14.86        16.93        12.23 
TCGA-32-2494 TCGA-32-2615 TCGA-32-2634 TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 
       20.78        15.95        22.78        21.14         3.72        12.59 
TCGA-32-4213 TCGA-32-4719 TCGA-41-2571 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 
       19.86        10.85         0.85         8.94         9.53         0.99 
TCGA-41-4097 TCGA-41-6646 TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6581 
        0.20        12.46         3.45        20.91         4.34         8.22 
TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 
        7.50         4.80         4.54         3.09         3.65         9.17 
TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 
       36.85        16.70         3.29         2.70        17.06         8.35 
TCGA-76-6286 TCGA-76-6657 TCGA-76-6662 TCGA-OX-A56R TCGA-CS-4938 TCGA-CS-4941 
       20.98         5.03        34.45         5.92       117.50         7.69 
TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5396 
       43.89        36.36        60.10        40.18         0.26        53.62 
TCGA-CS-5397 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
        6.38        26.76        37.38        46.95        48.30        49.94 
TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 
       49.12       122.73        81.96        75.25        47.93        72.92 
TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       50.86        91.13        44.52        36.56        78.28        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG 
       18.84        30.21        39.78        37.45        33.57        72.95 
TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R 
       31.63        24.20        25.48        30.12         5.98        31.40 
TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K 
       27.45        27.81        29.23        14.40        18.51        12.10 
TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 
       11.24        17.88        30.74        16.18        19.96        63.88 
TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G 
       46.06        24.59        30.21        27.81        17.19        17.19 
TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 
       54.25        23.21        17.46        13.71        18.61        18.02 
TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 
       14.56        17.46         6.74        13.38         8.45         6.81 
TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 
      182.33        18.94        17.49        15.16       211.17        52.11 
TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 
       22.42        49.02        75.16        46.06        65.75         1.22 
TCGA-DU-6401 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6407 TCGA-DU-6408 
       87.45        11.64       133.74        19.89        94.52       114.08 
TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 
        7.96         2.40        11.47        62.96       156.23       154.36 
TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 
       14.99       105.21         6.54         8.84       117.40        90.77 
TCGA-DU-7018 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 
       30.67        10.36         7.96        94.32        18.94        44.02 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 
       25.91        60.30        23.31        41.98         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 
       23.74        14.60        20.68        21.40        19.13        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT 
       15.48        14.17        33.27        29.85        31.69        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 
       20.98        22.29        26.76        21.30        17.98       139.04 
TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI 
       84.33        51.52        37.38         7.50        44.42        38.89 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 
       50.14        67.46        41.13        79.99        57.93       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH 
       78.21        95.57       130.78        14.30        29.13        93.21 
TCGA-E1-A7YI TCGA-E1-A7YK TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS 
        3.65        12.43        21.30        75.02        51.88        15.32 
TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 
        0.76        32.45        36.82       146.14        13.08        73.48 
TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 
      145.05        32.35        39.48         0.23         0.20        47.77 
TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 
       25.48        52.21        36.82        18.77        14.93        42.54 
TCGA-FG-6691 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-8181 
       41.33        15.35        17.88        22.55        20.61        28.34 
TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 
       13.68        14.24        16.01        14.96        22.52        32.61 
TCGA-FG-A4MT TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ 
       38.27        18.71        23.70        14.76        21.53        15.02 
TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 
       16.44        22.26        28.54        10.78        36.66        48.69 
TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 
        5.72        27.52         0.10         6.67        11.54        40.11 
TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 
        0.13         0.03        16.54         3.75        17.42         6.54 
TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 
       24.26         6.38        40.34        75.19        95.93       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
        4.57        17.29         3.16        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       57.60         0.23        14.27         0.16        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 
       44.68         6.05        42.74         0.10        31.69        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
        0.10         0.10         2.96        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7874 
       39.48        19.23        39.09         0.23        50.63        37.15 
TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7884 
        0.33         0.13         3.68         5.33        35.47        11.28 
TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 
       31.43         1.64        16.24         9.40        63.55         0.10 
TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 
       37.87        33.01         6.25         0.10         0.46         2.50 
TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 
        5.56        13.78         0.23        29.59        34.19        28.27 
TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 
       15.72         0.23        26.04         0.13        20.22         0.07 
TCGA-HT-A5RB TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 
        0.10         2.70        16.93         1.81        16.14        16.83 
TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L 
       17.52        17.65         2.43        10.52        15.35        11.05 
TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 
        0.10        56.58        45.44        41.49        68.32        69.27 
TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ 
       35.44        39.75        40.01        42.54        24.92        31.63 
TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-P5-A5EV 
       12.76        28.87        20.71        19.00        14.40         0.23 
TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 
        6.71         7.99         2.37         2.30         9.44         5.88 
TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        7.96         7.59         1.28        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       19.20         3.45         2.37         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CW 
       12.62        15.85        14.04        19.33        14.83        13.61 
TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 
       12.23        13.41         9.17        10.29        14.53        16.34 
TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
       16.73         1.91        16.50        11.08        12.99        88.83 
TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 
       94.03        32.65        30.87         5.46         9.90        28.08 
TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV 
        2.07        19.59        30.67        62.17        87.12        18.77 
TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 
       41.10        40.93        35.38        36.82        24.39        25.81 
TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA 
       29.85        32.61        35.15        98.24        95.93         5.85 
TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI 
      123.65        75.25       135.22        85.55        38.56        84.99 
TCGA-S9-A6WL TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ 
       31.10        26.47        18.61        18.64        14.07        36.13 
TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 
        7.92        26.93        23.51        19.99        20.02         8.19 
TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ 
        2.04        20.68        15.06        18.54        28.37        27.16 
TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 
      169.84        10.39        99.06        30.05        98.63        31.59 
TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF 
       18.71        20.48        48.33        49.32        34.78        65.39 
TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I 
       24.92        16.18        59.05        40.64        30.44        28.08 
TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R 
       24.16        40.83        24.79        33.24        25.38        18.61 
TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI 
       14.93        23.80        21.37        19.69        15.98         2.04 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RQ 
       40.41        44.09        36.69        33.73        31.20        26.14 
TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 
       25.87        33.93        61.41        26.99        31.36        45.93 
TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF 
       43.20        13.51         0.10         7.89        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 
       23.47        37.05        16.01        23.21         8.05        51.06 
TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C 
       13.32        43.96        39.88        43.40        45.80        46.88 
TCGA-WY-A85D TCGA-WY-A85E TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 
       37.71        20.81        11.77         4.73        18.35        23.18 
TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 
       35.41        20.71        82.59        53.10        42.74        24.59 
TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 TCGA-02-0039 TCGA-02-0046 
       12.16        90.58         2.83        14.14        10.52         6.87 
TCGA-02-0047 TCGA-02-0048 TCGA-02-0052 TCGA-02-0054 TCGA-02-0055 TCGA-02-0058 
       14.73         3.22        12.59         6.54         2.50         8.35 
TCGA-02-0059 TCGA-02-0060 TCGA-02-0069 TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 
        9.57         6.02        28.70        27.25        89.72        22.72 
TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 
       12.62        51.32         8.81        57.76        16.96         3.48 
TCGA-02-0104 TCGA-02-0107 TCGA-02-0114 TCGA-02-0258 TCGA-02-0271 TCGA-02-0281 
       65.00        17.65        99.98        16.54        14.47         3.98 
TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 
       12.23         9.90         7.73        10.62         7.33        15.91 
TCGA-02-0332 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0432 
       25.71        25.12        10.59        12.39        14.50        47.11 
TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 
       11.34         9.27        16.21         3.35        16.80        12.92 
TCGA-02-2483 TCGA-02-2486 TCGA-06-0124 TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 
       15.32        20.32        20.38        22.72        33.67        12.95 
TCGA-06-0132 TCGA-06-0133 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 
       25.35        14.30        24.23        11.90         0.20        10.29 
TCGA-06-0142 TCGA-06-0143 TCGA-06-0146 TCGA-06-0149 TCGA-06-0152 TCGA-06-0154 
        2.20        11.74        20.09         8.61        12.33        13.94 
TCGA-06-0160 TCGA-06-0162 TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 
       11.80         3.42        10.65         5.85        19.66         3.29 
TCGA-06-0171 TCGA-06-0175 TCGA-06-0176 TCGA-06-0178 TCGA-06-0184 TCGA-06-0187 
       13.12         4.04        91.00        88.14        69.90        27.22 
TCGA-06-0188 TCGA-06-0189 TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 TCGA-06-0210 
       44.58        15.42         4.67         7.40         5.56         7.40 
TCGA-06-0213 TCGA-06-0214 TCGA-06-0219 TCGA-06-0221 TCGA-06-0238 TCGA-06-0240 
        0.53        15.02         0.72        19.82        13.32        20.42 
TCGA-06-0241 TCGA-06-0397 TCGA-06-0412 TCGA-06-0413 TCGA-06-0644 TCGA-06-0646 
       48.69         9.01         9.57         3.16        12.62         5.75 
TCGA-06-0648 TCGA-06-0649 TCGA-06-0686 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 
        9.80         2.10        14.20         7.86         2.70         2.70 
TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0881 TCGA-06-0882 
        0.92        43.46        46.19         7.17        16.57        20.78 
TCGA-06-0939 TCGA-06-1084 TCGA-06-1800 TCGA-06-1801 TCGA-06-1804 TCGA-06-1805 
       26.76        23.93        26.79        11.84        13.61        33.90 
TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2564 
        1.08        12.49         4.93        17.65        12.56         5.95 
TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 
        5.98         4.37         0.43        31.50         7.79         5.39 
TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 TCGA-08-0245 TCGA-08-0344 TCGA-08-0345 
      120.56         7.36        22.68        37.84       115.86         1.74 
TCGA-08-0346 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0353 
        8.42        12.16         9.80        29.23        65.33         8.42 
TCGA-08-0354 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0380 TCGA-08-0389 
       17.95        37.58        22.29         3.39        14.93        15.35 
TCGA-08-0392 TCGA-08-0512 TCGA-08-0516 TCGA-08-0517 TCGA-08-0520 TCGA-08-0521 
        0.72        42.15        19.59        58.68        10.75         4.80 
TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 
       14.73        12.99        34.92        10.45         7.59        94.78 
TCGA-12-0662 TCGA-12-0691 TCGA-12-0692 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 
       38.17        12.13         3.65        43.23         7.63         9.73 
TCGA-12-0818 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0827 TCGA-12-0828 
       91.76        18.48        10.62        23.51        38.76         8.94 
TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1095 
      127.59         5.82         7.59        33.21        15.98        15.85 
TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-14-0787 TCGA-14-0813 TCGA-14-0871 
        9.11        14.53         3.98         2.24         1.35        28.93 
TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1447 TCGA-15-1449 
       19.30         0.79        13.78        50.53        53.19        13.28 
TCGA-16-0849 TCGA-16-0850 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1387 
       26.07        16.37        21.90         0.66        10.75         5.95 
TCGA-19-1388 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-6173 
       12.95         4.64        31.33        14.86         5.49         7.92 
TCGA-26-6174 TCGA-28-5204 TCGA-28-5207 TCGA-28-5211 TCGA-28-5213 TCGA-28-5215 
        2.33        14.93        11.28        11.77        31.27        11.01 
TCGA-28-5219 TCGA-28-5220 TCGA-32-2616 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 
       22.68        12.76         7.36         5.42         3.75         1.61 

  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
              0.10               0.03 
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
             92.65             211.17 
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
            14.530             16.585 
[1] "0.1 - 92.7 (14.5)"  "0.0 - 211.2 (16.6)"
[1] "hr=" "2.2"
D35V2, continuous
D35V3, binary
                    cls
clus                   0   1
  19Q GAIN MUTATED   195  27
  19Q GAIN WILD-TYPE 378 485
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19Q GAIN MUTATED    195   27
  19Q GAIN WILD-TYPE  378  485
                        clus
vv                       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  BRAIN                               195                378
  CENTRAL NERVOUS SYSTEM               27                485
[1] 2 2
[1] FALSE
D35V4, binary
                    cls
clus                   0   1
  19Q GAIN MUTATED    89 133
  19Q GAIN WILD-TYPE 364 499
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19Q GAIN MUTATED     89  133
  19Q GAIN WILD-TYPE  364  499
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  FEMALE               89                364
  MALE                133                499
[1] 2 2
[1] FALSE
D35V5, binary
                    cls
clus                   0   1
  19Q GAIN MUTATED    27 181
  19Q GAIN WILD-TYPE 231 589
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19Q GAIN MUTATED     27  181
  19Q GAIN WILD-TYPE  231  589
     clus
vv    19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  NO                27                231
  YES              181                589
[1] 2 2
[1] FALSE
D35V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  19Q GAIN MUTATED            13                            11                9
  19Q GAIN WILD-TYPE         181                            19              120
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  19Q GAIN MUTATED                   5                   7
  19Q GAIN WILD-TYPE               184                  11
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  19Q GAIN MUTATED                               177
  19Q GAIN WILD-TYPE                             348
D35V7, multiclass
                                 clus
vv                                19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  ASTROCYTOMA                                   13                181
  GLIOBLASTOMA MULTIFORME (GBM)                 11                 19
  OLIGOASTROCYTOMA                               9                120
  OLIGODENDROGLIOMA                              5                184
  TREATED PRIMARY GBM                            7                 11
  UNTREATED PRIMARY (DE NOVO) GBM              177                348
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  19Q GAIN MUTATED                                  0     8
  19Q GAIN WILD-TYPE                                1    13
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  19Q GAIN MUTATED                          22   185
  19Q GAIN WILD-TYPE                        49   774
D35V8, multiclass
                                  clus
vv                                 19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           8                 13
  BLACK OR AFRICAN AMERICAN                      22                 49
  WHITE                                         185                774
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D35V9, binary
                    cls
clus                   0   1
  19Q GAIN MUTATED     8 185
  19Q GAIN WILD-TYPE  36 736
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19Q GAIN MUTATED      8  185
  19Q GAIN WILD-TYPE   36  736
                        clus
vv                       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  HISPANIC OR LATINO                    8                 36
  NOT HISPANIC OR LATINO              185                736
[1] 2 2
[1] FALSE

Clustering(36) Variable = 20P GAIN MUTATION ANALYSIS
D36V1, survival
                    sevent
clus2                  0   1
  20P GAIN MUTATED    50 213
  20P GAIN WILD-TYPE 430 385
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
               263                815 
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
               213                385 
$`20P GAIN MUTATED`
TCGA-CS-6665 TCGA-DH-A66B TCGA-06-1806 TCGA-06-5414 TCGA-06-5415 TCGA-06-5856 
       51.55        42.05        15.32         8.98         8.55         3.75 
TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-A5U1 TCGA-06-A7TK 
        5.23         8.32        12.85         4.77         1.87        14.60 
TCGA-12-1600 TCGA-12-1602 TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3652 
       14.73         6.77        44.02        26.93        15.22        34.92 
TCGA-12-3653 TCGA-14-0740 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0866 
       14.53        11.97         6.21        23.05        13.78        26.33 
TCGA-14-1395 TCGA-14-1402 TCGA-14-1452 TCGA-14-1453 TCGA-14-1823 TCGA-14-2554 
        1.38        32.05         7.10         1.15        17.85        17.49 
TCGA-14-2555 TCGA-16-1060 TCGA-16-1062 TCGA-19-1392 TCGA-19-1786 TCGA-19-1789 
        7.96         9.14        21.24         3.65         7.17         3.25 
TCGA-19-2631 TCGA-19-5950 TCGA-19-5951 TCGA-19-5954 TCGA-19-5958 TCGA-19-5959 
        7.00        17.19         8.02        12.10        14.07        16.80 
TCGA-26-1439 TCGA-26-1440 TCGA-26-1799 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 
       13.87         9.73         9.37        24.23        40.54        21.30 
TCGA-27-2519 TCGA-27-2523 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1749 
       18.08        16.08         2.86        14.40        15.78         9.21 
TCGA-28-1751 TCGA-28-2506 TCGA-28-2509 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 
        7.63         6.74         4.77         0.10        15.85        19.50 
TCGA-32-1980 TCGA-32-2491 TCGA-32-2495 TCGA-32-2615 TCGA-32-2632 TCGA-32-2634 
        1.18        12.23        15.02        15.95         8.84        22.78 
TCGA-32-2638 TCGA-32-4210 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2575 
       25.18         3.72        19.23         0.85        13.35         9.53 
TCGA-41-3393 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9S TCGA-74-6575 TCGA-74-6581 
        4.44        15.12        12.46         1.45        20.91         8.22 
TCGA-76-4925 TCGA-76-4929 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6664 
        4.80         3.65         4.83         5.03        23.90        36.20 
TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-5395 TCGA-CS-5397 TCGA-CS-6188 TCGA-DB-A75O 
        6.28        20.55        21.01         6.38        26.76        30.74 
TCGA-DH-A669 TCGA-DU-5852 TCGA-DU-5854 TCGA-DU-5871 TCGA-DU-6400 TCGA-DU-6406 
       30.21         6.74         8.45        18.94         1.22        16.83 
TCGA-DU-7298 TCGA-DU-8162 TCGA-DU-8165 TCGA-DU-A5TT TCGA-DU-A5TY TCGA-DU-A6S7 
       18.94        14.60        19.13        24.43        33.96        20.98 
TCGA-DU-A76K TCGA-DU-A76L TCGA-E1-5304 TCGA-E1-A7YD TCGA-E1-A7YJ TCGA-E1-A7YL 
       11.41        26.76        41.13        14.30        19.46        16.18 
TCGA-E1-A7YQ TCGA-E1-A7Z2 TCGA-FG-5962 TCGA-FG-7634 TCGA-FG-A4MU TCGA-FG-A6J3 
       51.88        13.08        47.77        15.35        10.72        22.26 
TCGA-HT-7474 TCGA-HT-7477 TCGA-HT-7860 TCGA-HT-7882 TCGA-HT-8104 TCGA-HT-A5RC 
        3.75        24.26         0.49         3.72        12.23         5.33 
TCGA-HT-A74H TCGA-HW-A5KK TCGA-QH-A6CV TCGA-QH-A6XC TCGA-S9-A6WH TCGA-S9-A6WM 
        2.43        12.76        14.53        16.70        38.56        19.86 
TCGA-TM-A7C3 TCGA-VM-A8CA TCGA-06-0209 TCGA-02-0006 TCGA-02-0015 TCGA-02-0016 
       54.77        13.51         7.63        18.35        20.61        87.06 
TCGA-02-0021 TCGA-02-0025 TCGA-02-0034 TCGA-02-0037 TCGA-02-0043 TCGA-02-0054 
       77.65        42.74        14.14         3.62        18.31         6.54 
TCGA-02-0055 TCGA-02-0057 TCGA-02-0068 TCGA-02-0074 TCGA-02-0075 TCGA-02-0083 
        2.50        19.86        26.43        10.19        20.84        22.72 
TCGA-02-0084 TCGA-02-0086 TCGA-02-0089 TCGA-02-0106 TCGA-02-0111 TCGA-02-0113 
       12.62         8.81        16.96        11.67        23.18        92.65 
TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0266 TCGA-02-0269 TCGA-02-0285 
       15.65        48.95        16.54        17.72        10.75        13.87 
TCGA-02-0289 TCGA-02-0290 TCGA-02-0333 TCGA-02-0456 TCGA-02-2466 TCGA-02-2483 
       14.20        15.95         4.37         3.35        16.80        15.32 
TCGA-06-0119 TCGA-06-0122 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 
        2.70         6.15        47.61         6.94         3.98        22.72 
TCGA-06-0130 TCGA-06-0137 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 
       12.95        26.70        17.79        10.09         8.61        19.46 
TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 TCGA-06-0157 TCGA-06-0158 TCGA-06-0164 
       46.59        12.33        13.94         3.19        10.82        56.91 
TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 
        3.29        13.12         4.47         3.22         4.04        91.00 
TCGA-06-0177 TCGA-06-0179 TCGA-06-0182 TCGA-06-0185 TCGA-06-0189 TCGA-06-0192 
        4.18        20.25         3.65        73.84        15.42        38.96 
TCGA-06-0195 TCGA-06-0197 TCGA-06-0206 TCGA-06-0211 TCGA-06-0216 TCGA-06-0237 
        7.40         5.56         7.66        11.84        24.16        13.64 
TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 TCGA-06-0410 TCGA-06-0644 TCGA-06-0645 
        9.01         0.26        72.36         4.70        12.62         5.75 
TCGA-06-0743 TCGA-06-0745 TCGA-06-0747 TCGA-06-0882 TCGA-06-1087 TCGA-06-1802 
       26.40         7.86         2.70        20.78         4.04        15.32 
TCGA-06-2557 TCGA-06-2562 TCGA-06-2563 TCGA-06-2565 TCGA-06-2569 TCGA-06-6390 
        1.08        12.56        30.64        16.64         0.43         5.39 
TCGA-08-0246 TCGA-08-0352 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0375 
        4.18         1.28        24.56        31.10        37.58        12.23 
TCGA-08-0386 TCGA-08-0510 TCGA-08-0514 TCGA-08-0516 TCGA-08-0518 TCGA-08-0529 
       18.02         4.27        11.08        19.59        19.33        18.41 
TCGA-08-0531 TCGA-12-0656 TCGA-12-0670 TCGA-12-0688 TCGA-12-0692 TCGA-12-0703 
        7.56        94.78        25.97        26.66         3.65        20.38 
TCGA-12-0707 TCGA-12-0778 TCGA-12-0780 TCGA-12-0819 TCGA-12-0820 TCGA-12-0826 
       28.41        14.93        14.86        24.79        18.48        27.78 
TCGA-12-0827 TCGA-12-0829 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-14-0787 
       38.76        20.58        15.98        12.23        15.85         2.24 
TCGA-14-0817 TCGA-14-0871 TCGA-14-1043 TCGA-15-0742 TCGA-15-1447 TCGA-15-1449 
        5.39        28.93         0.79        13.78        53.19        13.28 
TCGA-16-0846 TCGA-19-0955 TCGA-19-1386 TCGA-19-1388 TCGA-26-6173 TCGA-28-2513 
        3.91        11.77         9.07        12.95         7.92         7.30 
TCGA-28-5215 TCGA-28-5218 TCGA-28-6450 TCGA-76-6280 TCGA-76-6283 
       11.01         5.16         5.42        11.38         5.42 

$`20P GAIN WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DU-7300 
        1.48         3.98        46.88        46.72        31.82        62.01 
TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 TCGA-FG-A87N 
       17.16        23.90        20.09        17.82        20.45        18.64 
TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-5408 TCGA-06-5410 
       21.40        45.60        42.77        59.38        11.74         3.55 
TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5416 TCGA-06-5418 TCGA-06-5858 
        8.35         4.54         8.81         6.71         2.73         6.15 
TCGA-06-5859 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A6S0 
        4.57         1.55         4.77         4.96        26.79         3.12 
TCGA-06-A6S1 TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 
        2.56        17.72        15.35        21.73        15.65        25.68 
TCGA-12-3644 TCGA-12-3650 TCGA-12-3651 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 
       59.77        10.95        12.69        14.93         3.22         2.04 
TCGA-14-0736 TCGA-14-0781 TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 TCGA-14-1034 
       15.12         0.95         3.25         2.89        16.50        15.95 
TCGA-14-1396 TCGA-14-1401 TCGA-14-1450 TCGA-14-1451 TCGA-14-1454 TCGA-14-1455 
        1.12         3.75        58.78        23.11        30.18         0.92 
TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 
       40.96         6.67        12.43         0.99         1.97        17.79 
TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-3477 TCGA-14-4157 TCGA-16-0848 
        7.63         5.88         7.17         3.78         3.42        17.59 
TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1063 TCGA-16-1460 
       29.03         4.57        10.29        14.01        13.97         6.41 
TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 TCGA-19-1787 TCGA-19-1791 
        8.61        14.27         3.39        25.38        12.66         0.13 
TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 
        9.67         4.87         1.08         7.53         0.16         4.08 
TCGA-19-2629 TCGA-19-4065 TCGA-19-5947 TCGA-19-5952 TCGA-19-5953 TCGA-19-5955 
       24.23         7.04         6.64        18.90         4.73         1.78 
TCGA-19-5956 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1443 
       22.49        14.96        17.79        28.54        10.03         7.13 
TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 
        9.40         8.88        18.97        19.33         5.06        16.60 
TCGA-27-1832 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2521 
        9.86        30.05        14.04        11.51        24.76        16.77 
TCGA-27-2524 TCGA-28-1746 TCGA-28-1747 TCGA-28-1750 TCGA-28-1752 TCGA-28-1753 
        7.59         0.20         2.53         8.35         8.48         1.22 
TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-32-1970 TCGA-32-1973 
        1.55         2.83         0.13         0.66        15.39        21.07 
TCGA-32-1976 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2494 
        0.49         4.67        12.69        14.86        16.93        20.78 
TCGA-32-4208 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-41-2573 TCGA-41-3392 
       21.14        12.59        19.86        10.85         8.94         0.99 
TCGA-41-3915 TCGA-41-4097 TCGA-4W-AA9R TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6577 
       11.84         0.20         4.08        25.58         3.45         4.34 
TCGA-74-6578 TCGA-74-6584 TCGA-76-4926 TCGA-76-4928 TCGA-76-4931 TCGA-76-4934 
       14.33         7.50         4.54         3.09         9.17         2.53 
TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 
       36.85        16.70         3.29         2.70        17.06         8.35 
TCGA-76-6286 TCGA-76-6662 TCGA-76-6663 TCGA-OX-A56R TCGA-CS-4938 TCGA-CS-4941 
       20.98        34.45        18.64         5.92       117.50         7.69 
TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5396 
       43.89        36.36        60.10        40.18         0.26        53.62 
TCGA-CS-6186 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 
       17.69        37.38        46.95        48.30        49.94        49.12 
TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 
      122.73        81.96        75.25        47.93        72.92        50.86 
TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA 
       91.13        44.52        36.56        78.28        46.42        18.84 
TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH 
       30.21        39.78        37.45        33.57        72.95        31.63 
TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S 
       24.20        25.48        30.12         5.98        31.40        27.45 
TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L 
       27.81        29.23        14.40        18.51        12.10        11.24 
TCGA-DB-A75M TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 
       17.88        16.18        19.96        63.88        46.06        24.59 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5853 
       13.71        18.61        18.02        14.56        17.46        13.38 
TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 
        6.81       182.33        17.49        15.16       211.17        52.11 
TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6401 
       22.42        49.02        75.16        46.06        65.75        87.45 
TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6407 TCGA-DU-6408 
        7.04        11.64       133.74        19.89        94.52       114.08 
TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 
        7.96         2.40        11.47        62.96       156.23       154.36 
TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 
       14.99       105.21         6.54         8.84       117.40        90.77 
TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7299 
       30.67        26.30        10.36         7.96        94.32        44.02 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 
       25.91        60.30        23.31        41.98         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       23.74        20.68        21.40        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A6S2 
       33.27        29.85        31.69        26.17        24.99        25.55 
TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S8 TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 
       21.57        95.11        22.29        21.30        17.98       139.04 
TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI 
       84.33        51.52        37.38         7.50        44.42        38.89 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 
        0.56        50.14        67.46        79.99        57.93       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI 
       78.21        95.57       130.78        29.13        93.21         3.65 
TCGA-E1-A7YK TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV 
       12.43        21.30        75.02        15.32         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 
       36.82       146.14        73.48       145.05        32.35        39.48 
TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 
        0.23         0.20        25.48        52.21        36.82        18.77 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7636 TCGA-FG-7638 
       14.93        42.54        41.33        18.44        17.88        22.55 
TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 
       20.61        20.09        28.34        13.68        14.24        16.01 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MW TCGA-FG-A4MX 
       14.96        22.52        32.61        38.27        18.38        18.71 
TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A70Y 
       23.70        14.76        21.53        15.02        16.44        28.54 
TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 
       10.78        36.66        48.69         5.72        27.52         0.10 
TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 
        6.67        11.54        40.11         0.13         0.03        16.54 
TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
       17.42         6.54         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 
        0.76        44.68         6.05        42.74         0.10        31.69 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 
       14.96         0.10         0.10         2.96        17.52         6.90 
TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 
       14.53        39.48        19.23        39.09         0.23        50.63 
TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
       23.61        37.15         0.33         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 
       35.47        11.28        31.43         1.64        16.24         9.40 
TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8105 TCGA-HT-8106 
       63.55         0.10        37.87        33.01         6.25         0.10 
TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 
        0.46         2.50         5.56        13.78         0.23        29.59 
TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 
       34.19        28.27        15.72         0.23        26.04         0.13 
TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A614 TCGA-HT-A615 
       20.22         0.07        27.35         0.10         2.70        16.93 
TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74J 
        1.81        16.14        16.83        17.52        17.65        10.52 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 
       15.35        11.05         0.10        56.58        45.44        41.49 
TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       68.32        69.27        35.44        39.75        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X 
       24.92        31.63        28.87        20.71        19.00        14.40 
TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ 
       14.40         0.23         6.71         7.99         2.37         2.30 
TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U 
        9.44         5.88         7.96         7.59         1.28         0.23 
TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 
       10.42        13.25        11.64        10.95         9.01        13.61 
TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 
        9.60         7.56        12.23        19.20         3.45         2.37 
TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z 
        4.41        15.16         2.53        12.62        15.85        14.04 
TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ 
       19.33        14.83        13.61        12.23        13.41         9.17 
TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA 
       10.29        14.53        16.34        16.73         1.91        16.50 
TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X 
       11.08        12.99        88.83        94.03        32.65        30.87 
TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
        5.46         9.90        28.08         2.07        19.59        30.67 
TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY 
       62.17        87.12        18.77        41.10        40.93        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       36.82        24.39        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE 
       98.24        95.93         5.85       123.65        75.25       135.22 
TCGA-S9-A6WG TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP 
       85.55        84.99        31.10        26.47        18.61        18.64 
TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ 
       14.07        36.13         7.92        26.93        23.51        19.99 
TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX 
       20.02         8.19         2.04        20.68        15.06        18.54 
TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 
       28.37        27.16       169.84        10.39        99.06        30.05 
TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C4 TCGA-TM-A7C5 
       98.63        31.59        18.71        20.48        48.33        49.32 
TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G 
       34.78        65.39        24.92        16.18        59.05        40.64 
TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O 
       30.44        28.08        24.16        40.83        24.79        33.24 
TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG 
       25.38        18.61        14.93        23.80        21.37        19.69 
TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN 
       15.98         2.04        40.41        44.09        36.69        33.73 
TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV 
       31.20        30.05        26.14        25.87        33.93        61.41 
TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CB TCGA-VM-A8CD 
       26.99        31.36        45.93        43.20         0.10         7.89 
TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS 
       39.16        20.02        23.47        37.05        16.01        23.21 
TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A 
        8.05        51.06        13.32        43.96        39.88        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-02-0001 TCGA-02-0003 
       45.80        46.88        37.71        20.81        11.77         4.73 
TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0023 
       23.18        10.59        35.41        20.71        82.59        20.12 
TCGA-02-0024 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 TCGA-02-0038 
       53.10        24.59        12.16        90.58         2.83        10.72 
TCGA-02-0039 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 
       10.52         6.87        14.73         3.22        15.09        12.59 
TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0069 TCGA-02-0070 
        8.35         9.57         6.02        19.73        28.70        25.05 
TCGA-02-0071 TCGA-02-0079 TCGA-02-0080 TCGA-02-0085 TCGA-02-0087 TCGA-02-0099 
        5.49        27.25        89.72        51.32        57.76         3.48 
TCGA-02-0102 TCGA-02-0104 TCGA-02-0107 TCGA-02-0114 TCGA-02-0260 TCGA-02-0271 
       27.02        65.00        17.65        99.98        16.93        14.47 
TCGA-02-0281 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 
        3.98        12.23         9.90         7.73        10.62         7.33 
TCGA-02-0330 TCGA-02-0332 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 
       15.91        25.71        25.12        10.59        12.39        14.50 
TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-2470 
       10.55        47.11        11.34         9.27        16.21        12.92 
TCGA-02-2485 TCGA-02-2486 TCGA-06-0124 TCGA-06-0129 TCGA-06-0132 TCGA-06-0133 
       15.45        20.32        20.38        33.67        25.35        14.30 
TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 
       24.23        11.90         0.20        10.29         2.20        11.74 
TCGA-06-0145 TCGA-06-0146 TCGA-06-0155 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 
        2.33        20.09        10.45         9.44        11.80         3.42 
TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0178 TCGA-06-0184 TCGA-06-0187 
       10.65         5.85        19.66        88.14        69.90        27.22 
TCGA-06-0188 TCGA-06-0190 TCGA-06-0194 TCGA-06-0201 TCGA-06-0208 TCGA-06-0210 
       44.58        10.42         4.67         0.39         8.42         7.40 
TCGA-06-0213 TCGA-06-0214 TCGA-06-0219 TCGA-06-0221 TCGA-06-0238 TCGA-06-0240 
        0.53        15.02         0.72        19.82        13.32        20.42 
TCGA-06-0241 TCGA-06-0394 TCGA-06-0412 TCGA-06-0413 TCGA-06-0414 TCGA-06-0646 
       48.69        10.82         9.57         3.16        35.11         5.75 
TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 TCGA-06-0744 TCGA-06-0749 
        9.80         2.10        23.57        14.20        46.88         2.70 
TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 
        0.92        43.46        46.19         7.17        40.41        16.57 
TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1800 TCGA-06-1801 TCGA-06-1804 
       26.76        23.93         6.84        26.79        11.84        13.61 
TCGA-06-1805 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2564 TCGA-06-2566 
       33.90        12.49         4.93        17.65         5.95         5.98 
TCGA-06-2567 TCGA-06-2570 TCGA-06-6389 TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 
        4.37        31.50         7.79       120.56         7.36        22.68 
TCGA-08-0245 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 
       37.84       115.86         1.74         8.42        25.71        12.16 
TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0353 TCGA-08-0354 TCGA-08-0358 
        9.80        29.23        65.33         8.42        17.95        22.29 
TCGA-08-0359 TCGA-08-0380 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 
        3.39        14.93        15.35        13.97         0.72        12.56 
TCGA-08-0512 TCGA-08-0517 TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 
       42.15        58.68        10.75         4.80         7.27        15.98 
TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 TCGA-12-0657 
       14.73        12.99        34.92        10.45         7.59         0.10 
TCGA-12-0662 TCGA-12-0691 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 
       38.17        12.13        15.06        53.85        43.23         7.63 
TCGA-12-0776 TCGA-12-0818 TCGA-12-0821 TCGA-12-0822 TCGA-12-0828 TCGA-12-1088 
        9.73        91.76        10.62        23.51         8.94       127.59 
TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 
        5.82         7.59        33.21         9.11        14.53         3.98 
TCGA-12-1099 TCGA-14-0789 TCGA-14-0813 TCGA-14-0867 TCGA-14-1037 TCGA-15-1444 
        4.14        11.24         1.35         2.04        19.30        50.53 
TCGA-15-1446 TCGA-16-0849 TCGA-16-0850 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 
       19.10        26.07        16.37        21.90         0.66        10.75 
TCGA-19-1387 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 
        5.95         4.64        31.33        14.86         5.49         1.58 
TCGA-26-6174 TCGA-28-2514 TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 
        2.33         5.26        14.93        11.28        17.88        14.53 
TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5216 TCGA-28-5219 TCGA-28-5220 
       11.77        31.27        23.44        13.64        22.68        12.76 
TCGA-32-2616 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        7.36         3.75         1.61        17.72        26.30 

  20P GAIN MUTATED 20P GAIN WILD-TYPE 
              0.10               0.03 
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
             94.78             211.17 
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
             13.87              17.29 
[1] "0.1 - 94.8 (13.9)"  "0.0 - 211.2 (17.3)"
[1] "hr=" "2.5"
D36V2, continuous
D36V3, binary
                    cls
clus                   0   1
  20P GAIN MUTATED   221  44
  20P GAIN WILD-TYPE 352 468
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20P GAIN MUTATED    221   44
  20P GAIN WILD-TYPE  352  468
                        clus
vv                       20P GAIN MUTATED 20P GAIN WILD-TYPE
  BRAIN                               221                352
  CENTRAL NERVOUS SYSTEM               44                468
[1] 2 2
[1] FALSE
D36V4, binary
                    cls
clus                   0   1
  20P GAIN MUTATED   114 151
  20P GAIN WILD-TYPE 339 481
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20P GAIN MUTATED    114  151
  20P GAIN WILD-TYPE  339  481
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  FEMALE              114                339
  MALE                151                481
[1] 2 2
[1] FALSE
D36V5, binary
                    cls
clus                   0   1
  20P GAIN MUTATED    38 211
  20P GAIN WILD-TYPE 220 559
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20P GAIN MUTATED     38  211
  20P GAIN WILD-TYPE  220  559
     clus
vv    20P GAIN MUTATED 20P GAIN WILD-TYPE
  NO                38                220
  YES              211                559
[1] 2 2
[1] FALSE
D36V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  20P GAIN MUTATED            23                            10                8
  20P GAIN WILD-TYPE         171                            20              121
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  20P GAIN MUTATED                  13                   9
  20P GAIN WILD-TYPE               176                   9
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  20P GAIN MUTATED                               202
  20P GAIN WILD-TYPE                             323
D36V7, multiclass
                                 clus
vv                                20P GAIN MUTATED 20P GAIN WILD-TYPE
  ASTROCYTOMA                                   23                171
  GLIOBLASTOMA MULTIFORME (GBM)                 10                 20
  OLIGOASTROCYTOMA                               8                121
  OLIGODENDROGLIOMA                             13                176
  TREATED PRIMARY GBM                            9                  9
  UNTREATED PRIMARY (DE NOVO) GBM              202                323
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  20P GAIN MUTATED                                  0    10
  20P GAIN WILD-TYPE                                1    11
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  20P GAIN MUTATED                          18   231
  20P GAIN WILD-TYPE                        53   728
D36V8, multiclass
                                  clus
vv                                 20P GAIN MUTATED 20P GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                          10                 11
  BLACK OR AFRICAN AMERICAN                      18                 53
  WHITE                                         231                728
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D36V9, binary
                    cls
clus                   0   1
  20P GAIN MUTATED     6 230
  20P GAIN WILD-TYPE  38 691
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20P GAIN MUTATED      6  230
  20P GAIN WILD-TYPE   38  691
                        clus
vv                       20P GAIN MUTATED 20P GAIN WILD-TYPE
  HISPANIC OR LATINO                    6                 38
  NOT HISPANIC OR LATINO              230                691
[1] 2 2
[1] FALSE

Clustering(37) Variable = 20Q GAIN MUTATION ANALYSIS
D37V1, survival
                    sevent
clus2                  0   1
  20Q GAIN MUTATED    50 211
  20Q GAIN WILD-TYPE 430 387
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
               261                817 
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
               211                387 
$`20Q GAIN MUTATED`
TCGA-CS-6665 TCGA-06-1806 TCGA-06-5414 TCGA-06-5415 TCGA-06-5856 TCGA-06-6388 
       51.55        15.32         8.98         8.55         3.75         5.23 
TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-A5U1 TCGA-06-A7TK TCGA-12-1600 
        8.32        12.85         4.77         1.87        14.60        14.73 
TCGA-12-1602 TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3652 TCGA-12-3653 
        6.77        44.02        26.93        15.22        34.92        14.53 
TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0866 TCGA-14-1395 TCGA-14-1402 
        6.21        23.05        13.78        26.33         1.38        32.05 
TCGA-14-1452 TCGA-14-1823 TCGA-14-2554 TCGA-14-2555 TCGA-16-1060 TCGA-19-0960 
        7.10        17.85        17.49         7.96         9.14         8.61 
TCGA-19-1392 TCGA-19-1786 TCGA-19-1789 TCGA-19-2631 TCGA-19-5950 TCGA-19-5951 
        3.65         7.17         3.25         7.00        17.19         8.02 
TCGA-19-5954 TCGA-19-5958 TCGA-19-5959 TCGA-26-1439 TCGA-26-1440 TCGA-26-1799 
       12.10        14.07        16.80        13.87         9.73         9.37 
TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 
       24.23        40.54        21.30        18.08        16.77        16.08 
TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1749 TCGA-28-1751 TCGA-28-2506 
        2.86        14.40        15.78         9.21         7.63         6.74 
TCGA-28-2509 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-2491 
        4.77         0.10        15.85        19.50         1.18        12.23 
TCGA-32-2495 TCGA-32-2615 TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 TCGA-32-5222 
       15.02        15.95         8.84        22.78        25.18        19.23 
TCGA-41-2571 TCGA-41-2572 TCGA-41-2575 TCGA-41-3393 TCGA-41-5651 TCGA-41-6646 
        0.85        13.35         9.53         4.44        15.12        12.46 
TCGA-4W-AA9S TCGA-74-6575 TCGA-74-6581 TCGA-76-4925 TCGA-76-4929 TCGA-76-6656 
        1.45        20.91         8.22         4.80         3.65         4.83 
TCGA-76-6657 TCGA-76-6661 TCGA-76-6664 TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 
        5.03        23.90        36.20         6.28        20.55       117.50 
TCGA-CS-5395 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-DH-A669 TCGA-DU-5852 
       21.01         6.38        17.69        26.76        30.21         6.74 
TCGA-DU-5854 TCGA-DU-6400 TCGA-DU-6406 TCGA-DU-8162 TCGA-DU-8165 TCGA-DU-A5TT 
        8.45         1.22        16.83        14.60        19.13        24.43 
TCGA-DU-A5TY TCGA-DU-A6S7 TCGA-DU-A76K TCGA-DU-A76L TCGA-E1-5304 TCGA-E1-A7YD 
       33.96        20.98        11.41        26.76        41.13        14.30 
TCGA-E1-A7YJ TCGA-E1-A7YL TCGA-E1-A7YQ TCGA-E1-A7Z2 TCGA-FG-5962 TCGA-FG-7634 
       19.46        16.18        51.88        13.08        47.77        15.35 
TCGA-FG-A4MU TCGA-FG-A6J3 TCGA-HT-7477 TCGA-HT-7693 TCGA-HT-7860 TCGA-HT-7882 
       10.72        22.26        24.26        17.52         0.49         3.72 
TCGA-HT-8104 TCGA-HT-8563 TCGA-HT-A5RC TCGA-HT-A74H TCGA-HW-A5KK TCGA-QH-A6CV 
       12.23        28.27         5.33         2.43        12.76        14.53 
TCGA-QH-A6XC TCGA-S9-A6WH TCGA-S9-A6WM TCGA-TM-A7C3 TCGA-VM-A8CA TCGA-06-0209 
       16.70        38.56        19.86        54.77        13.51         7.63 
TCGA-02-0006 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0025 TCGA-02-0034 
       18.35        20.61        87.06        77.65        42.74        14.14 
TCGA-02-0037 TCGA-02-0038 TCGA-02-0043 TCGA-02-0054 TCGA-02-0055 TCGA-02-0057 
        3.62        10.72        18.31         6.54         2.50        19.86 
TCGA-02-0068 TCGA-02-0069 TCGA-02-0074 TCGA-02-0075 TCGA-02-0079 TCGA-02-0083 
       26.43        28.70        10.19        20.84        27.25        22.72 
TCGA-02-0084 TCGA-02-0086 TCGA-02-0089 TCGA-02-0106 TCGA-02-0111 TCGA-02-0113 
       12.62         8.81        16.96        11.67        23.18        92.65 
TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0266 TCGA-02-0269 TCGA-02-0285 
       15.65        48.95        16.54        17.72        10.75        13.87 
TCGA-02-0289 TCGA-02-0333 TCGA-02-0456 TCGA-02-2466 TCGA-06-0119 TCGA-06-0122 
       14.20         4.37         3.35        16.80         2.70         6.15 
TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0130 TCGA-06-0137 
       47.61         6.94         3.98        22.72        12.95        26.70 
TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 TCGA-06-0152 
       17.79        10.09         8.61        19.46        46.59        12.33 
TCGA-06-0154 TCGA-06-0157 TCGA-06-0158 TCGA-06-0164 TCGA-06-0169 TCGA-06-0171 
       13.94         3.19        10.82        56.91         3.29        13.12 
TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 TCGA-06-0179 
        4.47         3.22         4.04        91.00         4.18        20.25 
TCGA-06-0182 TCGA-06-0185 TCGA-06-0189 TCGA-06-0192 TCGA-06-0195 TCGA-06-0197 
        3.65        73.84        15.42        38.96         7.40         5.56 
TCGA-06-0206 TCGA-06-0211 TCGA-06-0216 TCGA-06-0237 TCGA-06-0394 TCGA-06-0397 
        7.66        11.84        24.16        13.64        10.82         9.01 
TCGA-06-0402 TCGA-06-0409 TCGA-06-0410 TCGA-06-0644 TCGA-06-0645 TCGA-06-0743 
        0.26        72.36         4.70        12.62         5.75        26.40 
TCGA-06-0745 TCGA-06-0747 TCGA-06-0879 TCGA-06-0882 TCGA-06-1087 TCGA-06-1802 
        7.86         2.70        40.41        20.78         4.04        15.32 
TCGA-06-2557 TCGA-06-2562 TCGA-06-2563 TCGA-06-2565 TCGA-06-2569 TCGA-06-6390 
        1.08        12.56        30.64        16.64         0.43         5.39 
TCGA-08-0246 TCGA-08-0352 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0375 
        4.18         1.28        24.56        31.10        37.58        12.23 
TCGA-08-0386 TCGA-08-0510 TCGA-08-0514 TCGA-08-0516 TCGA-08-0518 TCGA-08-0529 
       18.02         4.27        11.08        19.59        19.33        18.41 
TCGA-08-0531 TCGA-12-0656 TCGA-12-0670 TCGA-12-0688 TCGA-12-0692 TCGA-12-0703 
        7.56        94.78        25.97        26.66         3.65        20.38 
TCGA-12-0707 TCGA-12-0780 TCGA-12-0819 TCGA-12-0820 TCGA-12-0826 TCGA-12-0829 
       28.41        14.86        24.79        18.48        27.78        20.58 
TCGA-12-1093 TCGA-12-1094 TCGA-14-0787 TCGA-14-0817 TCGA-14-0871 TCGA-14-1043 
       15.98        12.23         2.24         5.39        28.93         0.79 
TCGA-15-0742 TCGA-15-1447 TCGA-15-1449 TCGA-16-0846 TCGA-19-0955 TCGA-19-1386 
       13.78        53.19        13.28         3.91        11.77         9.07 
TCGA-19-1388 TCGA-26-6173 TCGA-28-2513 TCGA-28-5214 TCGA-28-5215 TCGA-28-5218 
       12.95         7.92         7.30        23.44        11.01         5.16 
TCGA-28-6450 TCGA-76-6280 TCGA-76-6283 
        5.42        11.38         5.42 

$`20Q GAIN WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        1.48         3.98        46.88        46.72        31.82        42.05 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       62.01        17.16        23.90        20.09        17.82        20.45 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-5408 
       18.64        21.40        45.60        42.77        59.38        11.74 
TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5416 TCGA-06-5418 
        3.55         8.35         4.54         8.81         6.71         2.73 
TCGA-06-5858 TCGA-06-5859 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 
        6.15         4.57         1.55         4.77         4.96        26.79 
TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 
        3.12         2.56        17.72        15.35        21.73        15.65 
TCGA-12-1599 TCGA-12-3644 TCGA-12-3650 TCGA-12-3651 TCGA-12-5295 TCGA-12-5299 
       25.68        59.77        10.95        12.69        14.93         3.22 
TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0812 TCGA-14-0862 
        2.04        15.12        11.97         0.95         3.25         2.89 
TCGA-14-0865 TCGA-14-1034 TCGA-14-1396 TCGA-14-1401 TCGA-14-1450 TCGA-14-1451 
       16.50        15.95         1.12         3.75        58.78        23.11 
TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 
        1.15        30.18         0.92        40.96         6.67        12.43 
TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 
        0.99         1.97        17.79         7.63         5.88         7.17 
TCGA-14-3477 TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 
        3.78         3.42        17.59        29.03         4.57        10.29 
TCGA-16-1056 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0963 TCGA-19-0964 
       14.01        21.24        13.97         6.41        14.27         3.39 
TCGA-19-1390 TCGA-19-1787 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 
       25.38        12.66         0.13         9.67         4.87         1.08 
TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 TCGA-19-4065 TCGA-19-5947 
        7.53         0.16         4.08        24.23         7.04         6.64 
TCGA-19-5952 TCGA-19-5953 TCGA-19-5955 TCGA-19-5956 TCGA-19-5960 TCGA-19-A60I 
       18.90         4.73         1.78        22.49        14.96        17.79 
TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1443 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 
       28.54        10.03         7.13         9.40         8.88        18.97 
TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1836 TCGA-27-1837 
       19.33         5.06        16.60         9.86        30.05        14.04 
TCGA-27-1838 TCGA-27-2518 TCGA-27-2524 TCGA-28-1746 TCGA-28-1747 TCGA-28-1750 
       11.51        24.76         7.59         0.20         2.53         8.35 
TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 
        8.48         1.22         1.55         2.83         0.13         0.66 
TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 
       15.39        21.07         0.49         4.67        12.69        14.86 
TCGA-32-1991 TCGA-32-2494 TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 
       16.93        20.78        21.14         3.72        12.59        19.86 
TCGA-32-4719 TCGA-41-2573 TCGA-41-3392 TCGA-41-3915 TCGA-41-4097 TCGA-4W-AA9R 
       10.85         8.94         0.99        11.84         0.20         4.08 
TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6577 TCGA-74-6578 TCGA-74-6584 TCGA-76-4926 
       25.58         3.45         4.34        14.33         7.50         4.54 
TCGA-76-4928 TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 
        3.09         9.17         2.53        36.85        16.70         3.29 
TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6662 TCGA-76-6663 
        2.70        17.06         8.35        20.98        34.45        18.64 
TCGA-OX-A56R TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 
        5.92         7.69        43.89        36.36        60.10        40.18 
TCGA-CS-5394 TCGA-CS-5396 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
        0.26        53.62        37.38        46.95        48.30        49.94 
TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 
       49.12       122.73        81.96        75.25        47.93        72.92 
TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       50.86        91.13        44.52        36.56        78.28        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG 
       18.84        30.21        39.78        37.45        33.57        72.95 
TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R 
       31.63        24.20        25.48        30.12         5.98        31.40 
TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K 
       27.45        27.81        29.23        14.40        18.51        12.10 
TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 
       11.24        17.88        30.74        16.18        19.96        63.88 
TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR 
       46.06        24.59        27.81        17.19        17.19        54.25 
TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 
       23.21        17.46        13.71        18.61        18.02        14.56 
TCGA-DU-5851 TCGA-DU-5853 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       17.46        13.38         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       15.16       211.17        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       46.06        65.75        87.45         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 
       19.89        94.52       114.08         7.96         2.40        11.47 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 
       62.96       156.23       154.36        14.99       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        8.84       117.40        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 
        7.96        94.32        18.94        44.02        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8163 
       23.31        41.98         2.76         5.10        23.74        20.68 
TCGA-DU-8164 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR 
       21.40        16.96        15.48        14.17        33.27        29.85 
TCGA-DU-A5TS TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       31.69        26.17        24.99        25.55        21.57        95.11 
TCGA-DU-A6S8 TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB 
       22.29        21.30        17.98       139.04        84.33        51.52 
TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 
       37.38         7.50        44.42        38.89         0.56        50.14 
TCGA-E1-5303 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 
       67.46        79.99        57.93       134.27        78.21        95.57 
TCGA-E1-5322 TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YK TCGA-E1-A7YM 
      130.78        29.13        93.21         3.65        12.43        21.30 
TCGA-E1-A7YO TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY 
       75.02        15.32         0.76        32.45        36.82       146.14 
TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 
       73.48       145.05        32.35        39.48         0.23         0.20 
TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 
       25.48        52.21        36.82        18.77        14.93        42.54 
TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       41.33        18.44        17.88        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 
       28.34        13.68        14.24        16.01        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J 
       32.61        38.27        18.38        18.71        23.70        14.76 
TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 
       21.53        15.02        16.44        28.54        10.78        36.66 
TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 
       48.69         5.72        27.52         0.10         6.67        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 
        6.54         6.38        40.34        75.19        95.93       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
        4.57        17.29         3.16        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       57.60         0.23        14.27         0.16        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 
       44.68         6.05        42.74         0.10        31.69        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 
        0.10         0.10         2.96         6.90        14.53        39.48 
TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7873 TCGA-HT-7874 
       19.23        39.09         0.23        50.63        23.61        37.15 
TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7884 
        0.33         0.13         3.68         5.33        35.47        11.28 
TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 
       31.43         1.64        16.24         9.40        63.55         0.10 
TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 
       37.87        33.01         6.25         0.10         0.46         2.50 
TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8564 
        5.56        13.78         0.23        29.59        34.19        15.72 
TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA 
        0.23        26.04         0.13        20.22         0.07        27.35 
TCGA-HT-A5RB TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 
        0.10         2.70        16.93         1.81        16.14        16.83 
TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O 
       17.52        17.65        10.52        15.35        11.05         0.10 
TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 
       56.58        45.44        41.49        68.32        69.27        35.44 
TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KL 
       39.75        40.01        42.54        24.92        31.63        28.87 
TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW 
       20.71        19.00        14.40        14.40         0.23         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        7.99         2.37         2.30         9.44         5.88         7.96 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        7.59         1.28         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       19.20         3.45         2.37         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CW 
       12.62        15.85        14.04        19.33        14.83        13.61 
TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 
       12.23        13.41         9.17        10.29        14.53        16.34 
TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
       16.73         1.91        16.50        11.08        12.99        88.83 
TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 
       94.03        32.65        30.87         5.46         9.90        28.08 
TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV 
        2.07        19.59        30.67        62.17        87.12        18.77 
TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 
       41.10        40.93        35.38        36.82        24.39        25.81 
TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA 
       29.85        32.61        35.15        98.24        95.93         5.85 
TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WI TCGA-S9-A6WL 
      123.65        75.25       135.22        85.55        84.99        31.10 
TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS 
       26.47        18.61        18.64        14.07        36.13         7.92 
TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 
       26.93        23.51        19.99        20.02         8.19         2.04 
TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 
       20.68        15.06        18.54        28.37        27.16       169.84 
TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V 
       10.39        99.06        30.05        98.63        31.59        18.71 
TCGA-S9-A89Z TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B 
       20.48        48.33        49.32        34.78        65.39        24.92 
TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J 
       16.18        59.05        40.64        30.44        28.08        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ 
       23.80        21.37        19.69        15.98         2.04        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ 
       44.09        36.69        33.73        31.20        30.05        26.14 
TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 
       25.87        33.93        61.41        26.99        31.36        45.93 
TCGA-VM-A8C9 TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH 
       43.20         0.10         7.89        39.16        20.02        23.47 
TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K 
       37.05        16.01        23.21         8.05        51.06        13.32 
TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D 
       43.96        39.88        43.40        45.80        46.88        37.71 
TCGA-WY-A85E TCGA-02-0001 TCGA-02-0003 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 
       20.81        11.77         4.73        23.18        10.59        35.41 
TCGA-02-0011 TCGA-02-0014 TCGA-02-0023 TCGA-02-0024 TCGA-02-0026 TCGA-02-0027 
       20.71        82.59        20.12        53.10        24.59        12.16 
TCGA-02-0028 TCGA-02-0033 TCGA-02-0039 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 
       90.58         2.83        10.52         6.87        14.73         3.22 
TCGA-02-0051 TCGA-02-0052 TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 
       15.09        12.59         8.35         9.57         6.02        19.73 
TCGA-02-0070 TCGA-02-0071 TCGA-02-0080 TCGA-02-0085 TCGA-02-0087 TCGA-02-0099 
       25.05         5.49        89.72        51.32        57.76         3.48 
TCGA-02-0102 TCGA-02-0104 TCGA-02-0107 TCGA-02-0114 TCGA-02-0260 TCGA-02-0271 
       27.02        65.00        17.65        99.98        16.93        14.47 
TCGA-02-0281 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 
        3.98        15.95        12.23         9.90         7.73        10.62 
TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 
        7.33        15.91        25.71        25.12        10.59        12.39 
TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 
       14.50        10.55        47.11        11.34         9.27        16.21 
TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0124 TCGA-06-0129 
       12.92        15.32        15.45        20.32        20.38        33.67 
TCGA-06-0132 TCGA-06-0133 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 
       25.35        14.30        24.23        11.90         0.20        10.29 
TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0155 TCGA-06-0159 
        2.20        11.74         2.33        20.09        10.45         9.44 
TCGA-06-0160 TCGA-06-0162 TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0178 
       11.80         3.42        10.65         5.85        19.66        88.14 
TCGA-06-0184 TCGA-06-0187 TCGA-06-0188 TCGA-06-0190 TCGA-06-0194 TCGA-06-0201 
       69.90        27.22        44.58        10.42         4.67         0.39 
TCGA-06-0208 TCGA-06-0210 TCGA-06-0213 TCGA-06-0214 TCGA-06-0219 TCGA-06-0221 
        8.42         7.40         0.53        15.02         0.72        19.82 
TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0412 TCGA-06-0413 TCGA-06-0414 
       13.32        20.42        48.69         9.57         3.16        35.11 
TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 TCGA-06-0744 
        5.75         9.80         2.10        23.57        14.20        46.88 
TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0881 
        2.70         0.92        43.46        46.19         7.17        16.57 
TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1800 TCGA-06-1801 TCGA-06-1804 
       26.76        23.93         6.84        26.79        11.84        13.61 
TCGA-06-1805 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2564 TCGA-06-2566 
       33.90        12.49         4.93        17.65         5.95         5.98 
TCGA-06-2567 TCGA-06-2570 TCGA-06-6389 TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 
        4.37        31.50         7.79       120.56         7.36        22.68 
TCGA-08-0245 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 
       37.84       115.86         1.74         8.42        25.71        12.16 
TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0353 TCGA-08-0354 TCGA-08-0358 
        9.80        29.23        65.33         8.42        17.95        22.29 
TCGA-08-0359 TCGA-08-0380 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 
        3.39        14.93        15.35        13.97         0.72        12.56 
TCGA-08-0512 TCGA-08-0517 TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 
       42.15        58.68        10.75         4.80         7.27        15.98 
TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 TCGA-12-0657 
       14.73        12.99        34.92        10.45         7.59         0.10 
TCGA-12-0662 TCGA-12-0691 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 
       38.17        12.13        15.06        53.85        43.23         7.63 
TCGA-12-0776 TCGA-12-0778 TCGA-12-0818 TCGA-12-0821 TCGA-12-0822 TCGA-12-0827 
        9.73        14.93        91.76        10.62        23.51        38.76 
TCGA-12-0828 TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1095 
        8.94       127.59         5.82         7.59        33.21        15.85 
TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 TCGA-14-0789 TCGA-14-0813 
        9.11        14.53         3.98         4.14        11.24         1.35 
TCGA-14-0867 TCGA-14-1037 TCGA-15-1444 TCGA-15-1446 TCGA-16-0849 TCGA-16-0850 
        2.04        19.30        50.53        19.10        26.07        16.37 
TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1387 TCGA-19-1389 TCGA-26-1442 
       21.90         0.66        10.75         5.95         4.64        31.33 
TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6174 TCGA-28-2514 TCGA-28-5204 
       14.86         5.49         1.58         2.33         5.26        14.93 
TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5216 
       11.28        17.88        14.53        11.77        31.27        13.64 
TCGA-28-5219 TCGA-28-5220 TCGA-32-2616 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 
       22.68        12.76         7.36         3.75         1.61        17.72 
TCGA-87-5896 
       26.30 

  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
              0.10               0.03 
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
            117.50             211.17 
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
             13.87              17.16 
[1] "0.1 - 117.5 (13.9)" "0.0 - 211.2 (17.2)"
[1] "hr=" "2.4"
D37V2, continuous
D37V3, binary
                    cls
clus                   0   1
  20Q GAIN MUTATED   219  43
  20Q GAIN WILD-TYPE 354 469
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20Q GAIN MUTATED    219   43
  20Q GAIN WILD-TYPE  354  469
                        clus
vv                       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  BRAIN                               219                354
  CENTRAL NERVOUS SYSTEM               43                469
[1] 2 2
[1] FALSE
D37V4, binary
                    cls
clus                   0   1
  20Q GAIN MUTATED   115 147
  20Q GAIN WILD-TYPE 338 485
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20Q GAIN MUTATED    115  147
  20Q GAIN WILD-TYPE  338  485
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  FEMALE              115                338
  MALE                147                485
[1] 2 2
[1] FALSE
D37V5, binary
                    cls
clus                   0   1
  20Q GAIN MUTATED    37 211
  20Q GAIN WILD-TYPE 221 559
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20Q GAIN MUTATED     37  211
  20Q GAIN WILD-TYPE  221  559
     clus
vv    20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  NO                37                221
  YES              211                559
[1] 2 2
[1] FALSE
D37V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  20Q GAIN MUTATED            22                            10                7
  20Q GAIN WILD-TYPE         172                            20              122
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  20Q GAIN MUTATED                  14                   9
  20Q GAIN WILD-TYPE               175                   9
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  20Q GAIN MUTATED                               200
  20Q GAIN WILD-TYPE                             325
D37V7, multiclass
                                 clus
vv                                20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  ASTROCYTOMA                                   22                172
  GLIOBLASTOMA MULTIFORME (GBM)                 10                 20
  OLIGOASTROCYTOMA                               7                122
  OLIGODENDROGLIOMA                             14                175
  TREATED PRIMARY GBM                            9                  9
  UNTREATED PRIMARY (DE NOVO) GBM              200                325
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  20Q GAIN MUTATED                                  0    10
  20Q GAIN WILD-TYPE                                1    11
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  20Q GAIN MUTATED                          18   228
  20Q GAIN WILD-TYPE                        53   731
D37V8, multiclass
                                  clus
vv                                 20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                          10                 11
  BLACK OR AFRICAN AMERICAN                      18                 53
  WHITE                                         228                731
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D37V9, binary
                    cls
clus                   0   1
  20Q GAIN MUTATED     6 229
  20Q GAIN WILD-TYPE  38 692
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20Q GAIN MUTATED      6  229
  20Q GAIN WILD-TYPE   38  692
                        clus
vv                       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  HISPANIC OR LATINO                    6                 38
  NOT HISPANIC OR LATINO              229                692
[1] 2 2
[1] FALSE

Clustering(38) Variable = 21Q GAIN MUTATION ANALYSIS
D38V1, survival
                    sevent
clus2                  0   1
  21Q GAIN MUTATED    23  65
  21Q GAIN WILD-TYPE 457 533
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                88                990 
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                65                533 
$`21Q GAIN MUTATED`
TCGA-19-A6J4 TCGA-06-1806 TCGA-06-5415 TCGA-06-6698 TCGA-12-1602 TCGA-12-3646 
        3.98        15.32         8.55         4.77         6.77        44.02 
TCGA-14-1034 TCGA-14-1454 TCGA-19-1392 TCGA-19-1787 TCGA-27-1832 TCGA-27-2526 
       15.95        30.18         3.65        12.66         9.86         2.86 
TCGA-27-2527 TCGA-28-2506 TCGA-28-2509 TCGA-32-2615 TCGA-32-2632 TCGA-41-2575 
       14.40         6.74         4.77        15.95         8.84         9.53 
TCGA-41-3915 TCGA-4W-AA9S TCGA-DB-5277 TCGA-DB-A64W TCGA-DU-6392 TCGA-DU-6393 
       11.84         1.45        50.86        14.40       211.17        52.11 
TCGA-DU-6400 TCGA-DU-6407 TCGA-DU-8158 TCGA-DU-A5TT TCGA-DU-A5TY TCGA-DU-A6S7 
        1.22        94.52         5.10        24.43        33.96        20.98 
TCGA-DU-A76K TCGA-E1-5304 TCGA-E1-A7YQ TCGA-FG-5962 TCGA-FG-7634 TCGA-HT-7605 
       11.41        41.13        51.88        47.77        15.35         4.57 
TCGA-HT-A5RA TCGA-HT-A74H TCGA-HT-A74L TCGA-QH-A6CV TCGA-QH-A6X9 TCGA-S9-A6WH 
       27.35         2.43        11.05        14.53         1.91        38.56 
TCGA-S9-A6WL TCGA-TM-A84H TCGA-02-0001 TCGA-02-0006 TCGA-02-0025 TCGA-02-0055 
       31.10        30.44        11.77        18.35        42.74         2.50 
TCGA-02-0069 TCGA-02-0075 TCGA-02-0079 TCGA-02-0113 TCGA-02-0337 TCGA-06-0130 
       28.70        20.84        27.25        92.65        25.12        12.95 
TCGA-06-0140 TCGA-06-0149 TCGA-06-0151 TCGA-06-0159 TCGA-06-0164 TCGA-06-0168 
        0.20         8.61        46.59         9.44        56.91        19.66 
TCGA-06-0176 TCGA-06-0177 TCGA-06-0188 TCGA-06-0189 TCGA-06-0197 TCGA-06-0216 
       91.00         4.18        44.58        15.42         5.56        24.16 
TCGA-06-0237 TCGA-06-0644 TCGA-06-0743 TCGA-06-1084 TCGA-06-1086 TCGA-06-1087 
       13.64        12.62        26.40        23.93         6.84         4.04 
TCGA-06-2565 TCGA-06-2567 TCGA-08-0246 TCGA-08-0386 TCGA-08-0510 TCGA-12-0619 
       16.64         4.37         4.18        18.02         4.27        34.92 
TCGA-12-0822 TCGA-12-1095 TCGA-14-0871 TCGA-16-0846 TCGA-19-1388 TCGA-28-5207 
       23.51        15.85        28.93         3.91        12.95        11.28 
TCGA-28-5215 TCGA-28-5216 TCGA-28-5218 TCGA-76-6283 
       11.01        13.64         5.16         5.42 

$`21Q GAIN WILD-TYPE`
TCGA-06-6391 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        1.48        51.55        46.88        46.72        31.82        42.05 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       62.01        17.16        23.90        20.09        17.82        20.45 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-5408 
       18.64        21.40        45.60        42.77        59.38        11.74 
TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 TCGA-06-5416 
        3.55         8.35         4.54         8.81         8.98         6.71 
TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 
        2.73         3.75         6.15         4.57         5.23         8.32 
TCGA-06-6697 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 
       12.85         1.55         4.77         4.96        26.79         1.87 
TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 
        3.12         2.56        14.60        17.72        15.35        21.73 
TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 TCGA-12-3644 TCGA-12-3648 TCGA-12-3649 
       15.65        25.68        14.73        59.77        26.93        15.22 
TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 TCGA-12-5299 
       10.95        12.69        34.92        14.53        14.93         3.22 
TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 
        2.04        15.12        11.97         0.95         6.21        23.05 
TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1395 
       13.78         3.25         2.89        16.50        26.33         1.38 
TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 
        1.12         3.75        32.05        58.78        23.11         7.10 
TCGA-14-1453 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1794 
        1.15         0.92        40.96         6.67        12.43         0.99 
TCGA-14-1795 TCGA-14-1821 TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 
        1.97        17.79        17.85         7.63         5.88         7.17 
TCGA-14-2554 TCGA-14-2555 TCGA-14-3477 TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 
       17.49         7.96         3.78         3.42        17.59        29.03 
TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 
        4.57        10.29        14.01         9.14        21.24        13.97 
TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 TCGA-19-1786 
        6.41         8.61        14.27         3.39        25.38         7.17 
TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 
        3.25         0.13         9.67         4.87         1.08         7.53 
TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 
        0.16         4.08        24.23         7.00         7.04         6.64 
TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 
       17.19         8.02        18.90         4.73        12.10         1.78 
TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 
       22.49        14.07        16.80        14.96        17.79        28.54 
TCGA-26-1438 TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 
       10.03        13.87         9.73         7.13         9.37         9.40 
TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1833 
        8.88        18.97        19.33         5.06        16.60        24.23 
TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 
       40.54        21.30        30.05        14.04        11.51        24.76 
TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 TCGA-27-2524 TCGA-27-2528 TCGA-28-1746 
       18.08        16.77        16.08         7.59        15.78         0.20 
TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 
        2.53         9.21         8.35         7.63         8.48         1.22 
TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-32-1970 TCGA-32-1973 
        1.55         2.83         0.13         0.66        15.39        21.07 
TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 
        0.49         0.10        15.85        19.50         1.18         4.67 
TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 
       12.69        14.86        16.93        12.23        20.78        15.02 
TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 
       22.78        25.18        21.14         3.72        12.59        19.86 
TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-3392 
       10.85        19.23         0.85        13.35         8.94         0.99 
TCGA-41-3393 TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9T 
        4.44         0.20        15.12        12.46         4.08        25.58 
TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 
        3.45        20.91         4.34        14.33         8.22         7.50 
TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4934 
        4.80         4.54         3.09         3.65         9.17         2.53 
TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 
       36.85        16.70         3.29         2.70        17.06         8.35 
TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 
       20.98         4.83         5.03        23.90        34.45        18.64 
TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 
       36.20         5.92         6.28        20.55       117.50         7.69 
TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 
       43.89        36.36        60.10        40.18         0.26        21.01 
TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 
       53.62         6.38        17.69        26.76        37.38        46.95 
TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 
       48.30        49.94        49.12       122.73        81.96        75.25 
TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       47.93        72.92        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       46.42        18.84        30.21        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64X TCGA-DB-A75K 
       31.40        27.45        27.81        29.23        18.51        12.10 
TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 
       11.24        17.88        30.74        16.18        19.96        63.88 
TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G 
       46.06        24.59        30.21        27.81        17.19        17.19 
TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 
       54.25        23.21        17.46        13.71        18.61        18.02 
TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 
       14.56        17.46         6.74        13.38         8.45         6.81 
TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6394 TCGA-DU-6395 
      182.33        18.94        17.49        15.16        22.42        49.02 
TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       75.16        46.06        65.75        87.45         7.04        11.64 
TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 
      133.74        19.89        16.83       114.08         7.96         2.40 
TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 
       11.47        62.96       156.23       154.36        14.99       105.21 
TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
        6.54         8.84       117.40        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 
       10.36         7.96        94.32        18.94        44.02        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8161 TCGA-DU-8162 
       60.30        23.31        41.98         2.76        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       20.68        21.40        19.13        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A6S2 
       33.27        29.85        31.69        26.17        24.99        25.55 
TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S8 TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 
       21.57        95.11        22.29        26.76        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
      139.04        84.33        51.52        37.38         7.50        44.42 
TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5305 TCGA-E1-5307 
       38.89         0.56        50.14        67.46        79.99        57.93 
TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE 
      134.27        78.21        95.57       130.78        14.30        29.13 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       93.21         3.65        19.46        12.43        16.18        21.30 
TCGA-E1-A7YO TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY 
       75.02        15.32         0.76        32.45        36.82       146.14 
TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 
       13.08        73.48       145.05        32.35        39.48         0.23 
TCGA-F6-A8O4 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 
        0.20        25.48        52.21        36.82        18.77        14.93 
TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 
       42.54        41.33        18.44        17.88        22.55        20.61 
TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 
       20.09        28.34        13.68        14.24        16.01        14.96 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX 
       22.52        32.61        38.27        10.72        18.38        18.71 
TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 
       23.70        14.76        21.53        15.02        16.44        22.26 
TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 
       28.54        10.78        36.66        48.69         5.72        27.52 
TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 
        0.10         6.67        11.54        40.11         0.13         0.03 
TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 
       16.54         3.75        17.42         6.54        24.26         6.38 
TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 
       40.34        75.19        95.93       106.95       172.77         4.01 
TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7606 TCGA-HT-7607 
        5.03        29.85        23.18       122.47        17.29         3.16 
TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 
       22.06        45.99        56.09        57.60         0.23        14.27 
TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 
        0.16        16.24         0.76        44.68         6.05        42.74 
TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 
        0.10        31.69        14.96         0.10         0.10         2.96 
TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 
       17.52         6.90        14.53        39.48        19.23        39.09 
TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 
        0.23        50.63         0.49        23.61        37.15         0.33 
TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 
        0.13         3.68         5.33        35.47         3.72        11.28 
TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 
       31.43         1.64        16.24         9.40        63.55         0.10 
TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 
       37.87        33.01        12.23         6.25         0.10         0.46 
TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 
        2.50         5.56        13.78         0.23        29.59        34.19 
TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 
       28.27        15.72         0.23        26.04         0.13        20.22 
TCGA-HT-A5R9 TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 
        0.07         0.10         5.33         2.70        16.93         1.81 
TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74J TCGA-HT-A74K 
       16.14        16.83        17.52        17.65        10.52        15.35 
TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 
        0.10        56.58        45.44        41.49        68.32        69.27 
TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ 
       35.44        39.75        40.01        42.54        24.92        31.63 
TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 
       12.76        28.87        20.71        19.00        14.40        14.40 
TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 
        0.23         6.71         7.99         2.37         2.30         9.44 
TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W 
        5.88         7.96         7.59         1.28         0.23        10.42 
TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 
       13.25        11.64        10.95         9.01        13.61         9.60 
TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 
        7.56        12.23        19.20         3.45         2.37         4.41 
TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS 
       15.16         2.53        12.62        15.85        14.04        19.33 
TCGA-QH-A6CU TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 
       14.83        13.61        12.23        13.41         9.17        10.29 
TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       14.53        16.34        16.73        16.50        16.70        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y 
       12.99        88.83        94.03        32.65        30.87         5.46 
TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS 
        9.90        28.08         2.07        19.59        30.67        62.17 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ 
       87.12        18.77        41.10        40.93        35.38        36.82 
TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       24.39        25.81        29.85        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       95.93         5.85       123.65        75.25       135.22        85.55 
TCGA-S9-A6WI TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ 
       84.99        19.86        26.47        18.61        18.64        14.07 
TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 
       36.13         7.92        26.93        23.51        19.99        20.02 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY 
        8.19         2.04        20.68        15.06        18.54        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 
       27.16       169.84        10.39        99.06        30.05        98.63 
TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 
       31.59        18.71        20.48        54.77        48.33        49.32 
TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G 
       34.78        65.39        24.92        16.18        59.05        40.64 
TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q 
       28.08        24.16        40.83        24.79        33.24        25.38 
TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH 
       18.61        14.93        23.80        21.37        19.69        15.98 
TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO 
        2.04        40.41        44.09        36.69        33.73        31.20 
TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW 
       30.05        26.14        25.87        33.93        61.41        26.99 
TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD 
       31.36        45.93        43.20        13.51         0.10         7.89 
TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS 
       39.16        20.02        23.47        37.05        16.01        23.21 
TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A 
        8.05        51.06        13.32        43.96        39.88        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 TCGA-02-0003 
       45.80        46.88        37.71        20.81         7.63         4.73 
TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 
       23.18        10.59        35.41        20.71        82.59        20.61 
TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 TCGA-02-0026 TCGA-02-0027 
       87.06        77.65        20.12        53.10        24.59        12.16 
TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 
       90.58         2.83        14.14         3.62        10.72        10.52 
TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 
       18.31         6.87        14.73         3.22        15.09        12.59 
TCGA-02-0054 TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 
        6.54        19.86         8.35         9.57         6.02        19.73 
TCGA-02-0068 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0080 TCGA-02-0083 
       26.43        25.05         5.49        10.19        89.72        22.72 
TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 
       12.62        51.32         8.81        57.76        16.96         3.48 
TCGA-02-0102 TCGA-02-0104 TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 TCGA-02-0114 
       27.02        65.00        11.67        17.65        23.18        99.98 
TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 
       15.65        48.95        16.54        16.93        17.72        10.75 
TCGA-02-0271 TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 
       14.47         3.98        13.87        14.20        15.95        12.23 
TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 
        9.90         7.73        10.62         7.33        15.91        25.71 
TCGA-02-0333 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 
        4.37        10.59        12.39        14.50        10.55        47.11 
TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 
       11.34         9.27        16.21         3.35        16.80        12.92 
TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 
       15.32        15.45        20.32         2.70         6.15        20.38 
TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 TCGA-06-0132 
       47.61         6.94         3.98        22.72        33.67        25.35 
TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0141 TCGA-06-0142 
       14.30        26.70        24.23        11.90        10.29         2.20 
TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0150 
       11.74         2.33        20.09        17.79        10.09        19.46 
TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0160 
       12.33        13.94        10.45         3.19        10.82        11.80 
TCGA-06-0162 TCGA-06-0165 TCGA-06-0166 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 
        3.42        10.65         5.85         3.29        13.12         4.47 
TCGA-06-0174 TCGA-06-0175 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 
        3.22         4.04        88.14        20.25         3.65        69.90 
TCGA-06-0185 TCGA-06-0187 TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 
       73.84        27.22        10.42        38.96         4.67         7.40 
TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 
        0.39         7.66         8.42         7.40        11.84         0.53 
TCGA-06-0214 TCGA-06-0219 TCGA-06-0221 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 
       15.02         0.72        19.82        13.32        20.42        48.69 
TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 TCGA-06-0410 TCGA-06-0412 
       10.82         9.01         0.26        72.36         4.70         9.57 
TCGA-06-0413 TCGA-06-0414 TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 
        3.16        35.11         5.75         5.75         9.80         2.10 
TCGA-06-0650 TCGA-06-0686 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 
       23.57        14.20        46.88         7.86         2.70         2.70 
TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 
        0.92        43.46        46.19         7.17        40.41        16.57 
TCGA-06-0882 TCGA-06-0939 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 
       20.78        26.76        26.79        11.84        15.32        13.61 
TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 
       33.90         1.08        12.49         4.93        17.65        12.56 
TCGA-06-2563 TCGA-06-2564 TCGA-06-2566 TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 
       30.64         5.95         5.98         0.43        31.50         7.79 
TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 TCGA-08-0245 TCGA-08-0344 
        5.39       120.56         7.36        22.68        37.84       115.86 
TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 
        1.74         8.42        25.71        12.16         9.80        29.23 
TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 
       65.33         1.28         8.42        17.95        24.56        31.10 
TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0389 
       37.58        22.29         3.39        12.23        14.93        15.35 
TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 
       13.97         0.72        12.56        42.15        11.08        19.59 
TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 
       58.68        19.33        10.75         4.80         7.27        15.98 
TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0620 TCGA-12-0654 
       18.41         7.56        14.73        12.99        10.45         7.59 
TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 
       94.78         0.10        38.17        25.97        26.66        12.13 
TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 
        3.65        20.38        28.41        15.06        53.85        43.23 
TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 
        7.63         9.73        14.93        14.86        91.76        24.79 
TCGA-12-0820 TCGA-12-0821 TCGA-12-0826 TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 
       18.48        10.62        27.78        38.76         8.94        20.58 
TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 
      127.59         5.82         7.59        33.21        15.98        12.23 
TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 
        9.11        14.53         3.98         4.14         2.24        11.24 
TCGA-14-0813 TCGA-14-0817 TCGA-14-0867 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 
        1.35         5.39         2.04        19.30         0.79        13.78 
TCGA-15-1444 TCGA-15-1446 TCGA-15-1447 TCGA-15-1449 TCGA-16-0849 TCGA-16-0850 
       50.53        19.10        53.19        13.28        26.07        16.37 
TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 
       11.77        21.90         0.66        10.75         9.07         5.95 
TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 
        4.64        31.33        14.86         5.49         1.58         7.92 
TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 TCGA-28-5208 TCGA-28-5209 
        2.33         7.30         5.26        14.93        17.88        14.53 
TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 
       11.77        31.27        23.44        22.68        12.76         5.42 
TCGA-32-2616 TCGA-76-6280 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        7.36        11.38         3.75         1.61        17.72        26.30 

  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
              0.20               0.03 
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
            211.17             182.33 
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
            14.400             16.195 
[1] "0.2 - 211.2 (14.4)" "0.0 - 182.3 (16.2)"
[1] "hr=" "1.5"
D38V2, continuous
D38V3, binary
                    cls
clus                   0   1
  21Q GAIN MUTATED    64  24
  21Q GAIN WILD-TYPE 509 488
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  21Q GAIN MUTATED     64   24
  21Q GAIN WILD-TYPE  509  488
                        clus
vv                       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  BRAIN                                64                509
  CENTRAL NERVOUS SYSTEM               24                488
[1] 2 2
[1] FALSE
D38V4, binary
                    cls
clus                   0   1
  21Q GAIN MUTATED    38  50
  21Q GAIN WILD-TYPE 415 582
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  21Q GAIN MUTATED     38   50
  21Q GAIN WILD-TYPE  415  582
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  FEMALE               38                415
  MALE                 50                582
[1] 2 2
[1] FALSE
D38V5, binary
                    cls
clus                   0   1
  21Q GAIN MUTATED    12  71
  21Q GAIN WILD-TYPE 246 699
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  21Q GAIN MUTATED     12   71
  21Q GAIN WILD-TYPE  246  699
     clus
vv    21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  NO                12                246
  YES               71                699
[1] 2 2
[1] FALSE
D38V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  21Q GAIN MUTATED             9                             7                5
  21Q GAIN WILD-TYPE         185                            23              124
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  21Q GAIN MUTATED                  10                   1
  21Q GAIN WILD-TYPE               179                  17
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  21Q GAIN MUTATED                                56
  21Q GAIN WILD-TYPE                             469
D38V7, multiclass
                                 clus
vv                                21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  ASTROCYTOMA                                    9                185
  GLIOBLASTOMA MULTIFORME (GBM)                  7                 23
  OLIGOASTROCYTOMA                               5                124
  OLIGODENDROGLIOMA                             10                179
  TREATED PRIMARY GBM                            1                 17
  UNTREATED PRIMARY (DE NOVO) GBM               56                469
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  21Q GAIN MUTATED                                  0     5
  21Q GAIN WILD-TYPE                                1    16
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  21Q GAIN MUTATED                           6    76
  21Q GAIN WILD-TYPE                        65   883
D38V8, multiclass
                                  clus
vv                                 21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           5                 16
  BLACK OR AFRICAN AMERICAN                       6                 65
  WHITE                                          76                883
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D38V9, binary
                    cls
clus                   0   1
  21Q GAIN MUTATED     0  81
  21Q GAIN WILD-TYPE  44 840
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  21Q GAIN MUTATED      0   81
  21Q GAIN WILD-TYPE   44  840
                        clus
vv                       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  HISPANIC OR LATINO                    0                 44
  NOT HISPANIC OR LATINO               81                840
[1] 2 2
[1] FALSE

Clustering(39) Variable = 22Q GAIN MUTATION ANALYSIS
D39V1, survival
                    sevent
clus2                  0   1
  22Q GAIN MUTATED    25  32
  22Q GAIN WILD-TYPE 455 566
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                57               1021 
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                32                566 
$`22Q GAIN MUTATED`
TCGA-CS-6665 TCGA-R8-A73M TCGA-12-1602 TCGA-19-1390 TCGA-19-4065 TCGA-27-2521 
       51.55        59.38         6.77        25.38         7.04        16.77 
TCGA-32-4211 TCGA-CS-6668 TCGA-DU-6393 TCGA-DU-6400 TCGA-DU-A7TI TCGA-E1-A7YQ 
       12.59        49.94        52.11         1.22        38.89        51.88 
TCGA-FG-5962 TCGA-HT-7468 TCGA-HT-7472 TCGA-HT-8012 TCGA-P5-A737 TCGA-P5-A77X 
       47.77         6.67         0.03         9.40        12.23         3.45 
TCGA-QH-A6CZ TCGA-R8-A6ML TCGA-RY-A83X TCGA-RY-A847 TCGA-S9-A6WM TCGA-TM-A84J 
        9.17        94.03        30.87        30.67        19.86        24.16 
TCGA-TQ-A7RI TCGA-TQ-A7RQ TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VV-A829 TCGA-06-0209 
        2.04        26.14        13.51         0.10        37.05         7.63 
TCGA-02-0051 TCGA-02-0055 TCGA-02-0069 TCGA-02-0074 TCGA-02-0106 TCGA-02-0281 
       15.09         2.50        28.70        10.19        11.67         3.98 
TCGA-02-0324 TCGA-06-0130 TCGA-06-0409 TCGA-06-0414 TCGA-06-1086 TCGA-06-1087 
        7.73        12.95        72.36        35.11         6.84         4.04 
TCGA-06-2569 TCGA-08-0510 TCGA-12-0618 TCGA-12-0827 TCGA-12-1099 TCGA-14-0813 
        0.43         4.27        12.99        38.76         4.14         1.35 
TCGA-14-0871 TCGA-15-1449 TCGA-16-0846 TCGA-19-1387 TCGA-19-1388 TCGA-28-5215 
       28.93        13.28         3.91         5.95        12.95        11.01 
TCGA-28-5216 TCGA-28-5218 TCGA-32-2616 
       13.64         5.16         7.36 

$`22Q GAIN WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        1.48         3.98        46.88        46.72        31.82        42.05 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       62.01        17.16        23.90        20.09        17.82        20.45 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-06-1806 TCGA-06-5408 
       18.64        21.40        45.60        42.77        15.32        11.74 
TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 
        3.55         8.35         4.54         8.81         8.98         8.55 
TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 
        6.71         2.73         3.75         6.15         4.57         5.23 
TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 
        8.32        12.85         4.77         1.55         4.77         4.96 
TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL 
       26.79         1.87         3.12         2.56        14.60        17.72 
TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 TCGA-12-3644 
       15.35        21.73        15.65        25.68        14.73        59.77 
TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 
       44.02        26.93        15.22        10.95        12.69        34.92 
TCGA-12-3653 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 
       14.53        14.93         3.22         2.04        15.12        11.97 
TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 
        0.95         6.21        23.05        13.78         3.25         2.89 
TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 
       16.50        26.33        15.95         1.38         1.12         3.75 
TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 TCGA-14-1454 
       32.05        58.78        23.11         7.10         1.15        30.18 
TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 
        0.92        40.96         6.67        12.43         0.99         1.97 
TCGA-14-1821 TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 
       17.79        17.85         7.63         5.88         7.17        17.49 
TCGA-14-2555 TCGA-14-3477 TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 
        7.96         3.78         3.42        17.59        29.03         4.57 
TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 
       10.29        14.01         9.14        21.24        13.97         6.41 
TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 
        8.61        14.27         3.39         3.65         7.17        12.66 
TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 
        3.25         0.13         9.67         4.87         1.08         7.53 
TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 TCGA-19-5947 TCGA-19-5950 
        0.16         4.08        24.23         7.00         6.64        17.19 
TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 
        8.02        18.90         4.73        12.10         1.78        22.49 
TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 
       14.07        16.80        14.96        17.79        28.54        10.03 
TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 
       13.87         9.73         7.13         9.37         9.40         8.88 
TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 
       18.97        19.33         5.06        16.60         9.86        24.23 
TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 
       40.54        21.30        30.05        14.04        11.51        24.76 
TCGA-27-2519 TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 
       18.08        16.08         7.59         2.86        14.40        15.78 
TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 
        0.20         2.53         9.21         8.35         7.63         8.48 
TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 
        1.22         1.55         2.83         0.13         0.66         6.74 
TCGA-28-2509 TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 
        4.77        15.39        21.07         0.49         0.10        15.85 
TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 
       19.50         1.18         4.67        12.69        14.86        16.93 
TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 TCGA-32-2632 TCGA-32-2634 
       12.23        20.78        15.02        15.95         8.84        22.78 
TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 
       25.18        21.14         3.72        19.86        10.85        19.23 
TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 
        0.85        13.35         8.94         9.53         0.99         4.44 
TCGA-41-3915 TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S 
       11.84         0.20        15.12        12.46         4.08         1.45 
TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 
       25.58         3.45        20.91         4.34        14.33         8.22 
TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 
        7.50         4.80         4.54         3.09         3.65         9.17 
TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 
        2.53        36.85        16.70         3.29         2.70        17.06 
TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 
        8.35        20.98         4.83         5.03        23.90        34.45 
TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 
       18.64        36.20         5.92         6.28        20.55       117.50 
TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 
        7.69        43.89        36.36        60.10        40.18         0.26 
TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 
       21.01        53.62         6.38        17.69        26.76        37.38 
TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 
       46.95        48.30        49.12       122.73        81.96        75.25 
TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 
       47.93        72.92        50.86        91.13        44.52        36.56 
TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE 
       78.28        46.42        18.84        30.21        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        30.12 
TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W 
        5.98        31.40        27.45        27.81        29.23        14.40 
TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D 
       19.96        63.88        46.06        24.59        30.21        27.81 
TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU 
       17.19        17.19        54.25        23.21        17.46        13.71 
TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 
       18.61        18.02        14.56        17.46         6.74        13.38 
TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 
        8.45         6.81       182.33        18.94        17.49        15.16 
TCGA-DU-6392 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
      211.17        22.42        49.02        75.16        46.06        65.75 
TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 
       87.45         7.04        11.64       133.74        19.89        16.83 
TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 
       94.52       114.08         7.96         2.40        11.47        62.96 
TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 
      156.23       154.36        14.99       105.21         6.54         8.84 
TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 
      117.40        90.77        30.67        26.30        10.36         7.96 
TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 
       94.32        18.94        44.02        25.91        60.30        23.31 
TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 
       41.98         2.76         5.10        23.74        14.60        20.68 
TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP 
       21.40        19.13        16.96        15.48        14.17        33.27 
TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY 
       29.85        31.69        24.43        26.17        24.99        33.96 
TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K 
       25.55        21.57        95.11        20.98        22.29        11.41 
TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB 
       26.76        21.30        17.98       139.04        84.33        51.52 
TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 
       37.38         7.50        44.42         0.56        50.14        67.46 
TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 
       41.13        79.99        57.93       134.27        78.21        95.57 
TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ 
      130.78        14.30        29.13        93.21         3.65        19.46 
TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YS TCGA-E1-A7YU 
       12.43        16.18        21.30        75.02        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5963 TCGA-FG-5964 
       32.35        39.48         0.23         0.20        25.48        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 
       15.35        17.88        22.55        20.61        20.09        28.34 
TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 
       13.68        14.24        16.01        14.96        22.52        32.61 
TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J 
       38.27        10.72        18.38        18.71        23.70        14.76 
TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z 
       21.53        15.02        16.44        22.26        28.54        10.78 
TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7469 
       36.66        48.69         5.72        27.52         0.10        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 
       40.11         0.13        16.54         3.75        17.42         6.54 
TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 
       24.26         6.38        40.34        75.19        95.93       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
        4.57        17.29         3.16        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       57.60         0.23        14.27         0.16        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 
       44.68         6.05        42.74         0.10        31.69        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
        0.10         0.10         2.96        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 
       39.48        19.23        39.09         0.23        50.63         0.49 
TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
       23.61        37.15         0.33         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 
       35.47         3.72        11.28        31.43         1.64        16.24 
TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 
       63.55         0.10        37.87        33.01        12.23         6.25 
TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 
        0.10         0.46         2.50         5.56        13.78         0.23 
TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV 
       29.59        34.19        28.27        15.72         0.23        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC 
        0.13        20.22         0.07        27.35         0.10         5.33 
TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B 
        2.70        16.93         1.81        16.14        16.83        17.52 
TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O 
       17.65         2.43        10.52        15.35        11.05         0.10 
TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 
       56.58        45.44        41.49        68.32        69.27        35.44 
TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK 
       39.75        40.01        42.54        24.92        31.63        12.76 
TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV 
       28.87        20.71        19.00        14.40        14.40         0.23 
TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 
        6.71         7.99         2.37         2.30         9.44         5.88 
TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X 
        7.96         7.59         1.28         0.23        10.42        13.25 
TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 
       11.64        10.95         9.01        13.61         9.60         7.56 
TCGA-P5-A77W TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V 
       19.20         2.37         4.41        15.16         2.53        12.62 
TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW 
       15.85        14.04        19.33        14.83        14.53        13.61 
TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
       12.23        13.41        10.29        14.53        16.34        16.73 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
        1.91        16.50        16.70        11.08        12.99        88.83 
TCGA-R8-A6MO TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 
       32.65         5.46         9.90        28.08         2.07        19.59 
TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY 
       62.17        87.12        18.77        41.10        40.93        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       36.82        24.39        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE 
       98.24        95.93         5.85       123.65        75.25       135.22 
TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WN TCGA-S9-A6WO 
       85.55        38.56        84.99        31.10        26.47        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.64        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       18.54        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       30.05        98.63        31.59        18.71        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       48.33        49.32        34.78        65.39        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84L TCGA-TM-A84M 
       59.05        40.64        30.44        28.08        40.83        24.79 
TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF 
       33.24        25.38        18.61        14.93        23.80        21.37 
TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN 
       19.69        15.98        40.41        44.09        36.69        33.73 
TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW 
       31.20        30.05        25.87        33.93        61.41        26.99 
TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF 
       31.36        45.93        43.20         7.89        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K 
       23.47        16.01        23.21         8.05        51.06        13.32 
TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D 
       43.96        39.88        43.40        45.80        46.88        37.71 
TCGA-WY-A85E TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 
       20.81        11.77         4.73        18.35        23.18        10.59 
TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 
       35.41        20.71        82.59        20.61        87.06        77.65 
TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 
       20.12        53.10        42.74        24.59        12.16        90.58 
TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 
        2.83        14.14         3.62        10.72        10.52        18.31 
TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 TCGA-02-0052 TCGA-02-0054 TCGA-02-0057 
        6.87        14.73         3.22        12.59         6.54        19.86 
TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0070 
        8.35         9.57         6.02        19.73        26.43        25.05 
TCGA-02-0071 TCGA-02-0075 TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 
        5.49        20.84        27.25        89.72        22.72        12.62 
TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 
       51.32         8.81        57.76        16.96         3.48        27.02 
TCGA-02-0104 TCGA-02-0107 TCGA-02-0111 TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 
       65.00        17.65        23.18        92.65        99.98        15.65 
TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 
       48.95        16.54        16.93        17.72        10.75        14.47 
TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0325 
       13.87        14.20        15.95        12.23         9.90        10.62 
TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 
        7.33        15.91        25.71         4.37        25.12        10.59 
TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 
       12.39        14.50        10.55        47.11        11.34         9.27 
TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 
       16.21         3.35        16.80        12.92        15.32        15.45 
TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 
       20.32         2.70         6.15        20.38        47.61         6.94 
TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 
        3.98        22.72        33.67        25.35        14.30        26.70 
TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 
       24.23        11.90         0.20        10.29         2.20        11.74 
TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 
        2.33        20.09        17.79        10.09         8.61        19.46 
TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 
       46.59        12.33        13.94        10.45         3.19        10.82 
TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 
        9.44        11.80         3.42        56.91        10.65         5.85 
TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 
       19.66         3.29        13.12         4.47         3.22         4.04 
TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 
       91.00         4.18        88.14        20.25         3.65        69.90 
TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 
       73.84        27.22        44.58        15.42        10.42        38.96 
TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 
        4.67         7.40         5.56         0.39         7.66         8.42 
TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 
        7.40        11.84         0.53        15.02        24.16         0.72 
TCGA-06-0221 TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 
       19.82        13.64        13.32        20.42        48.69        10.82 
TCGA-06-0397 TCGA-06-0402 TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 TCGA-06-0644 
        9.01         0.26         4.70         9.57         3.16        12.62 
TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 
        5.75         5.75         9.80         2.10        23.57        14.20 
TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 
       26.40        46.88         7.86         2.70         2.70         0.92 
TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 
       43.46        46.19         7.17        40.41        16.57        20.78 
TCGA-06-0939 TCGA-06-1084 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 
       26.76        23.93        26.79        11.84        15.32        13.61 
TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 
       33.90         1.08        12.49         4.93        17.65        12.56 
TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2570 
       30.64         5.95        16.64         5.98         4.37        31.50 
TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 TCGA-08-0245 
        7.79         5.39       120.56         7.36        22.68        37.84 
TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 
        4.18       115.86         1.74         8.42        25.71        12.16 
TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 
        9.80        29.23        65.33         1.28         8.42        17.95 
TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 
       24.56        31.10        37.58        22.29         3.39        12.23 
TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 
       14.93        18.02        15.35        13.97         0.72        12.56 
TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 
       42.15        11.08        19.59        58.68        19.33        10.75 
TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 
        4.80         7.27        15.98        18.41         7.56        14.73 
TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 
       34.92        10.45         7.59        94.78         0.10        38.17 
TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 
       25.97        26.66        12.13         3.65        20.38        28.41 
TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 
       15.06        53.85        43.23         7.63         9.73        14.93 
TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 
       14.86        91.76        24.79        18.48        10.62        23.51 
TCGA-12-0826 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 
       27.78         8.94        20.58       127.59         5.82         7.59 
TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 
       33.21        15.98        12.23        15.85         9.11        14.53 
TCGA-12-1098 TCGA-14-0787 TCGA-14-0789 TCGA-14-0817 TCGA-14-0867 TCGA-14-1037 
        3.98         2.24        11.24         5.39         2.04        19.30 
TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 TCGA-15-1447 TCGA-16-0849 
        0.79        13.78        50.53        19.10        53.19        26.07 
TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 
       16.37        11.77        21.90         0.66        10.75         9.07 
TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 
        4.64        31.33        14.86         5.49         1.58         7.92 
TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 
        2.33         7.30         5.26        14.93        11.28        17.88 
TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5219 TCGA-28-5220 
       14.53        11.77        31.27        23.44        22.68        12.76 
TCGA-28-6450 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 
        5.42        11.38         5.42         3.75         1.61        17.72 
TCGA-87-5896 
       26.30 

  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
              0.03               0.07 
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
             94.03             211.17 
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
             12.59              16.18 
[1] "0.0 - 94.0 (12.6)"  "0.1 - 211.2 (16.2)"
[1] "hr=" "1.2"
D39V2, continuous
D39V3, binary
                    cls
clus                   0   1
  22Q GAIN MUTATED    33  24
  22Q GAIN WILD-TYPE 540 488
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  22Q GAIN MUTATED     33   24
  22Q GAIN WILD-TYPE  540  488
                        clus
vv                       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  BRAIN                                33                540
  CENTRAL NERVOUS SYSTEM               24                488
[1] 2 2
[1] FALSE
D39V4, binary
                    cls
clus                   0   1
  22Q GAIN MUTATED    23  34
  22Q GAIN WILD-TYPE 430 598
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  22Q GAIN MUTATED     23   34
  22Q GAIN WILD-TYPE  430  598
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  FEMALE               23                430
  MALE                 34                598
[1] 2 2
[1] FALSE
D39V5, binary
                    cls
clus                   0   1
  22Q GAIN MUTATED    16  39
  22Q GAIN WILD-TYPE 242 731
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  22Q GAIN MUTATED     16   39
  22Q GAIN WILD-TYPE  242  731
     clus
vv    22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  NO                16                242
  YES               39                731
[1] 2 2
[1] FALSE
D39V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  22Q GAIN MUTATED             3                             0                4
  22Q GAIN WILD-TYPE         191                            30              125
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  22Q GAIN MUTATED                  17                   0
  22Q GAIN WILD-TYPE               172                  18
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  22Q GAIN MUTATED                                33
  22Q GAIN WILD-TYPE                             492
D39V7, multiclass
                                 clus
vv                                22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  ASTROCYTOMA                                    3                191
  GLIOBLASTOMA MULTIFORME (GBM)                  0                 30
  OLIGOASTROCYTOMA                               4                125
  OLIGODENDROGLIOMA                             17                172
  TREATED PRIMARY GBM                            0                 18
  UNTREATED PRIMARY (DE NOVO) GBM               33                492
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  22Q GAIN MUTATED                                  0     1
  22Q GAIN WILD-TYPE                                1    20
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  22Q GAIN MUTATED                           4    49
  22Q GAIN WILD-TYPE                        67   910
D39V8, multiclass
                                  clus
vv                                 22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           1                 20
  BLACK OR AFRICAN AMERICAN                       4                 67
  WHITE                                          49                910
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D39V9, binary
                    cls
clus                   0   1
  22Q GAIN MUTATED     5  44
  22Q GAIN WILD-TYPE  39 877
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  22Q GAIN MUTATED      5   44
  22Q GAIN WILD-TYPE   39  877
                        clus
vv                       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  HISPANIC OR LATINO                    5                 39
  NOT HISPANIC OR LATINO               44                877
[1] 2 2
[1] FALSE

Clustering(40) Variable = XP GAIN MUTATION ANALYSIS
D40V1, survival
                   sevent
clus2                 0   1
  XP GAIN MUTATED    20  15
  XP GAIN WILD-TYPE 460 583
  XP GAIN MUTATED XP GAIN WILD-TYPE 
               35              1043 
  XP GAIN MUTATED XP GAIN WILD-TYPE 
               15               583 
$`XP GAIN MUTATED`
TCGA-CS-6665 TCGA-06-6698 TCGA-14-1455 TCGA-14-1823 TCGA-19-1787 TCGA-26-1799 
       51.55         4.77         0.92        17.85        12.66         9.37 
TCGA-32-2632 TCGA-CS-6667 TCGA-DB-5277 TCGA-DU-A5TT TCGA-DU-A5TW TCGA-E1-5302 
        8.84        48.30        50.86        24.43        24.99        50.14 
TCGA-FG-7636 TCGA-HT-7688 TCGA-HT-8013 TCGA-HT-A74J TCGA-HW-7493 TCGA-QH-A6CV 
       17.88        31.69        63.55        10.52        69.27        14.53 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-TM-A84H TCGA-TQ-A7RV TCGA-VM-A8C8 TCGA-VM-A8CF 
       15.06        18.54        30.44        61.41        45.93        20.02 
TCGA-WY-A859 TCGA-WY-A85E TCGA-02-0266 TCGA-02-0271 TCGA-02-0333 TCGA-06-0151 
       39.88        20.81        17.72        14.47         4.37        46.59 
TCGA-12-0773 TCGA-12-1098 TCGA-15-1447 TCGA-28-5209 TCGA-28-5218 
       43.23         3.98        53.19        14.53         5.16 

$`XP GAIN WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        1.48         3.98        46.88        46.72        31.82        42.05 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       62.01        17.16        23.90        20.09        17.82        20.45 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 
       18.64        21.40        45.60        42.77        59.38        15.32 
TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 
       11.74         3.55         8.35         4.54         8.81         8.98 
TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 
        8.55         6.71         2.73         3.75         6.15         4.57 
TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 
        5.23         8.32        12.85         1.55         4.77         4.96 
TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL 
       26.79         1.87         3.12         2.56        14.60        17.72 
TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 TCGA-12-1602 
       15.35        21.73        15.65        25.68        14.73         6.77 
TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 
       59.77        44.02        26.93        15.22        10.95        12.69 
TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 
       34.92        14.53        14.93         3.22         2.04        15.12 
TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 
       11.97         0.95         6.21        23.05        13.78         3.25 
TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 
        2.89        16.50        26.33        15.95         1.38         1.12 
TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 
        3.75        32.05        58.78        23.11         7.10         1.15 
TCGA-14-1454 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 
       30.18        40.96         6.67        12.43         0.99         1.97 
TCGA-14-1821 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 
       17.79         7.63         5.88         7.17        17.49         7.96 
TCGA-14-3477 TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 
        3.78         3.42        17.59        29.03         4.57        10.29 
TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 
       14.01         9.14        21.24        13.97         6.41         8.61 
TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 TCGA-19-1392 TCGA-19-1786 TCGA-19-1789 
       14.27         3.39        25.38         3.65         7.17         3.25 
TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 
        0.13         9.67         4.87         1.08         7.53         0.16 
TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 
        4.08        24.23         7.00         7.04         6.64        17.19 
TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 
        8.02        18.90         4.73        12.10         1.78        22.49 
TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 
       14.07        16.80        14.96        17.79        28.54        10.03 
TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 
       13.87         9.73         7.13         9.40         8.88        18.97 
TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 
       19.33         5.06        16.60         9.86        24.23        40.54 
TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 
       21.30        30.05        14.04        11.51        24.76        18.08 
TCGA-27-2521 TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 
       16.77        16.08         7.59         2.86        14.40        15.78 
TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 
        0.20         2.53         9.21         8.35         7.63         8.48 
TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 
        1.22         1.55         2.83         0.13         0.66         6.74 
TCGA-28-2509 TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 
        4.77        15.39        21.07         0.49         0.10        15.85 
TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 
       19.50         1.18         4.67        12.69        14.86        16.93 
TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 TCGA-32-2634 TCGA-32-2638 
       12.23        20.78        15.02        15.95        22.78        25.18 
TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 
       21.14         3.72        12.59        19.86        10.85        19.23 
TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 
        0.85        13.35         8.94         9.53         0.99         4.44 
TCGA-41-3915 TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S 
       11.84         0.20        15.12        12.46         4.08         1.45 
TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 
       25.58         3.45        20.91         4.34        14.33         8.22 
TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 
        7.50         4.80         4.54         3.09         3.65         9.17 
TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 
        2.53        36.85        16.70         3.29         2.70        17.06 
TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 
        8.35        20.98         4.83         5.03        23.90        34.45 
TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 
       18.64        36.20         5.92         6.28        20.55       117.50 
TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 
        7.69        43.89        36.36        60.10        40.18         0.26 
TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 
       21.01        53.62         6.38        17.69        26.76        37.38 
TCGA-CS-6666 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 
       46.95        49.94        49.12       122.73        81.96        75.25 
TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       47.93        72.92        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       46.42        18.84        30.21        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       12.10        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F 
       63.88        46.06        24.59        30.21        27.81        17.19 
TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV 
       17.19        54.25        23.21        17.46        13.71        18.61 
TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 
       18.02        14.56        17.46         6.74        13.38         8.45 
TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 
        6.81       182.33        18.94        17.49        15.16       211.17 
TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
       52.11        22.42        49.02        75.16        46.06        65.75 
TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
        1.22        87.45         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 
       16.83        94.52       114.08         7.96         2.40        11.47 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 
       62.96       156.23       154.36        14.99       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        8.84       117.40        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 
        7.96        94.32        18.94        44.02        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       20.68        21.40        19.13        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TU TCGA-DU-A5TY TCGA-DU-A6S2 
       33.27        29.85        31.69        26.17        33.96        25.55 
TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L 
       21.57        95.11        20.98        22.29        11.41        26.76 
TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC 
       21.30        17.98       139.04        84.33        51.52        37.38 
TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5303 TCGA-E1-5304 
        7.50        44.42        38.89         0.56        67.46        41.13 
TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 
       79.99        57.93       134.27        78.21        95.57       130.78 
TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK 
       14.30        29.13        93.21         3.65        19.46        12.43 
TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU 
       16.18        21.30        75.02        51.88        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 
       18.44        15.35        22.55        20.61        20.09        28.34 
TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 
       13.68        14.24        16.01        14.96        22.52        32.61 
TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J 
       38.27        10.72        18.38        18.71        23.70        14.76 
TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z 
       21.53        15.02        16.44        22.26        28.54        10.78 
TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 
       36.66        48.69         5.72        27.52         0.10         6.67 
TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
       11.54        40.11         0.13         0.03        16.54         3.75 
TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 
       17.42         6.54        24.26         6.38        40.34        75.19 
TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 
       95.93       106.95       172.77         4.01         5.03        29.85 
TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 
       23.18       122.47         4.57        17.29         3.16        22.06 
TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 
       45.99        56.09        57.60         0.23        14.27         0.16 
TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 
       16.24         0.76        44.68         6.05        42.74         0.10 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 
       14.96         0.10         0.10         2.96        17.52         6.90 
TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 
       14.53        39.48        19.23        39.09         0.23        50.63 
TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 
        0.49        23.61        37.15         0.33         0.13         3.68 
TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 
        5.33        35.47         3.72        11.28        31.43         1.64 
TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 
       16.24         9.40         0.10        37.87        33.01        12.23 
TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 
        6.25         0.10         0.46         2.50         5.56        13.78 
TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS 
        0.23        29.59        34.19        28.27        15.72         0.23 
TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB 
       26.04         0.13        20.22         0.07        27.35         0.10 
TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 
        5.33         2.70        16.93         1.81        16.14        16.83 
TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O 
       17.52        17.65         2.43        15.35        11.05         0.10 
TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 
       56.58        45.44        41.49        68.32        35.44        39.75 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL 
       40.01        42.54        24.92        31.63        12.76        28.87 
TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW 
       20.71        19.00        14.40        14.40         0.23         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        7.99         2.37         2.30         9.44         5.88         7.96 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        7.59         1.28         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       19.20         3.45         2.37         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CW 
       12.62        15.85        14.04        19.33        14.83        13.61 
TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 
       12.23        13.41         9.17        10.29        14.53        16.34 
TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 
       16.73         1.91        16.50        16.70        11.08        12.99 
TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z 
       88.83        94.03        32.65        30.87         5.46         9.90 
TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU 
       28.08         2.07        19.59        30.67        62.17        87.12 
TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       18.77        41.10        40.93        35.38        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 
       25.81        29.85        32.61        35.15        98.24        95.93 
TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH 
        5.85       123.65        75.25       135.22        85.55        38.56 
TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP 
       84.99        31.10        19.86        26.47        18.61        18.64 
TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ 
       14.07        36.13         7.92        26.93        23.51        19.99 
TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QY TCGA-S9-A7QZ 
       20.02         8.19         2.04        20.68        28.37        27.16 
TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 
      169.84        10.39        99.06        30.05        98.63        31.59 
TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA 
       18.71        20.48        54.77        48.33        49.32        34.78 
TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84I 
       65.39        24.92        16.18        59.05        40.64        28.08 
TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R 
       24.16        40.83        24.79        33.24        25.38        18.61 
TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI 
       14.93        23.80        21.37        19.69        15.98         2.04 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP 
       40.41        44.09        36.69        33.73        31.20        30.05 
TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C9 
       26.14        25.87        33.93        26.99        31.36        43.20 
TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CH TCGA-VV-A829 
       13.51         0.10         7.89        39.16        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       16.01        23.21         8.05        51.06        13.32        43.96 
TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-06-0209 TCGA-02-0001 
       43.40        45.80        46.88        37.71         7.63        11.77 
TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 
        4.73        18.35        23.18        10.59        35.41        20.71 
TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 
       82.59        20.61        87.06        77.65        20.12        53.10 
TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 
       42.74        24.59        12.16        90.58         2.83        14.14 
TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 
        3.62        10.72        10.52        18.31         6.87        14.73 
TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0055 TCGA-02-0057 
        3.22        15.09        12.59         6.54         2.50        19.86 
TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 
        8.35         9.57         6.02        19.73        26.43        28.70 
TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 TCGA-02-0079 TCGA-02-0080 
       25.05         5.49        10.19        20.84        27.25        89.72 
TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 
       22.72        12.62        51.32         8.81        57.76        16.96 
TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 
        3.48        27.02        65.00        11.67        17.65        23.18 
TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 
       92.65        99.98        15.65        48.95        16.54        16.93 
TCGA-02-0269 TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 
       10.75         3.98        13.87        14.20        15.95        12.23 
TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 
        9.90         7.73        10.62         7.33        15.91        25.71 
TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 
       25.12        10.59        12.39        14.50        10.55        47.11 
TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 
       11.34         9.27        16.21         3.35        16.80        12.92 
TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 
       15.32        15.45        20.32         2.70         6.15        20.38 
TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 
       47.61         6.94         3.98        22.72        33.67        12.95 
TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 
       25.35        14.30        26.70        24.23        11.90         0.20 
TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 
       10.29         2.20        11.74         2.33        20.09        17.79 
TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 
       10.09         8.61        19.46        12.33        13.94        10.45 
TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 
        3.19        10.82         9.44        11.80         3.42        56.91 
TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 
       10.65         5.85        19.66         3.29        13.12         4.47 
TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 
        3.22         4.04        91.00         4.18        88.14        20.25 
TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 
        3.65        69.90        73.84        27.22        44.58        15.42 
TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 
       10.42        38.96         4.67         7.40         5.56         0.39 
TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 
        7.66         8.42         7.40        11.84         0.53        15.02 
TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 
       24.16         0.72        19.82        13.64        13.32        20.42 
TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 TCGA-06-0410 
       48.69        10.82         9.01         0.26        72.36         4.70 
TCGA-06-0412 TCGA-06-0413 TCGA-06-0414 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 
        9.57         3.16        35.11        12.62         5.75         5.75 
TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 
        9.80         2.10        23.57        14.20        26.40        46.88 
TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 
        7.86         2.70         2.70         0.92        43.46        46.19 
TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 
        7.17        40.41        16.57        20.78        26.76        23.93 
TCGA-06-1086 TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 
        6.84         4.04        26.79        11.84        15.32        13.61 
TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 
       33.90         1.08        12.49         4.93        17.65        12.56 
TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 
       30.64         5.95        16.64         5.98         4.37         0.43 
TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 
       31.50         7.79         5.39       120.56         7.36        22.68 
TCGA-08-0245 TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 
       37.84         4.18       115.86         1.74         8.42        25.71 
TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 
       12.16         9.80        29.23        65.33         1.28         8.42 
TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 
       17.95        24.56        31.10        37.58        22.29         3.39 
TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 
       12.23        14.93        18.02        15.35        13.97         0.72 
TCGA-08-0509 TCGA-08-0510 TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 
       12.56         4.27        42.15        11.08        19.59        58.68 
TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 
       19.33        10.75         4.80         7.27        15.98        18.41 
TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 
        7.56        14.73        12.99        34.92        10.45         7.59 
TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 
       94.78         0.10        38.17        25.97        26.66        12.13 
TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0775 
        3.65        20.38        28.41        15.06        53.85         7.63 
TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 
        9.73        14.93        14.86        91.76        24.79        18.48 
TCGA-12-0821 TCGA-12-0822 TCGA-12-0826 TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 
       10.62        23.51        27.78        38.76         8.94        20.58 
TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 
      127.59         5.82         7.59        33.21        15.98        12.23 
TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 
       15.85         9.11        14.53         4.14         2.24        11.24 
TCGA-14-0813 TCGA-14-0817 TCGA-14-0867 TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 
        1.35         5.39         2.04        28.93        19.30         0.79 
TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 TCGA-15-1449 TCGA-16-0846 TCGA-16-0849 
       13.78        50.53        19.10        13.28         3.91        26.07 
TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 
       16.37        11.77        21.90         0.66        10.75         9.07 
TCGA-19-1387 TCGA-19-1388 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 
        5.95        12.95         4.64        31.33        14.86         5.49 
TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 
        1.58         7.92         2.33         7.30         5.26        14.93 
TCGA-28-5207 TCGA-28-5208 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5215 
       11.28        17.88        11.77        31.27        23.44        11.01 
TCGA-28-5216 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 
       13.64        22.68        12.76         5.42         7.36        11.38 
TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        5.42         3.75         1.61        17.72        26.30 

  XP GAIN MUTATED XP GAIN WILD-TYPE 
             0.92              0.03 
  XP GAIN MUTATED XP GAIN WILD-TYPE 
            69.27            211.17 
  XP GAIN MUTATED XP GAIN WILD-TYPE 
            20.02             15.95 
[1] "0.9 - 69.3 (20.0)"  "0.0 - 211.2 (15.9)"
[1] "hr=" "1.6"
D40V2, continuous
D40V3, binary
                   cls
clus                  0   1
  XP GAIN MUTATED    15  20
  XP GAIN WILD-TYPE 558 492
[1] "tbl2"
                   cls
clus                [,1] [,2]
  XP GAIN MUTATED     15   20
  XP GAIN WILD-TYPE  558  492
                        clus
vv                       XP GAIN MUTATED XP GAIN WILD-TYPE
  BRAIN                               15               558
  CENTRAL NERVOUS SYSTEM              20               492
[1] 2 2
[1] FALSE
D40V4, binary
                   cls
clus                  0   1
  XP GAIN MUTATED    19  16
  XP GAIN WILD-TYPE 434 616
[1] "tbl2"
                   cls
clus                [,1] [,2]
  XP GAIN MUTATED     19   16
  XP GAIN WILD-TYPE  434  616
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  FEMALE              19               434
  MALE                16               616
[1] 2 2
[1] FALSE
D40V5, binary
                   cls
clus                  0   1
  XP GAIN MUTATED     5  29
  XP GAIN WILD-TYPE 253 741
[1] "tbl2"
                   cls
clus                [,1] [,2]
  XP GAIN MUTATED      5   29
  XP GAIN WILD-TYPE  253  741
     clus
vv    XP GAIN MUTATED XP GAIN WILD-TYPE
  NO                5               253
  YES              29               741
[1] 2 2
[1] FALSE
D40V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  XP GAIN MUTATED            12                             1                5
  XP GAIN WILD-TYPE         182                            29              124
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  XP GAIN MUTATED                   3                   0
  XP GAIN WILD-TYPE               186                  18
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  XP GAIN MUTATED                                14
  XP GAIN WILD-TYPE                             511
D40V7, multiclass
                                 clus
vv                                XP GAIN MUTATED XP GAIN WILD-TYPE
  ASTROCYTOMA                                  12               182
  GLIOBLASTOMA MULTIFORME (GBM)                 1                29
  OLIGOASTROCYTOMA                              5               124
  OLIGODENDROGLIOMA                             3               186
  TREATED PRIMARY GBM                           0                18
  UNTREATED PRIMARY (DE NOVO) GBM              14               511
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  XP GAIN MUTATED                                  0     1
  XP GAIN WILD-TYPE                                1    20
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  XP GAIN MUTATED                           1    31
  XP GAIN WILD-TYPE                        70   928
D40V8, multiclass
                                  clus
vv                                 XP GAIN MUTATED XP GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          1                20
  BLACK OR AFRICAN AMERICAN                      1                70
  WHITE                                         31               928
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D40V9, binary
                   cls
clus                  0   1
  XP GAIN MUTATED     2  23
  XP GAIN WILD-TYPE  42 898
[1] "tbl2"
                   cls
clus                [,1] [,2]
  XP GAIN MUTATED      2   23
  XP GAIN WILD-TYPE   42  898
                        clus
vv                       XP GAIN MUTATED XP GAIN WILD-TYPE
  HISPANIC OR LATINO                   2                42
  NOT HISPANIC OR LATINO              23               898
[1] 2 2
[1] FALSE

Clustering(41) Variable = XQ GAIN MUTATION ANALYSIS
D41V1, survival
                   sevent
clus2                 0   1
  XQ GAIN MUTATED    35  22
  XQ GAIN WILD-TYPE 445 576
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
               57              1021 
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
               22               576 
$`XQ GAIN MUTATED`
TCGA-CS-6665 TCGA-FG-A713 TCGA-06-6698 TCGA-14-1455 TCGA-14-1823 TCGA-19-1787 
       51.55        20.45         4.77         0.92        17.85        12.66 
TCGA-26-1799 TCGA-32-2632 TCGA-32-4210 TCGA-CS-4938 TCGA-DB-5277 TCGA-DB-5281 
        9.37         8.84         3.72       117.50        50.86        78.28 
TCGA-DU-5871 TCGA-DU-6401 TCGA-DU-6407 TCGA-DU-7007 TCGA-DU-A5TS TCGA-DU-A5TT 
       18.94        87.45        94.52        62.96        31.69        24.43 
TCGA-DU-A5TW TCGA-E1-5322 TCGA-FG-7636 TCGA-FG-A4MY TCGA-HT-7476 TCGA-HT-7609 
       24.99       130.78        17.88        23.70         6.54        45.99 
TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7857 TCGA-HT-7902 TCGA-HT-8013 TCGA-HT-8563 
       31.69        14.96         0.23        31.43        63.55        28.27 
TCGA-HT-A74J TCGA-HT-A74O TCGA-QH-A65S TCGA-QH-A6CV TCGA-S9-A6TS TCGA-S9-A7IZ 
       10.52         0.10         2.53        14.53        62.17        19.99 
TCGA-S9-A7QX TCGA-TM-A84H TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RV TCGA-VM-A8CF 
       18.54        30.44        40.41        44.09        61.41        20.02 
TCGA-VV-A86M TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85B TCGA-WY-A85E TCGA-02-0058 
       16.01        43.96        39.88        45.80        20.81         8.35 
TCGA-02-0266 TCGA-02-0271 TCGA-02-0333 TCGA-06-0151 TCGA-06-0743 TCGA-12-0773 
       17.72        14.47         4.37        46.59        26.40        43.23 
TCGA-19-1388 TCGA-28-5209 TCGA-28-5218 
       12.95        14.53         5.16 

$`XQ GAIN WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        1.48         3.98        46.88        46.72        31.82        42.05 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A87N 
       62.01        17.16        23.90        20.09        17.82        18.64 
TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 TCGA-06-5408 
       21.40        45.60        42.77        59.38        15.32        11.74 
TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 
        3.55         8.35         4.54         8.81         8.98         8.55 
TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 
        6.71         2.73         3.75         6.15         4.57         5.23 
TCGA-06-6695 TCGA-06-6697 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 
        8.32        12.85         1.55         4.77         4.96        26.79 
TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 
        1.87         3.12         2.56        14.60        17.72        15.35 
TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 TCGA-12-1602 TCGA-12-3644 
       21.73        15.65        25.68        14.73         6.77        59.77 
TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 
       44.02        26.93        15.22        10.95        12.69        34.92 
TCGA-12-3653 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 
       14.53        14.93         3.22         2.04        15.12        11.97 
TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 
        0.95         6.21        23.05        13.78         3.25         2.89 
TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 
       16.50        26.33        15.95         1.38         1.12         3.75 
TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 TCGA-14-1454 
       32.05        58.78        23.11         7.10         1.15        30.18 
TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 
       40.96         6.67        12.43         0.99         1.97        17.79 
TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-3477 
        7.63         5.88         7.17        17.49         7.96         3.78 
TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 
        3.42        17.59        29.03         4.57        10.29        14.01 
TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 
        9.14        21.24        13.97         6.41         8.61        14.27 
TCGA-19-0964 TCGA-19-1390 TCGA-19-1392 TCGA-19-1786 TCGA-19-1789 TCGA-19-1791 
        3.39        25.38         3.65         7.17         3.25         0.13 
TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 
        9.67         4.87         1.08         7.53         0.16         4.08 
TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 
       24.23         7.00         7.04         6.64        17.19         8.02 
TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 
       18.90         4.73        12.10         1.78        22.49        14.07 
TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 
       16.80        14.96        17.79        28.54        10.03        13.87 
TCGA-26-1440 TCGA-26-1443 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX 
        9.73         7.13         9.40         8.88        18.97        19.33 
TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 
        5.06        16.60         9.86        24.23        40.54        21.30 
TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 
       30.05        14.04        11.51        24.76        18.08        16.77 
TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 
       16.08         7.59         2.86        14.40        15.78         0.20 
TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 
        2.53         9.21         8.35         7.63         8.48         1.22 
TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 
        1.55         2.83         0.13         0.66         6.74         4.77 
TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 
       15.39        21.07         0.49         0.10        15.85        19.50 
TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 
        1.18         4.67        12.69        14.86        16.93        12.23 
TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 
       20.78        15.02        15.95        22.78        25.18        21.14 
TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 
       12.59        19.86        10.85        19.23         0.85        13.35 
TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 TCGA-41-4097 
        8.94         9.53         0.99         4.44        11.84         0.20 
TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 
       15.12        12.46         4.08         1.45        25.58         3.45 
TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 
       20.91         4.34        14.33         8.22         7.50         4.80 
TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 
        4.54         3.09         3.65         9.17         2.53        36.85 
TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 
       16.70         3.29         2.70        17.06         8.35        20.98 
TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 
        4.83         5.03        23.90        34.45        18.64        36.20 
TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 
        5.92         6.28        20.55         7.69        43.89        36.36 
TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 
       60.10        40.18         0.26        21.01        53.62         6.38 
TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       17.69        26.76        37.38        46.95        48.30        49.94 
TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 
       49.12       122.73        81.96        75.25        47.93        72.92 
TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB 
       91.13        44.52        36.56        46.42        18.84        30.21 
TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L 
       39.78        37.45        33.57        72.95        31.63        24.20 
TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U 
       25.48        30.12         5.98        31.40        27.45        27.81 
TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M 
       29.23        14.40        18.51        12.10        11.24        17.88 
TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 
       30.74        16.18        19.96        63.88        46.06        24.59 
TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       30.21        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5872 
        6.74        13.38         8.45         6.81       182.33        17.49 
TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       15.16       211.17        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       46.06        65.75         1.22         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 
       19.89        16.83       114.08         7.96         2.40        11.47 
TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 
      156.23       154.36        14.99       105.21         6.54         8.84 
TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 
      117.40        90.77        30.67        26.30        10.36         7.96 
TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 
       94.32        18.94        44.02        25.91        60.30        23.31 
TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 
       41.98         2.76         5.10        23.74        14.60        20.68 
TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP 
       21.40        19.13        16.96        15.48        14.17        33.27 
TCGA-DU-A5TR TCGA-DU-A5TU TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       29.85        26.17        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 
       20.98        22.29        11.41        26.76        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
      139.04        84.33        51.52        37.38         7.50        44.42 
TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
       38.89         0.56        50.14        67.46        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-A7YD TCGA-E1-A7YE 
       57.93       134.27        78.21        95.57        14.30        29.13 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       93.21         3.65        19.46        12.43        16.18        21.30 
TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW 
       75.02        51.88        15.32         0.76        32.45        36.82 
TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 
      146.14        13.08        73.48       145.05        32.35        39.48 
TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 
        0.23         0.20        47.77        25.48        52.21        36.82 
TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 
       18.77        14.93        42.54        41.33        18.44        15.35 
TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 
       22.55        20.61        20.09        28.34        13.68        14.24 
TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU 
       16.01        14.96        22.52        32.61        38.27        10.72 
TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 
       18.38        18.71        14.76        21.53        15.02        16.44 
TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q 
       22.26        28.54        10.78        36.66        48.69         5.72 
TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 
       27.52         0.10         6.67        11.54        40.11         0.13 
TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7477 TCGA-HT-7478 
        0.03        16.54         3.75        17.42        24.26         6.38 
TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 
       40.34        75.19        95.93       106.95       172.77         4.01 
TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 
        5.03        29.85        23.18       122.47         4.57        17.29 
TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 
        3.16        22.06        56.09        57.60         0.23        14.27 
TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 
        0.16        16.24         0.76        44.68         6.05        42.74 
TCGA-HT-7687 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 
        0.10         0.10         0.10         2.96        17.52         6.90 
TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7858 TCGA-HT-7860 
       14.53        39.48        19.23        39.09        50.63         0.49 
TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
       23.61        37.15         0.33         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 
       35.47         3.72        11.28         1.64        16.24         9.40 
TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 
        0.10        37.87        33.01        12.23         6.25         0.10 
TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 
        0.46         2.50         5.56        13.78         0.23        29.59 
TCGA-HT-8114 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 
       34.19        15.72         0.23        26.04         0.13        20.22 
TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 
        0.07        27.35         0.10         5.33         2.70        16.93 
TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H 
        1.81        16.14        16.83        17.52        17.65         2.43 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 
       15.35        11.05        56.58        45.44        41.49        68.32 
TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 
       69.27        35.44        39.75        40.01        42.54        24.92 
TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X 
       31.63        12.76        28.87        20.71        19.00        14.40 
TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ 
       14.40         0.23         6.71         7.99         2.37         2.30 
TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U 
        9.44         5.88         7.96         7.59         1.28         0.23 
TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 
       10.42        13.25        11.64        10.95         9.01        13.61 
TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 
        9.60         7.56        12.23        19.20         3.45         2.37 
TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS 
        4.41        15.16        12.62        15.85        14.04        19.33 
TCGA-QH-A6CU TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 
       14.83        13.61        12.23        13.41         9.17        10.29 
TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC 
       14.53        16.34        16.73         1.91        16.50        16.70 
TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X 
       11.08        12.99        88.83        94.03        32.65        30.87 
TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
        5.46         9.90        28.08         2.07        19.59        30.67 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ 
       87.12        18.77        41.10        40.93        35.38        36.82 
TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       24.39        25.81        29.85        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       95.93         5.85       123.65        75.25       135.22        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO 
       38.56        84.99        31.10        19.86        26.47        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.64        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QY 
       20.02         8.19         2.04        20.68        15.06        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 
       27.16       169.84        10.39        99.06        30.05        98.63 
TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 
       31.59        18.71        20.48        54.77        48.33        49.32 
TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G 
       34.78        65.39        24.92        16.18        59.05        40.64 
TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q 
       28.08        24.16        40.83        24.79        33.24        25.38 
TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH 
       18.61        14.93        23.80        21.37        19.69        15.98 
TCGA-TQ-A7RI TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ 
        2.04        36.69        33.73        31.20        30.05        26.14 
TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 
       25.87        33.93        26.99        31.36        45.93        43.20 
TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CH TCGA-VV-A829 
       13.51         0.10         7.89        39.16        23.47        37.05 
TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A85A TCGA-WY-A85C 
       23.21         8.05        51.06        13.32        43.40        46.88 
TCGA-WY-A85D TCGA-06-0209 TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 
       37.71         7.63        11.77         4.73        18.35        23.18 
TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 
       10.59        35.41        20.71        82.59        20.61        87.06 
TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 
       77.65        20.12        53.10        42.74        24.59        12.16 
TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 
       90.58         2.83        14.14         3.62        10.72        10.52 
TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 
       18.31         6.87        14.73         3.22        15.09        12.59 
TCGA-02-0054 TCGA-02-0055 TCGA-02-0057 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 
        6.54         2.50        19.86         9.57         6.02        19.73 
TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 
       26.43        28.70        25.05         5.49        10.19        20.84 
TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 
       27.25        89.72        22.72        12.62        51.32         8.81 
TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0106 
       57.76        16.96         3.48        27.02        65.00        11.67 
TCGA-02-0107 TCGA-02-0111 TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 
       17.65        23.18        92.65        99.98        15.65        48.95 
TCGA-02-0258 TCGA-02-0260 TCGA-02-0269 TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 
       16.54        16.93        10.75         3.98        13.87        14.20 
TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 
       15.95        12.23         9.90         7.73        10.62         7.33 
TCGA-02-0330 TCGA-02-0332 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 
       15.91        25.71        25.12        10.59        12.39        14.50 
TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 
       10.55        47.11        11.34         9.27        16.21         3.35 
TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 
       16.80        12.92        15.32        15.45        20.32         2.70 
TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 
        6.15        20.38        47.61         6.94         3.98        22.72 
TCGA-06-0129 TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 
       33.67        12.95        25.35        14.30        26.70        24.23 
TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 
       11.90         0.20        10.29         2.20        11.74         2.33 
TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0152 
       20.09        17.79        10.09         8.61        19.46        12.33 
TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 
       13.94        10.45         3.19        10.82         9.44        11.80 
TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 
        3.42        56.91        10.65         5.85        19.66         3.29 
TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 
       13.12         4.47         3.22         4.04        91.00         4.18 
TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 
       88.14        20.25         3.65        69.90        73.84        27.22 
TCGA-06-0188 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 
       44.58        15.42        10.42        38.96         4.67         7.40 
TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 
        5.56         0.39         7.66         8.42         7.40        11.84 
TCGA-06-0213 TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 
        0.53        15.02        24.16         0.72        19.82        13.64 
TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 
       13.32        20.42        48.69        10.82         9.01         0.26 
TCGA-06-0409 TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 TCGA-06-0414 TCGA-06-0644 
       72.36         4.70         9.57         3.16        35.11        12.62 
TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 
        5.75         5.75         9.80         2.10        23.57        14.20 
TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 
       46.88         7.86         2.70         2.70         0.92        43.46 
TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 
       46.19         7.17        40.41        16.57        20.78        26.76 
TCGA-06-1084 TCGA-06-1086 TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 
       23.93         6.84         4.04        26.79        11.84        15.32 
TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 
       13.61        33.90         1.08        12.49         4.93        17.65 
TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 
       12.56        30.64         5.95        16.64         5.98         4.37 
TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 
        0.43        31.50         7.79         5.39       120.56         7.36 
TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 
       22.68        37.84         4.18       115.86         1.74         8.42 
TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 
       25.71        12.16         9.80        29.23        65.33         1.28 
TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 
        8.42        17.95        24.56        31.10        37.58        22.29 
TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 
        3.39        12.23        14.93        18.02        15.35        13.97 
TCGA-08-0392 TCGA-08-0509 TCGA-08-0510 TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 
        0.72        12.56         4.27        42.15        11.08        19.59 
TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 
       58.68        19.33        10.75         4.80         7.27        15.98 
TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 
       18.41         7.56        14.73        12.99        34.92        10.45 
TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 
        7.59        94.78         0.10        38.17        25.97        26.66 
TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 
       12.13         3.65        20.38        28.41        15.06        53.85 
TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 
        7.63         9.73        14.93        14.86        91.76        24.79 
TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0826 TCGA-12-0827 TCGA-12-0828 
       18.48        10.62        23.51        27.78        38.76         8.94 
TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 
       20.58       127.59         5.82         7.59        33.21        15.98 
TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 
       12.23        15.85         9.11        14.53         3.98         4.14 
TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 TCGA-14-0867 TCGA-14-0871 
        2.24        11.24         1.35         5.39         2.04        28.93 
TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 TCGA-15-1447 
       19.30         0.79        13.78        50.53        19.10        53.19 
TCGA-15-1449 TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 
       13.28         3.91        26.07        16.37        11.77        21.90 
TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1389 TCGA-26-1442 
        0.66        10.75         9.07         5.95         4.64        31.33 
TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 
       14.86         5.49         1.58         7.92         2.33         7.30 
TCGA-28-2514 TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 TCGA-28-5211 TCGA-28-5213 
        5.26        14.93        11.28        17.88        11.77        31.27 
TCGA-28-5214 TCGA-28-5215 TCGA-28-5216 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 
       23.44        11.01        13.64        22.68        12.76         5.42 
TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 
        7.36        11.38         5.42         3.75         1.61        17.72 
TCGA-87-5896 
       26.30 

  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
             0.10              0.03 
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
           130.78            211.17 
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
            20.81             15.78 
[1] "0.1 - 130.8 (20.8)" "0.0 - 211.2 (15.8)"
[1] "hr=" "1.9"
D41V2, continuous
D41V3, binary
                   cls
clus                  0   1
  XQ GAIN MUTATED    17  40
  XQ GAIN WILD-TYPE 556 472
[1] "tbl2"
                   cls
clus                [,1] [,2]
  XQ GAIN MUTATED     17   40
  XQ GAIN WILD-TYPE  556  472
                        clus
vv                       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  BRAIN                               17               556
  CENTRAL NERVOUS SYSTEM              40               472
[1] 2 2
[1] FALSE
D41V4, binary
                   cls
clus                  0   1
  XQ GAIN MUTATED    31  26
  XQ GAIN WILD-TYPE 422 606
[1] "tbl2"
                   cls
clus                [,1] [,2]
  XQ GAIN MUTATED     31   26
  XQ GAIN WILD-TYPE  422  606
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  FEMALE              31               422
  MALE                26               606
[1] 2 2
[1] FALSE
D41V5, binary
                   cls
clus                  0   1
  XQ GAIN MUTATED    11  41
  XQ GAIN WILD-TYPE 247 729
[1] "tbl2"
                   cls
clus                [,1] [,2]
  XQ GAIN MUTATED     11   41
  XQ GAIN WILD-TYPE  247  729
     clus
vv    XQ GAIN MUTATED XQ GAIN WILD-TYPE
  NO               11               247
  YES              41               729
[1] 2 2
[1] FALSE
D41V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  XQ GAIN MUTATED            19                             1               15
  XQ GAIN WILD-TYPE         175                            29              114
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  XQ GAIN MUTATED                   6                   1
  XQ GAIN WILD-TYPE               183                  17
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  XQ GAIN MUTATED                                15
  XQ GAIN WILD-TYPE                             510
D41V7, multiclass
                                 clus
vv                                XQ GAIN MUTATED XQ GAIN WILD-TYPE
  ASTROCYTOMA                                  19               175
  GLIOBLASTOMA MULTIFORME (GBM)                 1                29
  OLIGOASTROCYTOMA                             15               114
  OLIGODENDROGLIOMA                             6               183
  TREATED PRIMARY GBM                           1                17
  UNTREATED PRIMARY (DE NOVO) GBM              15               510
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  XQ GAIN MUTATED                                  0     1
  XQ GAIN WILD-TYPE                                1    20
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  XQ GAIN MUTATED                           2    51
  XQ GAIN WILD-TYPE                        69   908
D41V8, multiclass
                                  clus
vv                                 XQ GAIN MUTATED XQ GAIN WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          1                20
  BLACK OR AFRICAN AMERICAN                      2                69
  WHITE                                         51               908
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D41V9, binary
                   cls
clus                  0   1
  XQ GAIN MUTATED     7  40
  XQ GAIN WILD-TYPE  37 881
[1] "tbl2"
                   cls
clus                [,1] [,2]
  XQ GAIN MUTATED      7   40
  XQ GAIN WILD-TYPE   37  881
                        clus
vv                       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  HISPANIC OR LATINO                   7                37
  NOT HISPANIC OR LATINO              40               881
[1] 2 2
[1] FALSE

Clustering(42) Variable = 1P LOSS MUTATION ANALYSIS
D42V1, survival
                   sevent
clus2                 0   1
  1P LOSS MUTATED   156  41
  1P LOSS WILD-TYPE 324 557
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
              197               881 
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
               41               557 
$`1P LOSS MUTATED`
TCGA-CS-6670 TCGA-DH-5141 TCGA-DU-7300 TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       46.88        31.82        62.01        20.09        17.82        20.45 
TCGA-HT-A619 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-5411 TCGA-19-1390 TCGA-19-2629 
       21.40        42.77        59.38         8.35        25.38        24.23 
TCGA-41-4097 TCGA-74-6575 TCGA-CS-5394 TCGA-CS-5396 TCGA-CS-6668 TCGA-DB-5274 
        0.20        20.91         0.26        53.62        49.94        75.25 
TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-A4XA TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L 
       91.13        44.52        18.84        72.95        31.63        24.20 
TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W 
       30.12         5.98        31.40        27.81        29.23        14.40 
TCGA-DB-A75K TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66F TCGA-DH-A7UR TCGA-DH-A7US 
       12.10        24.59        30.21        17.19        54.25        23.21 
TCGA-DU-5849 TCGA-DU-5870 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6396 
       14.56       182.33        15.16        52.11        22.42        75.16 
TCGA-DU-6397 TCGA-DU-6400 TCGA-DU-6410 TCGA-DU-7009 TCGA-DU-7014 TCGA-DU-7018 
       46.06         1.22         7.96       154.36       117.40        30.67 
TCGA-DU-7294 TCGA-DU-7302 TCGA-DU-8158 TCGA-DU-8164 TCGA-DU-8168 TCGA-DU-A6S2 
       94.32        60.30         5.10        21.40        14.17        25.55 
TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S8 TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7TG 
       21.57        95.11        22.29        21.30        17.98        44.42 
TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YO TCGA-E1-A7YS 
      134.27        78.21        95.57       130.78        75.02        15.32 
TCGA-E1-A7YY TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-FG-5962 TCGA-FG-5964 TCGA-FG-7634 
      146.14        39.48         0.23        47.77        52.21        15.35 
TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8189 TCGA-FG-A6IZ 
       22.55        20.61        14.24        16.01        22.52        15.02 
TCGA-FG-A6J1 TCGA-FG-A710 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7471 TCGA-HT-7477 
       16.44        36.66         0.10         6.67         0.13        24.26 
TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7605 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7616 
       75.19        95.93         4.57         3.16        22.06         0.23 
TCGA-HT-7620 TCGA-HT-7677 TCGA-HT-7681 TCGA-HT-7687 TCGA-HT-7692 TCGA-HT-7694 
       14.27        16.24        44.68         0.10         2.96         6.90 
TCGA-HT-7695 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 
       14.53        39.09         0.23        37.15         0.33         0.13 
TCGA-HT-7881 TCGA-HT-8010 TCGA-HT-8012 TCGA-HT-8105 TCGA-HT-8109 TCGA-HT-8113 
       35.47         1.64         9.40         6.25         5.56        29.59 
TCGA-HT-A4DV TCGA-HT-A5R9 TCGA-HT-A615 TCGA-HT-A61C TCGA-HT-A74K TCGA-HT-A74L 
       26.04         0.07        16.93        17.65        15.35        11.05 
TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8322 TCGA-HW-A5KJ 
       56.58        45.44        68.32        35.44        24.92        31.63 
TCGA-KT-A74X TCGA-P5-A5EX TCGA-P5-A5F0 TCGA-P5-A5F4 TCGA-P5-A72Z TCGA-P5-A730 
       14.40         7.99         9.44         7.59        11.64        10.95 
TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65V 
       12.23        19.20         3.45         4.41        15.16        12.62 
TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CY TCGA-QH-A6CZ 
       15.85        14.04        14.83        14.53        13.41         9.17 
TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A86X TCGA-R8-A6MK TCGA-R8-A6ML 
       14.53        16.34        16.73        11.08        88.83        94.03 
TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A840 TCGA-RY-A847 TCGA-S9-A6TW 
       32.65        30.87         5.46        28.08        30.67        41.10 
TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6UB TCGA-S9-A6WD 
       40.93        35.38        29.85        32.61       123.65        75.25 
TCGA-S9-A6WE TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WN TCGA-S9-A6WP 
      135.22        38.56        84.99        31.10        26.47        18.64 
TCGA-S9-A7IQ TCGA-S9-A7IY TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QY 
       36.13        23.51         8.19         2.04        20.68        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-TM-A7C5 TCGA-TM-A84G TCGA-TM-A84M TCGA-TM-A84O 
       27.16       169.84        49.32        40.64        24.79        33.24 
TCGA-TM-A84R TCGA-TM-A84S TCGA-TQ-A7RG TCGA-TQ-A7RI TCGA-TQ-A7RO TCGA-TQ-A7RQ 
       18.61        14.93        19.69         2.04        31.20        26.14 
TCGA-TQ-A7RU TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CE TCGA-VV-A829 TCGA-VW-A7QS 
       33.93        13.51         0.10        39.16        37.05        23.21 
TCGA-W9-A837 TCGA-02-0028 TCGA-02-0269 TCGA-02-0281 TCGA-08-0244 TCGA-08-0344 
       51.06        90.58        10.75         3.98        22.68       115.86 
TCGA-08-0392 TCGA-08-0510 TCGA-19-1387 TCGA-19-1388 TCGA-76-6660 
        0.72         4.27         5.95        12.95         3.75 

$`1P LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-DB-A4XC TCGA-DH-A66B TCGA-DU-A76O 
        1.48         3.98        51.55        46.72        42.05        17.16 
TCGA-E1-A7YN TCGA-FG-A87N TCGA-HW-7490 TCGA-06-1806 TCGA-06-5408 TCGA-06-5410 
       23.90        18.64        45.60        15.32        11.74         3.55 
TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 
        4.54         8.81         8.98         8.55         6.71         2.73 
TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 
        3.75         6.15         4.57         5.23         8.32        12.85 
TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 
        4.77         1.55         4.77         4.96        26.79         1.87 
TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 
        3.12         2.56        14.60        17.72        15.35        21.73 
TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 
       15.65        25.68        14.73         6.77        59.77        44.02 
TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 
       26.93        15.22        10.95        12.69        34.92        14.53 
TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 
       14.93         3.22         2.04        15.12        11.97         0.95 
TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 
        6.21        23.05        13.78         3.25         2.89        16.50 
TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 
       26.33        15.95         1.38         1.12         3.75        32.05 
TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 
       58.78        23.11         7.10         1.15        30.18         0.92 
TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 
       40.96         6.67        12.43         0.99         1.97        17.79 
TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 
       17.85         7.63         5.88         7.17        17.49         7.96 
TCGA-14-3477 TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 
        3.78         3.42        17.59        29.03         4.57        10.29 
TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 
       14.01         9.14        21.24        13.97         6.41         8.61 
TCGA-19-0963 TCGA-19-0964 TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 
       14.27         3.39         3.65         7.17        12.66         3.25 
TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 
        0.13         9.67         4.87         1.08         7.53         0.16 
TCGA-19-2625 TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 
        4.08         7.00         7.04         6.64        17.19         8.02 
TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 
       18.90         4.73        12.10         1.78        22.49        14.07 
TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 
       16.80        14.96        17.79        28.54        10.03        13.87 
TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 
        9.73         7.13         9.37         9.40         8.88        18.97 
TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 
       19.33         5.06        16.60         9.86        24.23        40.54 
TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 
       21.30        30.05        14.04        11.51        24.76        18.08 
TCGA-27-2521 TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 
       16.77        16.08         7.59         2.86        14.40        15.78 
TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 
        0.20         2.53         9.21         8.35         7.63         8.48 
TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 
        1.22         1.55         2.83         0.13         0.66         6.74 
TCGA-28-2509 TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 
        4.77        15.39        21.07         0.49         0.10        15.85 
TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 
       19.50         1.18         4.67        12.69        14.86        16.93 
TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 TCGA-32-2632 TCGA-32-2634 
       12.23        20.78        15.02        15.95         8.84        22.78 
TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 
       25.18        21.14         3.72        12.59        19.86        10.85 
TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 
       19.23         0.85        13.35         8.94         9.53         0.99 
TCGA-41-3393 TCGA-41-3915 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S 
        4.44        11.84        15.12        12.46         4.08         1.45 
TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 
       25.58         3.45         4.34        14.33         8.22         7.50 
TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4934 
        4.80         4.54         3.09         3.65         9.17         2.53 
TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 
       36.85        16.70         3.29         2.70        17.06         8.35 
TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 
       20.98         4.83         5.03        23.90        34.45        18.64 
TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 
       36.20         5.92         6.28        20.55       117.50         7.69 
TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5395 TCGA-CS-5397 
       43.89        36.36        60.10        40.18        21.01         6.38 
TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6669 
       17.69        26.76        37.38        46.95        48.30        49.12 
TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5280 
      122.73        81.96        47.93        72.92        50.86        36.56 
TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       78.28        46.42        30.21        39.78        37.45        33.57 
TCGA-DB-A64O TCGA-DB-A64S TCGA-DB-A64X TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O 
       25.48        27.45        18.51        11.24        17.88        30.74 
TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-A66D TCGA-DH-A66G 
       16.18        19.96        63.88        46.06        27.81        17.19 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5851 TCGA-DU-5852 
       17.46        13.71        18.61        18.02        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-6392 
       13.38         8.45         6.81        18.94        17.49       211.17 
TCGA-DU-6395 TCGA-DU-6399 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       49.02        65.75        87.45         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6542 TCGA-DU-7006 
       19.89        16.83        94.52       114.08         2.40        11.47 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 
       62.96       156.23        14.99       105.21         6.54         8.84 
TCGA-DU-7015 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7298 TCGA-DU-7299 
       90.77        26.30        10.36         7.96        18.94        44.02 
TCGA-DU-7301 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8161 TCGA-DU-8162 
       25.91        23.31        41.98         2.76        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-A5TP TCGA-DU-A5TR 
       20.68        19.13        16.96        15.48        33.27        29.85 
TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S7 
       31.69        24.43        26.17        24.99        33.96        20.98 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC 
       11.41        26.76       139.04        84.33        51.52        37.38 
TCGA-DU-A7TD TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 
        7.50        38.89         0.56        50.14        67.46        41.13 
TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI 
       79.99        57.93        14.30        29.13        93.21         3.65 
TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YQ TCGA-E1-A7YU 
       19.46        12.43        16.18        21.30        51.88         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       32.45        36.82        13.08        73.48       145.05        32.35 
TCGA-F6-A8O4 TCGA-FG-5963 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 
        0.20        25.48        36.82        18.77        14.93        42.54 
TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7636 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 
       41.33        18.44        17.88        20.09        28.34        13.68 
TCGA-FG-8188 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX 
       14.96        32.61        38.27        10.72        18.38        18.71 
TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z 
       23.70        14.76        21.53        22.26        28.54        10.78 
TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7472 
       48.69         5.72        27.52        11.54        40.11         0.03 
TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7478 TCGA-HT-7479 
       16.54         3.75        17.42         6.54         6.38        40.34 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7606 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7676 
      122.47        17.29        45.99        56.09        57.60         0.16 
TCGA-HT-7680 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 
        0.76         6.05        42.74        31.69        14.96         0.10 
TCGA-HT-7691 TCGA-HT-7693 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7858 TCGA-HT-7860 
        0.10        17.52        39.48        19.23        50.63         0.49 
TCGA-HT-7873 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 
       23.61         3.68         5.33         3.72        11.28        31.43 
TCGA-HT-8011 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 
       16.24        63.55         0.10        37.87        33.01        12.23 
TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8114 
        0.10         0.46         2.50        13.78         0.23        34.19 
TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5RA 
       28.27        15.72         0.23         0.13        20.22        27.35 
TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 
        0.10         5.33         2.70         1.81        16.14        16.83 
TCGA-HT-A61B TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74O TCGA-HW-7489 TCGA-HW-7493 
       17.52         2.43        10.52         0.10        41.49        69.27 
TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       39.75        40.01        42.54        12.76        28.87        20.71 
TCGA-IK-7675 TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EY TCGA-P5-A5EZ 
       19.00        14.40         0.23         6.71         2.37         2.30 
TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X 
        5.88         7.96         1.28         0.23        10.42        13.25 
TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A780 TCGA-QH-A65S 
        9.01        13.61         9.60         7.56         2.37         2.53 
TCGA-QH-A6CS TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6X3 TCGA-QH-A6X9 TCGA-QH-A6XA 
       19.33        13.61        12.23        10.29         1.91        16.50 
TCGA-QH-A6XC TCGA-QH-A870 TCGA-RY-A83Z TCGA-RY-A843 TCGA-RY-A845 TCGA-S9-A6TS 
       16.70        12.99         9.90         2.07        19.59        62.17 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U6 
       87.12        18.77        36.82        24.39        25.81        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6WG TCGA-S9-A6WM TCGA-S9-A6WO 
       98.24        95.93         5.85        85.55        19.86        18.61 
TCGA-S9-A6WQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7QW 
       14.07         7.92        26.93        19.99        20.02        15.06 
TCGA-S9-A7QX TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 
       18.54        10.39        99.06        30.05        98.63        31.59 
TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7CA TCGA-TM-A7CF 
       18.71        20.48        54.77        48.33        34.78        65.39 
TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J 
       24.92        16.18        59.05        30.44        28.08        24.16 
TCGA-TM-A84L TCGA-TM-A84Q TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RH TCGA-TQ-A7RJ 
       40.83        25.38        23.80        21.37        15.98        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RP TCGA-TQ-A7RR TCGA-TQ-A7RV 
       44.09        36.69        33.73        30.05        25.87        61.41 
TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CD TCGA-VM-A8CF 
       26.99        31.36        45.93        43.20         7.89        20.02 
TCGA-VM-A8CH TCGA-VV-A86M TCGA-VW-A8FI TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 
       23.47        16.01         8.05        13.32        43.96        39.88 
TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 
       43.40        45.80        46.88        37.71        20.81         7.63 
TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 
       11.77         4.73        18.35        23.18        10.59        35.41 
TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 
       20.71        82.59        20.61        87.06        77.65        20.12 
TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 TCGA-02-0033 TCGA-02-0034 
       53.10        42.74        24.59        12.16         2.83        14.14 
TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 
        3.62        10.72        10.52        18.31         6.87        14.73 
TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0055 TCGA-02-0057 
        3.22        15.09        12.59         6.54         2.50        19.86 
TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 
        8.35         9.57         6.02        19.73        26.43        28.70 
TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 TCGA-02-0079 TCGA-02-0080 
       25.05         5.49        10.19        20.84        27.25        89.72 
TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 
       22.72        12.62        51.32         8.81        57.76        16.96 
TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 
        3.48        27.02        65.00        11.67        17.65        23.18 
TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 
       92.65        99.98        15.65        48.95        16.54        16.93 
TCGA-02-0266 TCGA-02-0271 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 
       17.72        14.47        13.87        14.20        15.95        12.23 
TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 
        9.90         7.73        10.62         7.33        15.91        25.71 
TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 
        4.37        25.12        10.59        12.39        14.50        10.55 
TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 
       47.11        11.34         9.27        16.21         3.35        16.80 
TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 
       12.92        15.32        15.45        20.32         2.70         6.15 
TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 
       20.38        47.61         6.94         3.98        22.72        33.67 
TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 
       12.95        25.35        14.30        26.70        24.23        11.90 
TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 
        0.20        10.29         2.20        11.74         2.33        20.09 
TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 TCGA-06-0152 
       17.79        10.09         8.61        19.46        46.59        12.33 
TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 
       13.94        10.45         3.19        10.82         9.44        11.80 
TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 
        3.42        56.91        10.65         5.85        19.66         3.29 
TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 
       13.12         4.47         3.22         4.04        91.00         4.18 
TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 
       88.14        20.25         3.65        69.90        73.84        27.22 
TCGA-06-0188 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 
       44.58        15.42        10.42        38.96         4.67         7.40 
TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 
        5.56         0.39         7.66         8.42         7.40        11.84 
TCGA-06-0213 TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 
        0.53        15.02        24.16         0.72        19.82        13.64 
TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 
       13.32        20.42        48.69        10.82         9.01         0.26 
TCGA-06-0409 TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 TCGA-06-0414 TCGA-06-0644 
       72.36         4.70         9.57         3.16        35.11        12.62 
TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 
        5.75         5.75         9.80         2.10        23.57        14.20 
TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 
       26.40        46.88         7.86         2.70         2.70         0.92 
TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 
       43.46        46.19         7.17        40.41        16.57        20.78 
TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 
       26.76        23.93         6.84         4.04        26.79        11.84 
TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 
       15.32        13.61        33.90         1.08        12.49         4.93 
TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 
       17.65        12.56        30.64         5.95        16.64         5.98 
TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 
        4.37         0.43        31.50         7.79         5.39       120.56 
TCGA-06-6694 TCGA-08-0245 TCGA-08-0246 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 
        7.36        37.84         4.18         1.74         8.42        25.71 
TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 
       12.16         9.80        29.23        65.33         1.28         8.42 
TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 
       17.95        24.56        31.10        37.58        22.29         3.39 
TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 TCGA-08-0509 
       12.23        14.93        18.02        15.35        13.97        12.56 
TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 
       42.15        11.08        19.59        58.68        19.33        10.75 
TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 
        4.80         7.27        15.98        18.41         7.56        14.73 
TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 
       12.99        34.92        10.45         7.59        94.78         0.10 
TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 
       38.17        25.97        26.66        12.13         3.65        20.38 
TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 
       28.41        15.06        53.85        43.23         7.63         9.73 
TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 
       14.93        14.86        91.76        24.79        18.48        10.62 
TCGA-12-0822 TCGA-12-0826 TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 
       23.51        27.78        38.76         8.94        20.58       127.59 
TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 
        5.82         7.59        33.21        15.98        12.23        15.85 
TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 
        9.11        14.53         3.98         4.14         2.24        11.24 
TCGA-14-0813 TCGA-14-0817 TCGA-14-0867 TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 
        1.35         5.39         2.04        28.93        19.30         0.79 
TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 TCGA-15-1447 TCGA-15-1449 TCGA-16-0846 
       13.78        50.53        19.10        53.19        13.28         3.91 
TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 
       26.07        16.37        11.77        21.90         0.66        10.75 
TCGA-19-1386 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 
        9.07         4.64        31.33        14.86         5.49         1.58 
TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 TCGA-28-5207 
        7.92         2.33         7.30         5.26        14.93        11.28 
TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5215 
       17.88        14.53        11.77        31.27        23.44        11.01 
TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 
       13.64         5.16        22.68        12.76         5.42         7.36 
TCGA-76-6280 TCGA-76-6283 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
       11.38         5.42         1.61        17.72        26.30 

  1P LOSS MUTATED 1P LOSS WILD-TYPE 
             0.07              0.03 
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
           182.33            211.17 
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
            22.52             15.02 
[1] "0.1 - 182.3 (22.5)" "0.0 - 211.2 (15.0)"
[1] "hr=" "4.5"
D42V2, continuous
D42V3, binary
                   cls
clus                  0   1
  1P LOSS MUTATED    15 185
  1P LOSS WILD-TYPE 558 327
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1P LOSS MUTATED     15  185
  1P LOSS WILD-TYPE  558  327
                        clus
vv                       1P LOSS MUTATED 1P LOSS WILD-TYPE
  BRAIN                               15               558
  CENTRAL NERVOUS SYSTEM             185               327
[1] 2 2
[1] FALSE
D42V4, binary
                   cls
clus                  0   1
  1P LOSS MUTATED    89 111
  1P LOSS WILD-TYPE 364 521
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1P LOSS MUTATED     89  111
  1P LOSS WILD-TYPE  364  521
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  FEMALE              89               364
  MALE               111               521
[1] 2 2
[1] FALSE
D42V5, binary
                   cls
clus                  0   1
  1P LOSS MUTATED    97  90
  1P LOSS WILD-TYPE 161 680
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1P LOSS MUTATED     97   90
  1P LOSS WILD-TYPE  161  680
     clus
vv    1P LOSS MUTATED 1P LOSS WILD-TYPE
  NO               97               161
  YES              90               680
[1] 2 2
[1] FALSE
D42V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  1P LOSS MUTATED            10                             1               40
  1P LOSS WILD-TYPE         184                            29               89
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  1P LOSS MUTATED                 135                   1
  1P LOSS WILD-TYPE                54                  17
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  1P LOSS MUTATED                                13
  1P LOSS WILD-TYPE                             512
D42V7, multiclass
                                 clus
vv                                1P LOSS MUTATED 1P LOSS WILD-TYPE
  ASTROCYTOMA                                  10               184
  GLIOBLASTOMA MULTIFORME (GBM)                 1                29
  OLIGOASTROCYTOMA                             40                89
  OLIGODENDROGLIOMA                           135                54
  TREATED PRIMARY GBM                           1                17
  UNTREATED PRIMARY (DE NOVO) GBM              13               512
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  1P LOSS MUTATED                                  0     5
  1P LOSS WILD-TYPE                                1    16
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  1P LOSS MUTATED                           6   182
  1P LOSS WILD-TYPE                        65   777
D42V8, multiclass
                                  clus
vv                                 1P LOSS MUTATED 1P LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          5                16
  BLACK OR AFRICAN AMERICAN                      6                65
  WHITE                                        182               777
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D42V9, binary
                   cls
clus                  0   1
  1P LOSS MUTATED    12 177
  1P LOSS WILD-TYPE  32 744
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1P LOSS MUTATED     12  177
  1P LOSS WILD-TYPE   32  744
                        clus
vv                       1P LOSS MUTATED 1P LOSS WILD-TYPE
  HISPANIC OR LATINO                  12                32
  NOT HISPANIC OR LATINO             177               744
[1] 2 2
[1] FALSE

Clustering(43) Variable = 1Q LOSS MUTATION ANALYSIS
D43V1, survival
                   sevent
clus2                 0   1
  1Q LOSS MUTATED    24  22
  1Q LOSS WILD-TYPE 456 576
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
               46              1032 
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
               22               576 
$`1Q LOSS MUTATED`
TCGA-DH-5141 TCGA-R8-A73M TCGA-06-5411 TCGA-14-0740 TCGA-14-1034 TCGA-19-1390 
       31.82        59.38         8.35        11.97        15.95        25.38 
TCGA-19-2629 TCGA-41-4097 TCGA-74-6575 TCGA-CS-5396 TCGA-DB-5279 TCGA-DH-5144 
       24.23         0.20        20.91        53.62        44.52        24.59 
TCGA-DH-A669 TCGA-DU-5849 TCGA-DU-6396 TCGA-DU-6400 TCGA-DU-7294 TCGA-DU-8158 
       30.21        14.56        75.16         1.22        94.32         5.10 
TCGA-DU-A5TS TCGA-DU-A7TG TCGA-E1-5318 TCGA-E1-5322 TCGA-E1-A7YY TCGA-FG-5962 
       31.69        44.42        78.21       130.78       146.14        47.77 
TCGA-FG-8185 TCGA-FG-A710 TCGA-HT-7477 TCGA-HT-7605 TCGA-HT-7857 TCGA-HT-8113 
       14.24        36.66        24.26         4.57         0.23        29.59 
TCGA-P5-A5F4 TCGA-QH-A65S TCGA-QH-A65Z TCGA-QH-A6CV TCGA-QH-A6CZ TCGA-RY-A83Y 
        7.59         2.53        14.04        14.53         9.17         5.46 
TCGA-S9-A6WI TCGA-S9-A7R1 TCGA-02-0269 TCGA-02-0281 TCGA-08-0244 TCGA-08-0392 
       84.99       169.84        10.75         3.98        22.68         0.72 
TCGA-08-0510 TCGA-19-1387 TCGA-19-1388 TCGA-76-6660 
        4.27         5.95        12.95         3.75 

$`1Q LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-A66B 
        1.48         3.98        51.55        46.88        46.72        42.05 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       62.01        17.16        23.90        20.09        17.82        20.45 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-06-1806 TCGA-06-5408 
       18.64        21.40        45.60        42.77        15.32        11.74 
TCGA-06-5410 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 TCGA-06-5416 
        3.55         4.54         8.81         8.98         8.55         6.71 
TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 
        2.73         3.75         6.15         4.57         5.23         8.32 
TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 
       12.85         4.77         1.55         4.77         4.96        26.79 
TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 
        1.87         3.12         2.56        14.60        17.72        15.35 
TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 TCGA-12-1602 TCGA-12-3644 
       21.73        15.65        25.68        14.73         6.77        59.77 
TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 
       44.02        26.93        15.22        10.95        12.69        34.92 
TCGA-12-3653 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 TCGA-14-0781 
       14.53        14.93         3.22         2.04        15.12         0.95 
TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 
        6.21        23.05        13.78         3.25         2.89        16.50 
TCGA-14-0866 TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 
       26.33         1.38         1.12         3.75        32.05        58.78 
TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 
       23.11         7.10         1.15        30.18         0.92        40.96 
TCGA-14-1458 TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 TCGA-14-1823 
        6.67        12.43         0.99         1.97        17.79        17.85 
TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-3477 
        7.63         5.88         7.17        17.49         7.96         3.78 
TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 
        3.42        17.59        29.03         4.57        10.29        14.01 
TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 
        9.14        21.24        13.97         6.41         8.61        14.27 
TCGA-19-0964 TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 
        3.39         3.65         7.17        12.66         3.25         0.13 
TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 
        9.67         4.87         1.08         7.53         0.16         4.08 
TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 
        7.00         7.04         6.64        17.19         8.02        18.90 
TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 
        4.73        12.10         1.78        22.49        14.07        16.80 
TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 TCGA-26-1440 
       14.96        17.79        28.54        10.03        13.87         9.73 
TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX 
        7.13         9.37         9.40         8.88        18.97        19.33 
TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 
        5.06        16.60         9.86        24.23        40.54        21.30 
TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 
       30.05        14.04        11.51        24.76        18.08        16.77 
TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 
       16.08         7.59         2.86        14.40        15.78         0.20 
TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 
        2.53         9.21         8.35         7.63         8.48         1.22 
TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 
        1.55         2.83         0.13         0.66         6.74         4.77 
TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 
       15.39        21.07         0.49         0.10        15.85        19.50 
TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 
        1.18         4.67        12.69        14.86        16.93        12.23 
TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 
       20.78        15.02        15.95         8.84        22.78        25.18 
TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 
       21.14         3.72        12.59        19.86        10.85        19.23 
TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 
        0.85        13.35         8.94         9.53         0.99         4.44 
TCGA-41-3915 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T 
       11.84        15.12        12.46         4.08         1.45        25.58 
TCGA-74-6573 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 
        3.45         4.34        14.33         8.22         7.50         4.80 
TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 
        4.54         3.09         3.65         9.17         2.53        36.85 
TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 
       16.70         3.29         2.70        17.06         8.35        20.98 
TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 
        4.83         5.03        23.90        34.45        18.64        36.20 
TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 
        5.92         6.28        20.55       117.50         7.69        43.89 
TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5397 
       36.36        60.10        40.18         0.26        21.01         6.38 
TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       17.69        26.76        37.38        46.95        48.30        49.94 
TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 
       49.12       122.73        81.96        75.25        47.93        72.92 
TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA 
       50.86        91.13        36.56        78.28        46.42        18.84 
TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH 
       30.21        39.78        37.45        33.57        72.95        31.63 
TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S 
       24.20        25.48        30.12         5.98        31.40        27.45 
TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L 
       27.81        29.23        14.40        18.51        12.10        11.24 
TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 
       17.88        30.74        16.18        19.96        63.88        46.06 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 
       13.71        18.61        18.02        17.46         6.74        13.38 
TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 
        8.45         6.81       182.33        18.94        17.49        15.16 
TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6397 TCGA-DU-6399 
      211.17        52.11        22.42        49.02        46.06        65.75 
TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 
       87.45         7.04        11.64       133.74        19.89        16.83 
TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 
       94.52       114.08         7.96         2.40        11.47        62.96 
TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 
      156.23       154.36        14.99       105.21         6.54         8.84 
TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 
      117.40        90.77        30.67        26.30        10.36         7.96 
TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 
       18.94        44.02        25.91        60.30        23.31        41.98 
TCGA-DU-7309 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 
        2.76        23.74        14.60        20.68        21.40        19.13 
TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TT 
       16.96        15.48        14.17        33.27        29.85        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 
       20.98        22.29        11.41        26.76        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TI 
      139.04        84.33        51.52        37.38         7.50        38.89 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 
        0.56        50.14        67.46        41.13        79.99        57.93 
TCGA-E1-5311 TCGA-E1-5319 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI 
      134.27        95.57        14.30        29.13        93.21         3.65 
TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ 
       19.46        12.43        16.18        21.30        75.02        51.88 
TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7Z2 TCGA-E1-A7Z3 
       15.32         0.76        32.45        36.82        13.08        73.48 
TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5963 
      145.05        32.35        39.48         0.23         0.20        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       18.44        15.35        17.88        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 
       28.34        13.68        16.01        14.96        22.52        32.61 
TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J 
       38.27        10.72        18.38        18.71        23.70        14.76 
TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z 
       21.53        15.02        16.44        22.26        28.54        10.78 
TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 
       48.69         5.72        27.52         0.10         6.67        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 
        6.54         6.38        40.34        75.19        95.93       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 
       17.29         3.16        22.06        45.99        56.09        57.60 
TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
        0.23        14.27         0.16        16.24         0.76        44.68 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 
        6.05        42.74         0.10        31.69        14.96         0.10 
TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 
        0.10         2.96        17.52         6.90        14.53        39.48 
TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 
       19.23        39.09        50.63         0.49        23.61        37.15 
TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 
        0.33         0.13         3.68         5.33        35.47         3.72 
TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 
       11.28        31.43         1.64        16.24         9.40        63.55 
TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 
        0.10        37.87        33.01        12.23         6.25         0.10 
TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8114 
        0.46         2.50         5.56        13.78         0.23        34.19 
TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 
       28.27        15.72         0.23        26.04         0.13        20.22 
TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 
        0.07        27.35         0.10         5.33         2.70        16.93 
TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H 
        1.81        16.14        16.83        17.52        17.65         2.43 
TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 
       10.52        15.35        11.05         0.10        56.58        45.44 
TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 
       41.49        68.32        69.27        35.44        39.75        40.01 
TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       42.54        24.92        31.63        12.76        28.87        20.71 
TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX 
       19.00        14.40        14.40         0.23         6.71         7.99 
TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F6 
        2.37         2.30         9.44         5.88         7.96         1.28 
TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 
        0.23        10.42        13.25        11.64        10.95         9.01 
TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X 
       13.61         9.60         7.56        12.23        19.20         3.45 
TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A6CS 
        2.37         4.41        15.16        12.62        15.85        19.33 
TCGA-QH-A6CU TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6X3 TCGA-QH-A6X4 
       14.83        13.61        12.23        13.41        10.29        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       16.34        16.73         1.91        16.50        16.70        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Z 
       12.99        88.83        94.03        32.65        30.87         9.90 
TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU 
       28.08         2.07        19.59        30.67        62.17        87.12 
TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       18.77        41.10        40.93        35.38        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 
       25.81        29.85        32.61        35.15        98.24        95.93 
TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH 
        5.85       123.65        75.25       135.22        85.55        38.56 
TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ 
       31.10        19.86        26.47        18.61        18.64        14.07 
TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 
       36.13         7.92        26.93        23.51        19.99        20.02 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY 
        8.19         2.04        20.68        15.06        18.54        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 
       27.16        10.39        99.06        30.05        98.63        31.59 
TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA 
       18.71        20.48        54.77        48.33        49.32        34.78 
TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H 
       65.39        24.92        16.18        59.05        40.64        30.44 
TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q 
       28.08        24.16        40.83        24.79        33.24        25.38 
TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH 
       18.61        14.93        23.80        21.37        19.69        15.98 
TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO 
        2.04        40.41        44.09        36.69        33.73        31.20 
TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW 
       30.05        26.14        25.87        33.93        61.41        26.99 
TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD 
       31.36        45.93        43.20        13.51         0.10         7.89 
TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS 
       39.16        20.02        23.47        37.05        16.01        23.21 
TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A 
        8.05        51.06        13.32        43.96        39.88        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 TCGA-02-0001 
       45.80        46.88        37.71        20.81         7.63        11.77 
TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 
        4.73        18.35        23.18        10.59        35.41        20.71 
TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 
       82.59        20.61        87.06        77.65        20.12        53.10 
TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 
       42.74        24.59        12.16        90.58         2.83        14.14 
TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 
        3.62        10.72        10.52        18.31         6.87        14.73 
TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0055 TCGA-02-0057 
        3.22        15.09        12.59         6.54         2.50        19.86 
TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 
        8.35         9.57         6.02        19.73        26.43        28.70 
TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 TCGA-02-0079 TCGA-02-0080 
       25.05         5.49        10.19        20.84        27.25        89.72 
TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 
       22.72        12.62        51.32         8.81        57.76        16.96 
TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 
        3.48        27.02        65.00        11.67        17.65        23.18 
TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 
       92.65        99.98        15.65        48.95        16.54        16.93 
TCGA-02-0266 TCGA-02-0271 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 
       17.72        14.47        13.87        14.20        15.95        12.23 
TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 
        9.90         7.73        10.62         7.33        15.91        25.71 
TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 
        4.37        25.12        10.59        12.39        14.50        10.55 
TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 
       47.11        11.34         9.27        16.21         3.35        16.80 
TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 
       12.92        15.32        15.45        20.32         2.70         6.15 
TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 
       20.38        47.61         6.94         3.98        22.72        33.67 
TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 
       12.95        25.35        14.30        26.70        24.23        11.90 
TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 
        0.20        10.29         2.20        11.74         2.33        20.09 
TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 TCGA-06-0152 
       17.79        10.09         8.61        19.46        46.59        12.33 
TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 
       13.94        10.45         3.19        10.82         9.44        11.80 
TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 
        3.42        56.91        10.65         5.85        19.66         3.29 
TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 
       13.12         4.47         3.22         4.04        91.00         4.18 
TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 
       88.14        20.25         3.65        69.90        73.84        27.22 
TCGA-06-0188 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 
       44.58        15.42        10.42        38.96         4.67         7.40 
TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 
        5.56         0.39         7.66         8.42         7.40        11.84 
TCGA-06-0213 TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 
        0.53        15.02        24.16         0.72        19.82        13.64 
TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 
       13.32        20.42        48.69        10.82         9.01         0.26 
TCGA-06-0409 TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 TCGA-06-0414 TCGA-06-0644 
       72.36         4.70         9.57         3.16        35.11        12.62 
TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 
        5.75         5.75         9.80         2.10        23.57        14.20 
TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 
       26.40        46.88         7.86         2.70         2.70         0.92 
TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 
       43.46        46.19         7.17        40.41        16.57        20.78 
TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 
       26.76        23.93         6.84         4.04        26.79        11.84 
TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 
       15.32        13.61        33.90         1.08        12.49         4.93 
TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 
       17.65        12.56        30.64         5.95        16.64         5.98 
TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 
        4.37         0.43        31.50         7.79         5.39       120.56 
TCGA-06-6694 TCGA-08-0245 TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 
        7.36        37.84         4.18       115.86         1.74         8.42 
TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 
       25.71        12.16         9.80        29.23        65.33         1.28 
TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 
        8.42        17.95        24.56        31.10        37.58        22.29 
TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 
        3.39        12.23        14.93        18.02        15.35        13.97 
TCGA-08-0509 TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 
       12.56        42.15        11.08        19.59        58.68        19.33 
TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 
       10.75         4.80         7.27        15.98        18.41         7.56 
TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 
       14.73        12.99        34.92        10.45         7.59        94.78 
TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 
        0.10        38.17        25.97        26.66        12.13         3.65 
TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 
       20.38        28.41        15.06        53.85        43.23         7.63 
TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 
        9.73        14.93        14.86        91.76        24.79        18.48 
TCGA-12-0821 TCGA-12-0822 TCGA-12-0826 TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 
       10.62        23.51        27.78        38.76         8.94        20.58 
TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 
      127.59         5.82         7.59        33.21        15.98        12.23 
TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 TCGA-14-0787 
       15.85         9.11        14.53         3.98         4.14         2.24 
TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 TCGA-14-0867 TCGA-14-0871 TCGA-14-1037 
       11.24         1.35         5.39         2.04        28.93        19.30 
TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 TCGA-15-1447 TCGA-15-1449 
        0.79        13.78        50.53        19.10        53.19        13.28 
TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 
        3.91        26.07        16.37        11.77        21.90         0.66 
TCGA-19-1385 TCGA-19-1386 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 
       10.75         9.07         4.64        31.33        14.86         5.49 
TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 
        1.58         7.92         2.33         7.30         5.26        14.93 
TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 
       11.28        17.88        14.53        11.77        31.27        23.44 
TCGA-28-5215 TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 
       11.01        13.64         5.16        22.68        12.76         5.42 
TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        7.36        11.38         5.42         1.61        17.72        26.30 

  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
             0.20              0.03 
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
           169.84            211.17 
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
            18.43             15.98 
[1] "0.2 - 169.8 (18.4)" "0.0 - 211.2 (16.0)"
[1] "hr=" "1.5"
D43V2, continuous
D43V3, binary
                   cls
clus                  0   1
  1Q LOSS MUTATED    15  31
  1Q LOSS WILD-TYPE 558 481
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1Q LOSS MUTATED     15   31
  1Q LOSS WILD-TYPE  558  481
                        clus
vv                       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  BRAIN                               15               558
  CENTRAL NERVOUS SYSTEM              31               481
[1] 2 2
[1] FALSE
D43V4, binary
                   cls
clus                  0   1
  1Q LOSS MUTATED    21  25
  1Q LOSS WILD-TYPE 432 607
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1Q LOSS MUTATED     21   25
  1Q LOSS WILD-TYPE  432  607
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  FEMALE              21               432
  MALE                25               607
[1] 2 2
[1] FALSE
D43V5, binary
                   cls
clus                  0   1
  1Q LOSS MUTATED    16  27
  1Q LOSS WILD-TYPE 242 743
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1Q LOSS MUTATED     16   27
  1Q LOSS WILD-TYPE  242  743
     clus
vv    1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  NO               16               242
  YES              27               743
[1] 2 2
[1] FALSE
D43V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  1Q LOSS MUTATED             4                             1                6
  1Q LOSS WILD-TYPE         190                            29              123
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  1Q LOSS MUTATED                  21                   0
  1Q LOSS WILD-TYPE               168                  18
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  1Q LOSS MUTATED                                14
  1Q LOSS WILD-TYPE                             511
D43V7, multiclass
                                 clus
vv                                1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  ASTROCYTOMA                                   4               190
  GLIOBLASTOMA MULTIFORME (GBM)                 1                29
  OLIGOASTROCYTOMA                              6               123
  OLIGODENDROGLIOMA                            21               168
  TREATED PRIMARY GBM                           0                18
  UNTREATED PRIMARY (DE NOVO) GBM              14               511
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  1Q LOSS MUTATED                                  0     1
  1Q LOSS WILD-TYPE                                1    20
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  1Q LOSS MUTATED                           2    40
  1Q LOSS WILD-TYPE                        69   919
D43V8, multiclass
                                  clus
vv                                 1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          1                20
  BLACK OR AFRICAN AMERICAN                      2                69
  WHITE                                         40               919
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D43V9, binary
                   cls
clus                  0   1
  1Q LOSS MUTATED     1  41
  1Q LOSS WILD-TYPE  43 880
[1] "tbl2"
                   cls
clus                [,1] [,2]
  1Q LOSS MUTATED      1   41
  1Q LOSS WILD-TYPE   43  880
                        clus
vv                       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  HISPANIC OR LATINO                   1                43
  NOT HISPANIC OR LATINO              41               880
[1] 2 2
[1] FALSE

Clustering(44) Variable = 2P LOSS MUTATION ANALYSIS
D44V1, survival
                   sevent
clus2                 0   1
  2P LOSS MUTATED    19  35
  2P LOSS WILD-TYPE 461 563
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
               54              1024 
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
               35               563 
$`2P LOSS MUTATED`
TCGA-06-5416 TCGA-06-5856 TCGA-06-A6S0 TCGA-12-1600 TCGA-12-3646 TCGA-14-0783 
        6.71         3.75         3.12        14.73        44.02         6.21 
TCGA-14-0812 TCGA-19-1390 TCGA-19-1392 TCGA-19-2625 TCGA-19-5956 TCGA-28-2509 
        3.25        25.38         3.65         4.08        22.49         4.77 
TCGA-32-2615 TCGA-4W-AA9R TCGA-76-4934 TCGA-CS-6186 TCGA-CS-6666 TCGA-DH-5142 
       15.95         4.08         2.53        17.69        46.95        63.88 
TCGA-DU-6396 TCGA-DU-7010 TCGA-DU-7014 TCGA-DU-A7T6 TCGA-E1-A7YH TCGA-E1-A7YK 
       75.16        14.99       117.40        17.98        93.21        12.43 
TCGA-FG-A6J3 TCGA-HT-7469 TCGA-HT-7477 TCGA-HT-7690 TCGA-HT-7692 TCGA-HT-A5R7 
       22.26        11.54        24.26         0.10         2.96        20.22 
TCGA-HT-A61B TCGA-HW-7493 TCGA-P5-A5F6 TCGA-P5-A733 TCGA-QH-A6CW TCGA-S9-A89V 
       17.52        69.27         1.28        13.61        13.61        18.71 
TCGA-VM-A8C8 TCGA-02-0024 TCGA-02-0059 TCGA-02-0074 TCGA-02-0075 TCGA-06-0152 
       45.93        53.10         9.57        10.19        20.84        12.33 
TCGA-06-0182 TCGA-06-0188 TCGA-06-0414 TCGA-06-1087 TCGA-06-6389 TCGA-06-6694 
        3.65        44.58        35.11         4.04         7.79         7.36 
TCGA-12-0826 TCGA-14-0867 TCGA-15-1447 TCGA-16-0850 TCGA-19-1388 TCGA-28-5215 
       27.78         2.04        53.19        16.37        12.95        11.01 

$`2P LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K 
       42.05        62.01        17.16        23.90        20.09        17.82 
TCGA-FG-A713 TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M 
       20.45        18.64        21.40        45.60        42.77        59.38 
TCGA-06-1806 TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 
       15.32        11.74         3.55         8.35         4.54         8.81 
TCGA-06-5414 TCGA-06-5415 TCGA-06-5418 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 
        8.98         8.55         2.73         6.15         4.57         5.23 
TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 
        8.32        12.85         4.77         1.55         4.77         4.96 
TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 
       26.79         1.87         2.56        14.60        17.72        15.35 
TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 TCGA-12-1602 TCGA-12-3644 TCGA-12-3648 
       21.73        15.65        25.68         6.77        59.77        26.93 
TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 
       15.22        10.95        12.69        34.92        14.53        14.93 
TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0786 
        3.22         2.04        15.12        11.97         0.95        23.05 
TCGA-14-0790 TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 
       13.78         2.89        16.50        26.33        15.95         1.38 
TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 
        1.12         3.75        32.05        58.78        23.11         7.10 
TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 
        1.15        30.18         0.92        40.96         6.67        12.43 
TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 
        0.99         1.97        17.79        17.85         7.63         5.88 
TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-3477 TCGA-14-4157 TCGA-16-0848 
        7.17        17.49         7.96         3.78         3.42        17.59 
TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 
       29.03         4.57        10.29        14.01         9.14        21.24 
TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1786 
       13.97         6.41         8.61        14.27         3.39         7.17 
TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 
       12.66         3.25         0.13         9.67         4.87         1.08 
TCGA-19-2623 TCGA-19-2624 TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 
        7.53         0.16        24.23         7.00         7.04         6.64 
TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 
       17.19         8.02        18.90         4.73        12.10         1.78 
TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 
       14.07        16.80        14.96        17.79        28.54        10.03 
TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 
       13.87         9.73         7.13         9.37         9.40         8.88 
TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 
       18.97        19.33         5.06        16.60         9.86        24.23 
TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 
       40.54        21.30        30.05        14.04        11.51        24.76 
TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 
       18.08        16.77        16.08         7.59         2.86        14.40 
TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 
       15.78         0.20         2.53         9.21         8.35         7.63 
TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 
        8.48         1.22         1.55         2.83         0.13         0.66 
TCGA-28-2506 TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 
        6.74        15.39        21.07         0.49         0.10        15.85 
TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 
       19.50         1.18         4.67        12.69        14.86        16.93 
TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 
       12.23        20.78        15.02         8.84        22.78        25.18 
TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 
       21.14         3.72        12.59        19.86        10.85        19.23 
TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 
        0.85        13.35         8.94         9.53         0.99         4.44 
TCGA-41-3915 TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9S TCGA-4W-AA9T 
       11.84         0.20        15.12        12.46         1.45        25.58 
TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 
        3.45        20.91         4.34        14.33         8.22         7.50 
TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4935 
        4.80         4.54         3.09         3.65         9.17        36.85 
TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 
       16.70         3.29         2.70        17.06         8.35        20.98 
TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 
        4.83         5.03        23.90        34.45        18.64        36.20 
TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 
        5.92         6.28        20.55       117.50         7.69        43.89 
TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 
       36.36        60.10        40.18         0.26        21.01        53.62 
TCGA-CS-5397 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 
        6.38        26.76        37.38        48.30        49.94        49.12 
TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 
      122.73        81.96        75.25        47.93        72.92        50.86 
TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA 
       91.13        44.52        36.56        78.28        46.42        18.84 
TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH 
       30.21        39.78        37.45        33.57        72.95        31.63 
TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S 
       24.20        25.48        30.12         5.98        31.40        27.45 
TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L 
       27.81        29.23        14.40        18.51        12.10        11.24 
TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5143 TCGA-DH-5144 
       17.88        30.74        16.18        19.96        46.06        24.59 
TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       30.21        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 
       17.49        15.16       211.17        52.11        22.42        49.02 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 
      133.74        19.89        16.83        94.52       114.08         7.96 
TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7011 
        2.40        11.47        62.96       156.23       154.36       105.21 
TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        6.54         8.84        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 
        7.96        94.32        18.94        44.02        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       20.68        21.40        19.13        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       33.27        29.85        31.69        24.43        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       33.96        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB 
       11.41        26.76        21.30       139.04        84.33        51.52 
TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 
       37.38         7.50        44.42        38.89         0.56        50.14 
TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 
       67.46        41.13        79.99        57.93       134.27        78.21 
TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YI TCGA-E1-A7YJ 
       95.57       130.78        14.30        29.13         3.65        19.46 
TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU 
       16.18        21.30        75.02        51.88        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       18.44        15.35        17.88        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 
       28.34        13.68        14.24        16.01        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY 
       32.61        38.27        10.72        18.38        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A70Y TCGA-FG-A70Z 
       14.76        21.53        15.02        16.44        28.54        10.78 
TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 
       36.66        48.69         5.72        27.52         0.10         6.67 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 
        6.54         6.38        40.34        75.19        95.93       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
        4.57        17.29         3.16        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       57.60         0.23        14.27         0.16        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 
       44.68         6.05        42.74         0.10        31.69        14.96 
TCGA-HT-7691 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 
        0.10        17.52         6.90        14.53        39.48        19.23 
TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 
       39.09         0.23        50.63         0.49        23.61        37.15 
TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 
        0.33         0.13         3.68         5.33        35.47         3.72 
TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 
       11.28        31.43         1.64        16.24         9.40        63.55 
TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 
        0.10        37.87        33.01        12.23         6.25         0.10 
TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 
        0.46         2.50         5.56        13.78         0.23        29.59 
TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 
       34.19        28.27        15.72         0.23        26.04         0.13 
TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 
        0.07        27.35         0.10         5.33         2.70        16.93 
TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J 
        1.81        16.14        16.83        17.65         2.43        10.52 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 
       15.35        11.05         0.10        56.58        45.44        41.49 
TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 
       68.32        35.44        39.75        40.01        42.54        24.92 
TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X 
       31.63        12.76        28.87        20.71        19.00        14.40 
TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ 
       14.40         0.23         6.71         7.99         2.37         2.30 
TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A72U TCGA-P5-A72W 
        9.44         5.88         7.96         7.59         0.23        10.42 
TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A735 TCGA-P5-A736 
       13.25        11.64        10.95         9.01         9.60         7.56 
TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R 
       12.23        19.20         3.45         2.37         4.41        15.16 
TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU 
        2.53        12.62        15.85        14.04        19.33        14.83 
TCGA-QH-A6CV TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 
       14.53        12.23        13.41         9.17        10.29        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       16.34        16.73         1.91        16.50        16.70        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y 
       12.99        88.83        94.03        32.65        30.87         5.46 
TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS 
        9.90        28.08         2.07        19.59        30.67        62.17 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ 
       87.12        18.77        41.10        40.93        35.38        36.82 
TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       24.39        25.81        29.85        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       95.93         5.85       123.65        75.25       135.22        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO 
       38.56        84.99        31.10        19.86        26.47        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.64        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       18.54        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 
       30.05        98.63        31.59        20.48        54.77        48.33 
TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F 
       49.32        34.78        65.39        24.92        16.18        59.05 
TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M 
       40.64        30.44        28.08        24.16        40.83        24.79 
TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF 
       33.24        25.38        18.61        14.93        23.80        21.37 
TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM 
       19.69        15.98         2.04        40.41        44.09        36.69 
TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU 
       33.73        31.20        30.05        26.14        25.87        33.93 
TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB 
       61.41        26.99        31.36        43.20        13.51         0.10 
TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M 
        7.89        39.16        20.02        23.47        37.05        16.01 
TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 
       23.21         8.05        51.06        13.32        43.96        39.88 
TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 
       43.40        45.80        46.88        37.71        20.81         7.63 
TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 
       11.77         4.73        18.35        23.18        10.59        35.41 
TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 
       20.71        82.59        20.61        87.06        77.65        20.12 
TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 
       42.74        24.59        12.16        90.58         2.83        14.14 
TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 
        3.62        10.72        10.52        18.31         6.87        14.73 
TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0055 TCGA-02-0057 
        3.22        15.09        12.59         6.54         2.50        19.86 
TCGA-02-0058 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 
        8.35         6.02        19.73        26.43        28.70        25.05 
TCGA-02-0071 TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 
        5.49        27.25        89.72        22.72        12.62        51.32 
TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 
        8.81        57.76        16.96         3.48        27.02        65.00 
TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 
       11.67        17.65        23.18        92.65        99.98        15.65 
TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 
       48.95        16.54        16.93        17.72        10.75        14.47 
TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 
        3.98        13.87        14.20        15.95        12.23         9.90 
TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 
        7.73        10.62         7.33        15.91        25.71         4.37 
TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 
       25.12        10.59        12.39        14.50        10.55        47.11 
TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 
       11.34         9.27        16.21         3.35        16.80        12.92 
TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 
       15.32        15.45        20.32         2.70         6.15        20.38 
TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 
       47.61         6.94         3.98        22.72        33.67        12.95 
TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 
       25.35        14.30        26.70        24.23        11.90         0.20 
TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 
       10.29         2.20        11.74         2.33        20.09        17.79 
TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 TCGA-06-0154 TCGA-06-0155 
       10.09         8.61        19.46        46.59        13.94        10.45 
TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 
        3.19        10.82         9.44        11.80         3.42        56.91 
TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 
       10.65         5.85        19.66         3.29        13.12         4.47 
TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 
        3.22         4.04        91.00         4.18        88.14        20.25 
TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 
       69.90        73.84        27.22        15.42        10.42        38.96 
TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 
        4.67         7.40         5.56         0.39         7.66         8.42 
TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 
        7.40        11.84         0.53        15.02        24.16         0.72 
TCGA-06-0221 TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 
       19.82        13.64        13.32        20.42        48.69        10.82 
TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 
        9.01         0.26        72.36         4.70         9.57         3.16 
TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 
       12.62         5.75         5.75         9.80         2.10        23.57 
TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 
       14.20        26.40        46.88         7.86         2.70         2.70 
TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 
        0.92        43.46        46.19         7.17        40.41        16.57 
TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1800 TCGA-06-1801 
       20.78        26.76        23.93         6.84        26.79        11.84 
TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 
       15.32        13.61        33.90         1.08        12.49         4.93 
TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 
       17.65        12.56        30.64         5.95        16.64         5.98 
TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 TCGA-06-6390 TCGA-06-6693 TCGA-08-0244 
        4.37         0.43        31.50         5.39       120.56        22.68 
TCGA-08-0245 TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 
       37.84         4.18       115.86         1.74         8.42        25.71 
TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 
       12.16         9.80        29.23        65.33         1.28         8.42 
TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 
       17.95        24.56        31.10        37.58        22.29         3.39 
TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 
       12.23        14.93        18.02        15.35        13.97         0.72 
TCGA-08-0509 TCGA-08-0510 TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 
       12.56         4.27        42.15        11.08        19.59        58.68 
TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 
       19.33        10.75         4.80         7.27        15.98        18.41 
TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 
        7.56        14.73        12.99        34.92        10.45         7.59 
TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 
       94.78         0.10        38.17        25.97        26.66        12.13 
TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 
        3.65        20.38        28.41        15.06        53.85        43.23 
TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 
        7.63         9.73        14.93        14.86        91.76        24.79 
TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 
       18.48        10.62        23.51        38.76         8.94        20.58 
TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 
      127.59         5.82         7.59        33.21        15.98        12.23 
TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 TCGA-14-0787 
       15.85         9.11        14.53         3.98         4.14         2.24 
TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 
       11.24         1.35         5.39        28.93        19.30         0.79 
TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 TCGA-15-1449 TCGA-16-0846 TCGA-16-0849 
       13.78        50.53        19.10        13.28         3.91        26.07 
TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 
       11.77        21.90         0.66        10.75         9.07         5.95 
TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 
        4.64        31.33        14.86         5.49         1.58         7.92 
TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 
        2.33         7.30         5.26        14.93        11.28        17.88 
TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5216 TCGA-28-5218 
       14.53        11.77        31.27        23.44        13.64         5.16 
TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 
       22.68        12.76         5.42         7.36        11.38         5.42 
TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        3.75         1.61        17.72        26.30 

  2P LOSS MUTATED 2P LOSS WILD-TYPE 
             0.10              0.03 
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
           117.40            211.17 
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
           14.170            16.045 
[1] "0.1 - 117.4 (14.2)" "0.0 - 211.2 (16.0)"
[1] "hr=" "1.3"
D44V2, continuous
D44V3, binary
                   cls
clus                  0   1
  2P LOSS MUTATED    32  22
  2P LOSS WILD-TYPE 541 490
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2P LOSS MUTATED     32   22
  2P LOSS WILD-TYPE  541  490
                        clus
vv                       2P LOSS MUTATED 2P LOSS WILD-TYPE
  BRAIN                               32               541
  CENTRAL NERVOUS SYSTEM              22               490
[1] 2 2
[1] FALSE
D44V4, binary
                   cls
clus                  0   1
  2P LOSS MUTATED    26  28
  2P LOSS WILD-TYPE 427 604
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2P LOSS MUTATED     26   28
  2P LOSS WILD-TYPE  427  604
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  FEMALE              26               427
  MALE                28               604
[1] 2 2
[1] FALSE
D44V5, binary
                   cls
clus                  0   1
  2P LOSS MUTATED    10  41
  2P LOSS WILD-TYPE 248 729
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2P LOSS MUTATED     10   41
  2P LOSS WILD-TYPE  248  729
     clus
vv    2P LOSS MUTATED 2P LOSS WILD-TYPE
  NO               10               248
  YES              41               729
[1] 2 2
[1] FALSE
D44V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  2P LOSS MUTATED            12                             2                5
  2P LOSS WILD-TYPE         182                            28              124
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  2P LOSS MUTATED                   5                   1
  2P LOSS WILD-TYPE               184                  17
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  2P LOSS MUTATED                                29
  2P LOSS WILD-TYPE                             496
D44V7, multiclass
                                 clus
vv                                2P LOSS MUTATED 2P LOSS WILD-TYPE
  ASTROCYTOMA                                  12               182
  GLIOBLASTOMA MULTIFORME (GBM)                 2                28
  OLIGOASTROCYTOMA                              5               124
  OLIGODENDROGLIOMA                             5               184
  TREATED PRIMARY GBM                           1                17
  UNTREATED PRIMARY (DE NOVO) GBM              29               496
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  2P LOSS MUTATED                                  0     0
  2P LOSS WILD-TYPE                                1    21
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  2P LOSS MUTATED                           2    52
  2P LOSS WILD-TYPE                        69   907
D44V8, multiclass
                                  clus
vv                                 2P LOSS MUTATED 2P LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                21
  BLACK OR AFRICAN AMERICAN                      2                69
  WHITE                                         52               907
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D44V9, binary
                   cls
clus                  0   1
  2P LOSS MUTATED     0  47
  2P LOSS WILD-TYPE  44 874
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2P LOSS MUTATED      0   47
  2P LOSS WILD-TYPE   44  874
                        clus
vv                       2P LOSS MUTATED 2P LOSS WILD-TYPE
  HISPANIC OR LATINO                   0                44
  NOT HISPANIC OR LATINO              47               874
[1] 2 2
[1] FALSE

Clustering(45) Variable = 2Q LOSS MUTATION ANALYSIS
D45V1, survival
                   sevent
clus2                 0   1
  2Q LOSS MUTATED    17  35
  2Q LOSS WILD-TYPE 463 563
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
               52              1026 
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
               35               563 
$`2Q LOSS MUTATED`
TCGA-DH-A66B TCGA-06-5416 TCGA-06-5856 TCGA-06-A6S0 TCGA-12-1600 TCGA-12-3646 
       42.05         6.71         3.75         3.12        14.73        44.02 
TCGA-14-0783 TCGA-14-0812 TCGA-19-1390 TCGA-19-1392 TCGA-19-2625 TCGA-19-5956 
        6.21         3.25        25.38         3.65         4.08        22.49 
TCGA-28-2509 TCGA-32-2615 TCGA-4W-AA9R TCGA-76-4934 TCGA-CS-6666 TCGA-DB-5277 
        4.77        15.95         4.08         2.53        46.95        50.86 
TCGA-DH-5142 TCGA-DU-6396 TCGA-DU-6408 TCGA-DU-A7T6 TCGA-E1-A7YH TCGA-E1-A7YK 
       63.88        75.16       114.08        17.98        93.21        12.43 
TCGA-FG-A6J3 TCGA-HT-7477 TCGA-HT-7690 TCGA-HT-7692 TCGA-HT-A618 TCGA-HT-A61B 
       22.26        24.26         0.10         2.96        16.83        17.52 
TCGA-HW-7493 TCGA-P5-A5F6 TCGA-P5-A733 TCGA-QH-A6CW TCGA-02-0024 TCGA-02-0059 
       69.27         1.28        13.61        13.61        53.10         9.57 
TCGA-02-0074 TCGA-02-0075 TCGA-06-0152 TCGA-06-0182 TCGA-06-0188 TCGA-06-0414 
       10.19        20.84        12.33         3.65        44.58        35.11 
TCGA-06-1087 TCGA-06-6694 TCGA-12-0826 TCGA-12-1099 TCGA-14-0867 TCGA-15-1444 
        4.04         7.36        27.78         4.14         2.04        50.53 
TCGA-15-1447 TCGA-16-0850 TCGA-19-1388 TCGA-28-5215 
       53.19        16.37        12.95        11.01 

$`2Q LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       62.01        17.16        23.90        20.09        17.82        20.45 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 
       18.64        21.40        45.60        42.77        59.38        15.32 
TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 
       11.74         3.55         8.35         4.54         8.81         8.98 
TCGA-06-5415 TCGA-06-5418 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 
        8.55         2.73         6.15         4.57         5.23         8.32 
TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 
       12.85         4.77         1.55         4.77         4.96        26.79 
TCGA-06-A5U1 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 
        1.87         2.56        14.60        17.72        15.35        21.73 
TCGA-12-1598 TCGA-12-1599 TCGA-12-1602 TCGA-12-3644 TCGA-12-3648 TCGA-12-3649 
       15.65        25.68         6.77        59.77        26.93        15.22 
TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 TCGA-12-5299 
       10.95        12.69        34.92        14.53        14.93         3.22 
TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0786 TCGA-14-0790 
        2.04        15.12        11.97         0.95        23.05        13.78 
TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 
        2.89        16.50        26.33        15.95         1.38         1.12 
TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 
        3.75        32.05        58.78        23.11         7.10         1.15 
TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1794 
       30.18         0.92        40.96         6.67        12.43         0.99 
TCGA-14-1795 TCGA-14-1821 TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 
        1.97        17.79        17.85         7.63         5.88         7.17 
TCGA-14-2554 TCGA-14-2555 TCGA-14-3477 TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 
       17.49         7.96         3.78         3.42        17.59        29.03 
TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 
        4.57        10.29        14.01         9.14        21.24        13.97 
TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1786 TCGA-19-1787 
        6.41         8.61        14.27         3.39         7.17        12.66 
TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 
        3.25         0.13         9.67         4.87         1.08         7.53 
TCGA-19-2624 TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 
        0.16        24.23         7.00         7.04         6.64        17.19 
TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5958 
        8.02        18.90         4.73        12.10         1.78        14.07 
TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 
       16.80        14.96        17.79        28.54        10.03        13.87 
TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 
        9.73         7.13         9.37         9.40         8.88        18.97 
TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 
       19.33         5.06        16.60         9.86        24.23        40.54 
TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 
       21.30        30.05        14.04        11.51        24.76        18.08 
TCGA-27-2521 TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 
       16.77        16.08         7.59         2.86        14.40        15.78 
TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 
        0.20         2.53         9.21         8.35         7.63         8.48 
TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 
        1.22         1.55         2.83         0.13         0.66         6.74 
TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 
       15.39        21.07         0.49         0.10        15.85        19.50 
TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 
        1.18         4.67        12.69        14.86        16.93        12.23 
TCGA-32-2494 TCGA-32-2495 TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 
       20.78        15.02         8.84        22.78        25.18        21.14 
TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 
        3.72        12.59        19.86        10.85        19.23         0.85 
TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 
       13.35         8.94         9.53         0.99         4.44        11.84 
TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 
        0.20        15.12        12.46         1.45        25.58         3.45 
TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 
       20.91         4.34        14.33         8.22         7.50         4.80 
TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4935 TCGA-76-6191 
        4.54         3.09         3.65         9.17        36.85        16.70 
TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 
        3.29         2.70        17.06         8.35        20.98         4.83 
TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R 
        5.03        23.90        34.45        18.64        36.20         5.92 
TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 
        6.28        20.55       117.50         7.69        43.89        36.36 
TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 
       60.10        40.18         0.26        21.01        53.62         6.38 
TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 
       17.69        26.76        37.38        48.30        49.94        49.12 
TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5278 
      122.73        81.96        75.25        47.93        72.92        91.13 
TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB 
       44.52        36.56        78.28        46.42        18.84        30.21 
TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L 
       39.78        37.45        33.57        72.95        31.63        24.20 
TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U 
       25.48        30.12         5.98        31.40        27.45        27.81 
TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M 
       29.23        14.40        18.51        12.10        11.24        17.88 
TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       30.74        16.18        19.96        46.06        24.59        30.21 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6397 
       15.16       211.17        52.11        22.42        49.02        46.06 
TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       65.75         1.22        87.45         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 
       19.89        16.83        94.52         7.96         2.40        11.47 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 
       62.96       156.23       154.36        14.99       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        8.84       117.40        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 
        7.96        94.32        18.94        44.02        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       20.68        21.40        19.13        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       33.27        29.85        31.69        24.43        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       33.96        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB 
       11.41        26.76        21.30       139.04        84.33        51.52 
TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 
       37.38         7.50        44.42        38.89         0.56        50.14 
TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 
       67.46        41.13        79.99        57.93       134.27        78.21 
TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YI TCGA-E1-A7YJ 
       95.57       130.78        14.30        29.13         3.65        19.46 
TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU 
       16.18        21.30        75.02        51.88        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       18.44        15.35        17.88        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 
       28.34        13.68        14.24        16.01        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY 
       32.61        38.27        10.72        18.38        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A70Y TCGA-FG-A70Z 
       14.76        21.53        15.02        16.44        28.54        10.78 
TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 
       36.66        48.69         5.72        27.52         0.10         6.67 
TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
       11.54        40.11         0.13         0.03        16.54         3.75 
TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
       17.42         6.54         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 
        0.76        44.68         6.05        42.74         0.10        31.69 
TCGA-HT-7689 TCGA-HT-7691 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 
       14.96         0.10        17.52         6.90        14.53        39.48 
TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 
       19.23        39.09         0.23        50.63         0.49        23.61 
TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
       37.15         0.33         0.13         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 
        3.72        11.28        31.43         1.64        16.24         9.40 
TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 
       63.55         0.10        37.87        33.01        12.23         6.25 
TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 
        0.10         0.46         2.50         5.56        13.78         0.23 
TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV 
       29.59        34.19        28.27        15.72         0.23        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC 
        0.13        20.22         0.07        27.35         0.10         5.33 
TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A61C TCGA-HT-A74H 
        2.70        16.93         1.81        16.14        17.65         2.43 
TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 
       10.52        15.35        11.05         0.10        56.58        45.44 
TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       41.49        68.32        35.44        39.75        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 
       24.92        31.63        12.76        28.87        20.71        19.00 
TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY 
       14.40        14.40         0.23         6.71         7.99         2.37 
TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A72U 
        2.30         9.44         5.88         7.96         7.59         0.23 
TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A735 
       10.42        13.25        11.64        10.95         9.01         9.60 
TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 
        7.56        12.23        19.20         3.45         2.37         4.41 
TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS 
       15.16         2.53        12.62        15.85        14.04        19.33 
TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 
       14.83        14.53        12.23        13.41         9.17        10.29 
TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC 
       14.53        16.34        16.73         1.91        16.50        16.70 
TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X 
       11.08        12.99        88.83        94.03        32.65        30.87 
TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
        5.46         9.90        28.08         2.07        19.59        30.67 
TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY 
       62.17        87.12        18.77        41.10        40.93        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       36.82        24.39        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE 
       98.24        95.93         5.85       123.65        75.25       135.22 
TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN 
       85.55        38.56        84.99        31.10        19.86        26.47 
TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX 
       18.61        18.64        14.07        36.13         7.92        26.93 
TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       23.51        19.99        20.02         8.19         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 
       15.06        18.54        28.37        27.16       169.84        10.39 
TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z 
       99.06        30.05        98.63        31.59        18.71        20.48 
TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B 
       54.77        48.33        49.32        34.78        65.39        24.92 
TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J 
       16.18        59.05        40.64        30.44        28.08        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ 
       23.80        21.37        19.69        15.98         2.04        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ 
       44.09        36.69        33.73        31.20        30.05        26.14 
TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 
       25.87        33.93        61.41        26.99        31.36        45.93 
TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF 
       43.20        13.51         0.10         7.89        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 
       23.47        37.05        16.01        23.21         8.05        51.06 
TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C 
       13.32        43.96        39.88        43.40        45.80        46.88 
TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 
       37.71        20.81         7.63        11.77         4.73        18.35 
TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 
       23.18        10.59        35.41        20.71        82.59        20.61 
TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 
       87.06        77.65        20.12        42.74        24.59        12.16 
TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 
       90.58         2.83        14.14         3.62        10.72        10.52 
TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 
       18.31         6.87        14.73         3.22        15.09        12.59 
TCGA-02-0054 TCGA-02-0055 TCGA-02-0057 TCGA-02-0058 TCGA-02-0060 TCGA-02-0064 
        6.54         2.50        19.86         8.35         6.02        19.73 
TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 TCGA-02-0079 TCGA-02-0080 
       26.43        28.70        25.05         5.49        27.25        89.72 
TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 
       22.72        12.62        51.32         8.81        57.76        16.96 
TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 
        3.48        27.02        65.00        11.67        17.65        23.18 
TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 
       92.65        99.98        15.65        48.95        16.54        16.93 
TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 
       17.72        10.75        14.47         3.98        13.87        14.20 
TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 
       15.95        12.23         9.90         7.73        10.62         7.33 
TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 
       15.91        25.71         4.37        25.12        10.59        12.39 
TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 
       14.50        10.55        47.11        11.34         9.27        16.21 
TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 
        3.35        16.80        12.92        15.32        15.45        20.32 
TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 
        2.70         6.15        20.38        47.61         6.94         3.98 
TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 
       22.72        33.67        12.95        25.35        14.30        26.70 
TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 
       24.23        11.90         0.20        10.29         2.20        11.74 
TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 
        2.33        20.09        17.79        10.09         8.61        19.46 
TCGA-06-0151 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 
       46.59        13.94        10.45         3.19        10.82         9.44 
TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 
       11.80         3.42        56.91        10.65         5.85        19.66 
TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 
        3.29        13.12         4.47         3.22         4.04        91.00 
TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 
        4.18        88.14        20.25        69.90        73.84        27.22 
TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 
       15.42        10.42        38.96         4.67         7.40         5.56 
TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 
        0.39         7.66         8.42         7.40        11.84         0.53 
TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 TCGA-06-0238 
       15.02        24.16         0.72        19.82        13.64        13.32 
TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 
       20.42        48.69        10.82         9.01         0.26        72.36 
TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 
        4.70         9.57         3.16        12.62         5.75         5.75 
TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 
        9.80         2.10        23.57        14.20        26.40        46.88 
TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 
        7.86         2.70         2.70         0.92        43.46        46.19 
TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 
        7.17        40.41        16.57        20.78        26.76        23.93 
TCGA-06-1086 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 
        6.84        26.79        11.84        15.32        13.61        33.90 
TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 
        1.08        12.49         4.93        17.65        12.56        30.64 
TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 
        5.95        16.64         5.98         4.37         0.43        31.50 
TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 
        7.79         5.39       120.56        22.68        37.84         4.18 
TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 
      115.86         1.74         8.42        25.71        12.16         9.80 
TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 
       29.23        65.33         1.28         8.42        17.95        24.56 
TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 
       31.10        37.58        22.29         3.39        12.23        14.93 
TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 TCGA-08-0510 
       18.02        15.35        13.97         0.72        12.56         4.27 
TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 
       42.15        11.08        19.59        58.68        19.33        10.75 
TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 
        4.80         7.27        15.98        18.41         7.56        14.73 
TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 
       12.99        34.92        10.45         7.59        94.78         0.10 
TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 
       38.17        25.97        26.66        12.13         3.65        20.38 
TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 
       28.41        15.06        53.85        43.23         7.63         9.73 
TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 
       14.93        14.86        91.76        24.79        18.48        10.62 
TCGA-12-0822 TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 
       23.51        38.76         8.94        20.58       127.59         5.82 
TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 
        7.59        33.21        15.98        12.23        15.85         9.11 
TCGA-12-1097 TCGA-12-1098 TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 
       14.53         3.98         2.24        11.24         1.35         5.39 
TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1446 TCGA-15-1449 
       28.93        19.30         0.79        13.78        19.10        13.28 
TCGA-16-0846 TCGA-16-0849 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 
        3.91        26.07        11.77        21.90         0.66        10.75 
TCGA-19-1386 TCGA-19-1387 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 
        9.07         5.95         4.64        31.33        14.86         5.49 
TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 
        1.58         7.92         2.33         7.30         5.26        14.93 
TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 
       11.28        17.88        14.53        11.77        31.27        23.44 
TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 
       13.64         5.16        22.68        12.76         5.42         7.36 
TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
       11.38         5.42         3.75         1.61        17.72        26.30 

  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
             0.10              0.03 
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
           114.08            211.17 
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
            14.17             16.01 
[1] "0.1 - 114.1 (14.2)" "0.0 - 211.2 (16.0)"
[1] "hr=" "1.3"
D45V2, continuous
D45V3, binary
                   cls
clus                  0   1
  2Q LOSS MUTATED    33  19
  2Q LOSS WILD-TYPE 540 493
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2Q LOSS MUTATED     33   19
  2Q LOSS WILD-TYPE  540  493
                        clus
vv                       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  BRAIN                               33               540
  CENTRAL NERVOUS SYSTEM              19               493
[1] 2 2
[1] FALSE
D45V4, binary
                   cls
clus                  0   1
  2Q LOSS MUTATED    25  27
  2Q LOSS WILD-TYPE 428 605
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2Q LOSS MUTATED     25   27
  2Q LOSS WILD-TYPE  428  605
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  FEMALE              25               428
  MALE                27               605
[1] 2 2
[1] FALSE
D45V5, binary
                   cls
clus                  0   1
  2Q LOSS MUTATED    11  38
  2Q LOSS WILD-TYPE 247 732
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2Q LOSS MUTATED     11   38
  2Q LOSS WILD-TYPE  247  732
     clus
vv    2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  NO               11               247
  YES              38               732
[1] 2 2
[1] FALSE
D45V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  2Q LOSS MUTATED            12                             3                4
  2Q LOSS WILD-TYPE         182                            27              125
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  2Q LOSS MUTATED                   3                   1
  2Q LOSS WILD-TYPE               186                  17
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  2Q LOSS MUTATED                                29
  2Q LOSS WILD-TYPE                             496
D45V7, multiclass
                                 clus
vv                                2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  ASTROCYTOMA                                  12               182
  GLIOBLASTOMA MULTIFORME (GBM)                 3                27
  OLIGOASTROCYTOMA                              4               125
  OLIGODENDROGLIOMA                             3               186
  TREATED PRIMARY GBM                           1                17
  UNTREATED PRIMARY (DE NOVO) GBM              29               496
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  2Q LOSS MUTATED                                  0     0
  2Q LOSS WILD-TYPE                                1    21
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  2Q LOSS MUTATED                           2    50
  2Q LOSS WILD-TYPE                        69   909
D45V8, multiclass
                                  clus
vv                                 2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                21
  BLACK OR AFRICAN AMERICAN                      2                69
  WHITE                                         50               909
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D45V9, binary
                   cls
clus                  0   1
  2Q LOSS MUTATED     0  46
  2Q LOSS WILD-TYPE  44 875
[1] "tbl2"
                   cls
clus                [,1] [,2]
  2Q LOSS MUTATED      0   46
  2Q LOSS WILD-TYPE   44  875
                        clus
vv                       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  HISPANIC OR LATINO                   0                44
  NOT HISPANIC OR LATINO              46               875
[1] 2 2
[1] FALSE

Clustering(46) Variable = 3P LOSS MUTATION ANALYSIS
D46V1, survival
                   sevent
clus2                 0   1
  3P LOSS MUTATED    25  44
  3P LOSS WILD-TYPE 455 554
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
               69              1009 
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
               44               554 
$`3P LOSS MUTATED`
TCGA-19-A6J4 TCGA-DU-7300 TCGA-HT-A619 TCGA-06-1806 TCGA-06-5416 TCGA-06-5859 
        3.98        62.01        21.40        15.32         6.71         4.57 
TCGA-12-3653 TCGA-14-0862 TCGA-14-1458 TCGA-14-1823 TCGA-14-3477 TCGA-26-1439 
       14.53         2.89         6.67        17.85         3.78        13.87 
TCGA-28-1752 TCGA-32-1991 TCGA-32-2615 TCGA-76-4929 TCGA-CS-6666 TCGA-DB-5277 
        8.48        16.93        15.95         3.65        46.95        50.86 
TCGA-DH-A66D TCGA-DU-6396 TCGA-DU-A5TU TCGA-DU-A76R TCGA-DU-A7TA TCGA-E1-A7YJ 
       27.81        75.16        26.17        21.30        84.33        19.46 
TCGA-E1-A7YQ TCGA-E1-A7YV TCGA-E1-A7YW TCGA-HT-7469 TCGA-HT-7477 TCGA-HT-7690 
       51.88        32.45        36.82        11.54        24.26         0.10 
TCGA-HT-8111 TCGA-HT-8564 TCGA-HT-A5RA TCGA-IK-7675 TCGA-P5-A5F6 TCGA-P5-A77W 
        0.23        15.72        27.35        19.00         1.28        19.20 
TCGA-P5-A780 TCGA-S9-A89V TCGA-TM-A84B TCGA-TM-A84J TCGA-TQ-A7RH TCGA-VM-A8C8 
        2.37        18.71        24.92        24.16        15.98        45.93 
TCGA-VV-A829 TCGA-02-0055 TCGA-02-0083 TCGA-02-0084 TCGA-02-0106 TCGA-02-0113 
       37.05         2.50        22.72        12.62        11.67        92.65 
TCGA-02-0266 TCGA-02-0330 TCGA-02-0432 TCGA-02-2486 TCGA-06-0128 TCGA-06-0152 
       17.72        15.91        47.11        20.32        22.72        12.33 
TCGA-06-0216 TCGA-06-0221 TCGA-06-0409 TCGA-06-0878 TCGA-06-6390 TCGA-08-0246 
       24.16        19.82        72.36         7.17         5.39         4.18 
TCGA-08-0386 TCGA-08-0390 TCGA-08-0516 TCGA-12-0776 TCGA-12-0826 TCGA-14-0871 
       18.02        13.97        19.59         9.73        27.78        28.93 
TCGA-15-1447 TCGA-15-1449 TCGA-19-1388 
       53.19        13.28        12.95 

$`3P LOSS WILD-TYPE`
TCGA-06-6391 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        1.48        51.55        46.88        46.72        31.82        42.05 
TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 TCGA-FG-A87N 
       17.16        23.90        20.09        17.82        20.45        18.64 
TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 
       45.60        42.77        59.38        11.74         3.55         8.35 
TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 TCGA-06-5418 TCGA-06-5856 
        4.54         8.81         8.98         8.55         2.73         3.75 
TCGA-06-5858 TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 
        6.15         5.23         8.32        12.85         4.77         1.55 
TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 
        4.77         4.96        26.79         1.87         3.12         2.56 
TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 
       14.60        17.72        15.35        21.73        15.65        25.68 
TCGA-12-1600 TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 
       14.73         6.77        59.77        44.02        26.93        15.22 
TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 
       10.95        12.69        34.92        14.93         3.22         2.04 
TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 
       15.12        11.97         0.95         6.21        23.05        13.78 
TCGA-14-0812 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 
        3.25        16.50        26.33        15.95         1.38         1.12 
TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 
        3.75        32.05        58.78        23.11         7.10         1.15 
TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 
       30.18         0.92        40.96        12.43         0.99         1.97 
TCGA-14-1821 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 
       17.79         7.63         5.88         7.17        17.49         7.96 
TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 
        3.42        17.59        29.03         4.57        10.29        14.01 
TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 
        9.14        21.24        13.97         6.41         8.61        14.27 
TCGA-19-0964 TCGA-19-1390 TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 
        3.39        25.38         3.65         7.17        12.66         3.25 
TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 
        0.13         9.67         4.87         1.08         7.53         0.16 
TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 
        4.08        24.23         7.00         7.04         6.64        17.19 
TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 
        8.02        18.90         4.73        12.10         1.78        22.49 
TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 
       14.07        16.80        14.96        17.79        28.54        10.03 
TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 
        9.73         7.13         9.37         9.40         8.88        18.97 
TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 
       19.33         5.06        16.60         9.86        24.23        40.54 
TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 
       21.30        30.05        14.04        11.51        24.76        18.08 
TCGA-27-2521 TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 
       16.77        16.08         7.59         2.86        14.40        15.78 
TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1753 
        0.20         2.53         9.21         8.35         7.63         1.22 
TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 
        1.55         2.83         0.13         0.66         6.74         4.77 
TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 
       15.39        21.07         0.49         0.10        15.85        19.50 
TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-2491 TCGA-32-2494 
        1.18         4.67        12.69        14.86        12.23        20.78 
TCGA-32-2495 TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 
       15.02         8.84        22.78        25.18        21.14         3.72 
TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 
       12.59        19.86        10.85        19.23         0.85        13.35 
TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 TCGA-41-4097 
        8.94         9.53         0.99         4.44        11.84         0.20 
TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 
       15.12        12.46         4.08         1.45        25.58         3.45 
TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 
       20.91         4.34        14.33         8.22         7.50         4.80 
TCGA-76-4926 TCGA-76-4928 TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 
        4.54         3.09         9.17         2.53        36.85        16.70 
TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 
        3.29         2.70        17.06         8.35        20.98         4.83 
TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R 
        5.03        23.90        34.45        18.64        36.20         5.92 
TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 
        6.28        20.55       117.50         7.69        43.89        36.36 
TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 
       60.10        40.18         0.26        21.01        53.62         6.38 
TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 
       17.69        26.76        37.38        48.30        49.94        49.12 
TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5278 
      122.73        81.96        75.25        47.93        72.92        91.13 
TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB 
       44.52        36.56        78.28        46.42        18.84        30.21 
TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L 
       39.78        37.45        33.57        72.95        31.63        24.20 
TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U 
       25.48        30.12         5.98        31.40        27.45        27.81 
TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M 
       29.23        14.40        18.51        12.10        11.24        17.88 
TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 
       30.74        16.18        19.96        63.88        46.06        24.59 
TCGA-DH-A669 TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       30.21        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6397 
       15.16       211.17        52.11        22.42        49.02        46.06 
TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       65.75         1.22        87.45         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 
       19.89        16.83        94.52       114.08         7.96         2.40 
TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 
       11.47        62.96       156.23       154.36        14.99       105.21 
TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
        6.54         8.84       117.40        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 
       10.36         7.96        94.32        18.94        44.02        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 
       60.30        23.31        41.98         2.76         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 
       14.60        20.68        21.40        19.13        16.96        15.48 
TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TW 
       14.17        33.27        29.85        31.69        24.43        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       33.96        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TB TCGA-DU-A7TC 
       11.41        26.76        17.98       139.04        51.52        37.38 
TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 
        7.50        44.42        38.89         0.56        50.14        67.46 
TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 
       41.13        79.99        57.93       134.27        78.21        95.57 
TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YK 
      130.78        14.30        29.13        93.21         3.65        12.43 
TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YY 
       16.18        21.30        75.02        15.32         0.76       146.14 
TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 
       13.08        73.48       145.05        32.35        39.48         0.23 
TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 
        0.20        47.77        25.48        52.21        36.82        18.77 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 
       14.93        42.54        41.33        18.44        15.35        17.88 
TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 
       22.55        20.61        20.09        28.34        13.68        14.24 
TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU 
       16.01        14.96        22.52        32.61        38.27        10.72 
TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ 
       18.38        18.71        23.70        14.76        21.53        15.02 
TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 
       16.44        22.26        28.54        10.78        36.66        48.69 
TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7470 TCGA-HT-7471 
        5.72        27.52         0.10         6.67        40.11         0.13 
TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7478 
        0.03        16.54         3.75        17.42         6.54         6.38 
TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 
       40.34        75.19        95.93       106.95       172.77         4.01 
TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 
        5.03        29.85        23.18       122.47         4.57        17.29 
TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 
        3.16        22.06        45.99        56.09        57.60         0.23 
TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 
       14.27         0.16        16.24         0.76        44.68         6.05 
TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7691 TCGA-HT-7692 
       42.74         0.10        31.69        14.96         0.10         2.96 
TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 
       17.52         6.90        14.53        39.48        19.23        39.09 
TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 
        0.23        50.63         0.49        23.61        37.15         0.33 
TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 
        0.13         3.68         5.33        35.47         3.72        11.28 
TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 
       31.43         1.64        16.24         9.40        63.55         0.10 
TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 
       37.87        33.01        12.23         6.25         0.10         0.46 
TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 
        2.50         5.56        13.78        29.59        34.19        28.27 
TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RB 
        0.23        26.04         0.13        20.22         0.07         0.10 
TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 
        5.33         2.70        16.93         1.81        16.14        16.83 
TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L 
       17.52        17.65         2.43        10.52        15.35        11.05 
TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 
        0.10        56.58        45.44        41.49        68.32        69.27 
TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ 
       35.44        39.75        40.01        42.54        24.92        31.63 
TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV 
       12.76        28.87        20.71        14.40        14.40         0.23 
TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 
        6.71         7.99         2.37         2.30         9.44         5.88 
TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        7.96         7.59         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77X TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X 
        3.45         4.41        15.16         2.53        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX 
       14.04        19.33        14.83        14.53        13.61        12.23 
TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
       13.41         9.17        10.29        14.53        16.34        16.73 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
        1.91        16.50        16.70        11.08        12.99        88.83 
TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 
       94.03        32.65        30.87         5.46         9.90        28.08 
TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV 
        2.07        19.59        30.67        62.17        87.12        18.77 
TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 
       41.10        40.93        35.38        36.82        24.39        25.81 
TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA 
       29.85        32.61        35.15        98.24        95.93         5.85 
TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI 
      123.65        75.25       135.22        85.55        38.56        84.99 
TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ 
       31.10        19.86        26.47        18.61        18.64        14.07 
TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 
       36.13         7.92        26.93        23.51        19.99        20.02 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY 
        8.19         2.04        20.68        15.06        18.54        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 
       27.16       169.84        10.39        99.06        30.05        98.63 
TCGA-S9-A7R8 TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA 
       31.59        20.48        54.77        48.33        49.32        34.78 
TCGA-TM-A7CF TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I 
       65.39        16.18        59.05        40.64        30.44        28.08 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       23.80        21.37        19.69         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       36.69        33.73        31.20        30.05        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C9 TCGA-VM-A8CA 
       33.93        61.41        26.99        31.36        43.20        13.51 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A86M 
        0.10         7.89        39.16        20.02        23.47        16.01 
TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 
       23.21         8.05        51.06        13.32        43.96        39.88 
TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 
       43.40        45.80        46.88        37.71        20.81         7.63 
TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 
       11.77         4.73        18.35        23.18        10.59        35.41 
TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 
       20.71        82.59        20.61        87.06        77.65        20.12 
TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 
       53.10        42.74        24.59        12.16        90.58         2.83 
TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 
       14.14         3.62        10.72        10.52        18.31         6.87 
TCGA-02-0047 TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0057 
       14.73         3.22        15.09        12.59         6.54        19.86 
TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 
        8.35         9.57         6.02        19.73        26.43        28.70 
TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 TCGA-02-0079 TCGA-02-0080 
       25.05         5.49        10.19        20.84        27.25        89.72 
TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 
       51.32         8.81        57.76        16.96         3.48        27.02 
TCGA-02-0104 TCGA-02-0107 TCGA-02-0111 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 
       65.00        17.65        23.18        99.98        15.65        48.95 
TCGA-02-0258 TCGA-02-0260 TCGA-02-0269 TCGA-02-0271 TCGA-02-0281 TCGA-02-0285 
       16.54        16.93        10.75        14.47         3.98        13.87 
TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 
       14.20        15.95        12.23         9.90         7.73        10.62 
TCGA-02-0326 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 
        7.33        25.71         4.37        25.12        10.59        12.39 
TCGA-02-0422 TCGA-02-0430 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 
       14.50        10.55        11.34         9.27        16.21         3.35 
TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 TCGA-06-0119 TCGA-06-0122 
       16.80        12.92        15.32        15.45         2.70         6.15 
TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0129 TCGA-06-0130 
       20.38        47.61         6.94         3.98        33.67        12.95 
TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 
       25.35        14.30        26.70        24.23        11.90         0.20 
TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 
       10.29         2.20        11.74         2.33        20.09        17.79 
TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 TCGA-06-0154 TCGA-06-0155 
       10.09         8.61        19.46        46.59        13.94        10.45 
TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 
        3.19        10.82         9.44        11.80         3.42        56.91 
TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 
       10.65         5.85        19.66         3.29        13.12         4.47 
TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 
        3.22         4.04        91.00         4.18        88.14        20.25 
TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 
        3.65        69.90        73.84        27.22        44.58        15.42 
TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 
       10.42        38.96         4.67         7.40         5.56         0.39 
TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 
        7.66         8.42         7.40        11.84         0.53        15.02 
TCGA-06-0219 TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 
        0.72        13.64        13.32        20.42        48.69        10.82 
TCGA-06-0397 TCGA-06-0402 TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 TCGA-06-0414 
        9.01         0.26         4.70         9.57         3.16        35.11 
TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 
       12.62         5.75         5.75         9.80         2.10        23.57 
TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 
       14.20        26.40        46.88         7.86         2.70         2.70 
TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 
        0.92        43.46        46.19        40.41        16.57        20.78 
TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 
       26.76        23.93         6.84         4.04        26.79        11.84 
TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 
       15.32        13.61        33.90         1.08        12.49         4.93 
TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 
       17.65        12.56        30.64         5.95        16.64         5.98 
TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 TCGA-06-6693 TCGA-06-6694 
        4.37         0.43        31.50         7.79       120.56         7.36 
TCGA-08-0244 TCGA-08-0245 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 
       22.68        37.84       115.86         1.74         8.42        25.71 
TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 
       12.16         9.80        29.23        65.33         1.28         8.42 
TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 
       17.95        24.56        31.10        37.58        22.29         3.39 
TCGA-08-0375 TCGA-08-0380 TCGA-08-0389 TCGA-08-0392 TCGA-08-0509 TCGA-08-0510 
       12.23        14.93        15.35         0.72        12.56         4.27 
TCGA-08-0512 TCGA-08-0514 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 
       42.15        11.08        58.68        19.33        10.75         4.80 
TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 
        7.27        15.98        18.41         7.56        14.73        12.99 
TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 
       34.92        10.45         7.59        94.78         0.10        38.17 
TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 
       25.97        26.66        12.13         3.65        20.38        28.41 
TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0778 TCGA-12-0780 
       15.06        53.85        43.23         7.63        14.93        14.86 
TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0827 
       91.76        24.79        18.48        10.62        23.51        38.76 
TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 
        8.94        20.58       127.59         5.82         7.59        33.21 
TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 
       15.98        12.23        15.85         9.11        14.53         3.98 
TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 TCGA-14-0867 
        4.14         2.24        11.24         1.35         5.39         2.04 
TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 TCGA-16-0846 
       19.30         0.79        13.78        50.53        19.10         3.91 
TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 
       26.07        16.37        11.77        21.90         0.66        10.75 
TCGA-19-1386 TCGA-19-1387 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 
        9.07         5.95         4.64        31.33        14.86         5.49 
TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 
        1.58         7.92         2.33         7.30         5.26        14.93 
TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 
       11.28        17.88        14.53        11.77        31.27        23.44 
TCGA-28-5215 TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 
       11.01        13.64         5.16        22.68        12.76         5.42 
TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 
        7.36        11.38         5.42         3.75         1.61        17.72 
TCGA-87-5896 
       26.30 

  3P LOSS MUTATED 3P LOSS WILD-TYPE 
             0.10              0.03 
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
            92.65            211.17 
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
            18.02             15.85 
[1] "0.1 - 92.7 (18.0)"  "0.0 - 211.2 (15.8)"
[1] "hr=" "1.2"
D46V2, continuous
D46V3, binary
                   cls
clus                  0   1
  3P LOSS MUTATED    40  30
  3P LOSS WILD-TYPE 533 482
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3P LOSS MUTATED     40   30
  3P LOSS WILD-TYPE  533  482
                        clus
vv                       3P LOSS MUTATED 3P LOSS WILD-TYPE
  BRAIN                               40               533
  CENTRAL NERVOUS SYSTEM              30               482
[1] 2 2
[1] FALSE
D46V4, binary
                   cls
clus                  0   1
  3P LOSS MUTATED    27  43
  3P LOSS WILD-TYPE 426 589
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3P LOSS MUTATED     27   43
  3P LOSS WILD-TYPE  426  589
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  FEMALE              27               426
  MALE                43               589
[1] 2 2
[1] FALSE
D46V5, binary
                   cls
clus                  0   1
  3P LOSS MUTATED     9  57
  3P LOSS WILD-TYPE 249 713
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3P LOSS MUTATED      9   57
  3P LOSS WILD-TYPE  249  713
     clus
vv    3P LOSS MUTATED 3P LOSS WILD-TYPE
  NO                9               249
  YES              57               713
[1] 2 2
[1] FALSE
D46V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  3P LOSS MUTATED            12                             2                8
  3P LOSS WILD-TYPE         182                            28              121
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  3P LOSS MUTATED                  10                   2
  3P LOSS WILD-TYPE               179                  16
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  3P LOSS MUTATED                                36
  3P LOSS WILD-TYPE                             489
D46V7, multiclass
                                 clus
vv                                3P LOSS MUTATED 3P LOSS WILD-TYPE
  ASTROCYTOMA                                  12               182
  GLIOBLASTOMA MULTIFORME (GBM)                 2                28
  OLIGOASTROCYTOMA                              8               121
  OLIGODENDROGLIOMA                            10               179
  TREATED PRIMARY GBM                           2                16
  UNTREATED PRIMARY (DE NOVO) GBM              36               489
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  3P LOSS MUTATED                                  0     1
  3P LOSS WILD-TYPE                                1    20
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  3P LOSS MUTATED                           6    62
  3P LOSS WILD-TYPE                        65   897
D46V8, multiclass
                                  clus
vv                                 3P LOSS MUTATED 3P LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          1                20
  BLACK OR AFRICAN AMERICAN                      6                65
  WHITE                                         62               897
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D46V9, binary
                   cls
clus                  0   1
  3P LOSS MUTATED     5  58
  3P LOSS WILD-TYPE  39 863
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3P LOSS MUTATED      5   58
  3P LOSS WILD-TYPE   39  863
                        clus
vv                       3P LOSS MUTATED 3P LOSS WILD-TYPE
  HISPANIC OR LATINO                   5                39
  NOT HISPANIC OR LATINO              58               863
[1] 2 2
[1] FALSE

Clustering(47) Variable = 3Q LOSS MUTATION ANALYSIS
D47V1, survival
                   sevent
clus2                 0   1
  3Q LOSS MUTATED    20  42
  3Q LOSS WILD-TYPE 460 556
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
               62              1016 
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
               42               556 
$`3Q LOSS MUTATED`
TCGA-19-A6J4 TCGA-DU-7300 TCGA-HT-A619 TCGA-06-1806 TCGA-06-5859 TCGA-12-3653 
        3.98        62.01        21.40        15.32         4.57        14.53 
TCGA-14-0812 TCGA-14-1458 TCGA-14-1823 TCGA-26-1439 TCGA-28-1752 TCGA-32-2615 
        3.25         6.67        17.85        13.87         8.48        15.95 
TCGA-76-4929 TCGA-CS-6666 TCGA-DB-5277 TCGA-DB-5281 TCGA-DH-A66D TCGA-DU-6396 
        3.65        46.95        50.86        78.28        27.81        75.16 
TCGA-DU-7007 TCGA-DU-7014 TCGA-DU-7298 TCGA-DU-8167 TCGA-DU-A5TU TCGA-DU-A76R 
       62.96       117.40        18.94        15.48        26.17        21.30 
TCGA-E1-5302 TCGA-E1-A7YQ TCGA-E1-A7YV TCGA-HT-7469 TCGA-HT-7472 TCGA-HT-7477 
       50.14        51.88        32.45        11.54         0.03        24.26 
TCGA-HT-8111 TCGA-HT-8564 TCGA-IK-7675 TCGA-P5-A5F6 TCGA-P5-A77W TCGA-P5-A780 
        0.23        15.72        19.00         1.28        19.20         2.37 
TCGA-S9-A6TV TCGA-TM-A84B TCGA-TM-A84J TCGA-VM-A8C8 TCGA-02-0055 TCGA-02-0060 
       18.77        24.92        24.16        45.93         2.50         6.02 
TCGA-02-0084 TCGA-02-0113 TCGA-02-0330 TCGA-06-0128 TCGA-06-0152 TCGA-06-0214 
       12.62        92.65        15.91        22.72        12.33        15.02 
TCGA-06-0216 TCGA-06-0221 TCGA-06-0409 TCGA-06-6390 TCGA-08-0246 TCGA-08-0386 
       24.16        19.82        72.36         5.39         4.18        18.02 
TCGA-08-0390 TCGA-08-0516 TCGA-12-0691 TCGA-12-0826 TCGA-14-0871 TCGA-15-1447 
       13.97        19.59        12.13        27.78        28.93        53.19 
TCGA-15-1449 TCGA-19-1388 
       13.28        12.95 

$`3Q LOSS WILD-TYPE`
TCGA-06-6391 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        1.48        51.55        46.88        46.72        31.82        42.05 
TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 TCGA-FG-A87N 
       17.16        23.90        20.09        17.82        20.45        18.64 
TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 
       45.60        42.77        59.38        11.74         3.55         8.35 
TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 
        4.54         8.81         8.98         8.55         6.71         2.73 
TCGA-06-5856 TCGA-06-5858 TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 
        3.75         6.15         5.23         8.32        12.85         4.77 
TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 
        1.55         4.77         4.96        26.79         1.87         3.12 
TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 
        2.56        14.60        17.72        15.35        21.73        15.65 
TCGA-12-1599 TCGA-12-1600 TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 
       25.68        14.73         6.77        59.77        44.02        26.93 
TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-5295 TCGA-12-5299 
       15.22        10.95        12.69        34.92        14.93         3.22 
TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 
        2.04        15.12        11.97         0.95         6.21        23.05 
TCGA-14-0790 TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 
       13.78         2.89        16.50        26.33        15.95         1.38 
TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 
        1.12         3.75        32.05        58.78        23.11         7.10 
TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1459 TCGA-14-1794 
        1.15        30.18         0.92        40.96        12.43         0.99 
TCGA-14-1795 TCGA-14-1821 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 
        1.97        17.79         7.63         5.88         7.17        17.49 
TCGA-14-2555 TCGA-14-3477 TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 
        7.96         3.78         3.42        17.59        29.03         4.57 
TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 
       10.29        14.01         9.14        21.24        13.97         6.41 
TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 TCGA-19-1392 TCGA-19-1786 
        8.61        14.27         3.39        25.38         3.65         7.17 
TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 
       12.66         3.25         0.13         9.67         4.87         1.08 
TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 
        7.53         0.16         4.08        24.23         7.00         7.04 
TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 
        6.64        17.19         8.02        18.90         4.73        12.10 
TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I 
        1.78        22.49        14.07        16.80        14.96        17.79 
TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 
       28.54        10.03         9.73         7.13         9.37         9.40 
TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 
        8.88        18.97        19.33         5.06        16.60         9.86 
TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 
       24.23        40.54        21.30        30.05        14.04        11.51 
TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 
       24.76        18.08        16.77        16.08         7.59         2.86 
TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 
       14.40        15.78         0.20         2.53         9.21         8.35 
TCGA-28-1751 TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 
        7.63         1.22         1.55         2.83         0.13         0.66 
TCGA-28-2506 TCGA-28-2509 TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 
        6.74         4.77        15.39        21.07         0.49         0.10 
TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 
       15.85        19.50         1.18         4.67        12.69        14.86 
TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 TCGA-32-2632 TCGA-32-2634 
       16.93        12.23        20.78        15.02         8.84        22.78 
TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 
       25.18        21.14         3.72        12.59        19.86        10.85 
TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 
       19.23         0.85        13.35         8.94         9.53         0.99 
TCGA-41-3393 TCGA-41-3915 TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R 
        4.44        11.84         0.20        15.12        12.46         4.08 
TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 
        1.45        25.58         3.45        20.91         4.34        14.33 
TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4931 
        8.22         7.50         4.80         4.54         3.09         9.17 
TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 
        2.53        36.85        16.70         3.29         2.70        17.06 
TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 
        8.35        20.98         4.83         5.03        23.90        34.45 
TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 
       18.64        36.20         5.92         6.28        20.55       117.50 
TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 
        7.69        43.89        36.36        60.10        40.18         0.26 
TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 
       21.01        53.62         6.38        17.69        26.76        37.38 
TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 
       48.30        49.94        49.12       122.73        81.96        75.25 
TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-A4X9 
       47.93        72.92        91.13        44.52        36.56        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG 
       18.84        30.21        39.78        37.45        33.57        72.95 
TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R 
       31.63        24.20        25.48        30.12         5.98        31.40 
TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K 
       27.45        27.81        29.23        14.40        18.51        12.10 
TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 
       11.24        17.88        30.74        16.18        19.96        63.88 
TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR 
       46.06        24.59        30.21        17.19        17.19        54.25 
TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 
       23.21        17.46        13.71        18.61        18.02        14.56 
TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 
       17.46         6.74        13.38         8.45         6.81       182.33 
TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 
       18.94        17.49        15.16       211.17        52.11        22.42 
TCGA-DU-6395 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 
       49.02        46.06        65.75         1.22        87.45         7.04 
TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 
       11.64       133.74        19.89        16.83        94.52       114.08 
TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 
        7.96         2.40        11.47       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
      105.21         6.54         8.84        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 
       10.36         7.96        94.32        44.02        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8168 TCGA-DU-A5TP 
       20.68        21.40        19.13        16.96        14.17        33.27 
TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 
       29.85        31.69        24.43        24.99        33.96        25.55 
TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L 
       21.57        95.11        20.98        22.29        11.41        26.76 
TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       17.98       139.04        84.33        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
       44.42        38.89         0.56        67.46        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       57.93       134.27        78.21        95.57       130.78        14.30 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL 
       29.13        93.21         3.65        19.46        12.43        16.18 
TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YW TCGA-E1-A7YY 
       21.30        75.02        15.32         0.76        36.82       146.14 
TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 
       13.08        73.48       145.05        32.35        39.48         0.23 
TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 
        0.20        47.77        25.48        52.21        36.82        18.77 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 
       14.93        42.54        41.33        18.44        15.35        17.88 
TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 
       22.55        20.61        20.09        28.34        13.68        14.24 
TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU 
       16.01        14.96        22.52        32.61        38.27        10.72 
TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ 
       18.38        18.71        23.70        14.76        21.53        15.02 
TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 
       16.44        22.26        28.54        10.78        36.66        48.69 
TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7470 TCGA-HT-7471 
        5.72        27.52         0.10         6.67        40.11         0.13 
TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7478 TCGA-HT-7479 
       16.54         3.75        17.42         6.54         6.38        40.34 
TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 
       75.19        95.93       106.95       172.77         4.01         5.03 
TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 
       29.85        23.18       122.47         4.57        17.29         3.16 
TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 
       22.06        45.99        56.09        57.60         0.23        14.27 
TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 
        0.16        16.24         0.76        44.68         6.05        42.74 
TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 
        0.10        31.69        14.96         0.10         0.10         2.96 
TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 
       17.52         6.90        14.53        39.48        19.23        39.09 
TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 
        0.23        50.63         0.49        23.61        37.15         0.33 
TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 
        0.13         3.68         5.33        35.47         3.72        11.28 
TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 
       31.43         1.64        16.24         9.40        63.55         0.10 
TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 
       37.87        33.01        12.23         6.25         0.10         0.46 
TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 
        2.50         5.56        13.78        29.59        34.19        28.27 
TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA 
        0.23        26.04         0.13        20.22         0.07        27.35 
TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 
        0.10         5.33         2.70        16.93         1.81        16.14 
TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K 
       16.83        17.52        17.65         2.43        10.52        15.35 
TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 
       11.05         0.10        56.58        45.44        41.49        68.32 
TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 
       69.27        35.44        39.75        40.01        42.54        24.92 
TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-KT-A74X TCGA-KT-A7W1 
       31.63        12.76        28.87        20.71        14.40        14.40 
TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 
        0.23         6.71         7.99         2.37         2.30         9.44 
TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X 
        5.88         7.96         7.59         0.23        10.42        13.25 
TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 
       11.64        10.95         9.01        13.61         9.60         7.56 
TCGA-P5-A737 TCGA-P5-A77X TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V 
       12.23         3.45         4.41        15.16         2.53        12.62 
TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW 
       15.85        14.04        19.33        14.83        14.53        13.61 
TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 
       12.23        13.41         9.17        10.29        14.53        16.34 
TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 
       16.73         1.91        16.50        16.70        11.08        12.99 
TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z 
       88.83        94.03        32.65        30.87         5.46         9.90 
TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU 
       28.08         2.07        19.59        30.67        62.17        87.12 
TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 
       41.10        40.93        35.38        36.82        24.39        25.81 
TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA 
       29.85        32.61        35.15        98.24        95.93         5.85 
TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI 
      123.65        75.25       135.22        85.55        38.56        84.99 
TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ 
       31.10        19.86        26.47        18.61        18.64        14.07 
TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 
       36.13         7.92        26.93        23.51        19.99        20.02 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY 
        8.19         2.04        20.68        15.06        18.54        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 
       27.16       169.84        10.39        99.06        30.05        98.63 
TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 
       31.59        18.71        20.48        54.77        48.33        49.32 
TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H 
       34.78        65.39        16.18        59.05        40.64        30.44 
TCGA-TM-A84I TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R 
       28.08        40.83        24.79        33.24        25.38        18.61 
TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI 
       14.93        23.80        21.37        19.69        15.98         2.04 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP 
       40.41        44.09        36.69        33.73        31.20        30.05 
TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE 
       26.14        25.87        33.93        61.41        26.99        31.36 
TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF 
       43.20        13.51         0.10         7.89        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 
       23.47        37.05        16.01        23.21         8.05        51.06 
TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C 
       13.32        43.96        39.88        43.40        45.80        46.88 
TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 
       37.71        20.81         7.63        11.77         4.73        18.35 
TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 
       23.18        10.59        35.41        20.71        82.59        20.61 
TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 
       87.06        77.65        20.12        53.10        42.74        24.59 
TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 
       12.16        90.58         2.83        14.14         3.62        10.72 
TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 TCGA-02-0051 
       10.52        18.31         6.87        14.73         3.22        15.09 
TCGA-02-0052 TCGA-02-0054 TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 TCGA-02-0064 
       12.59         6.54        19.86         8.35         9.57        19.73 
TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 
       26.43        28.70        25.05         5.49        10.19        20.84 
TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 
       27.25        89.72        22.72        51.32         8.81        57.76 
TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0106 TCGA-02-0107 
       16.96         3.48        27.02        65.00        11.67        17.65 
TCGA-02-0111 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 
       23.18        99.98        15.65        48.95        16.54        16.93 
TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 
       17.72        10.75        14.47         3.98        13.87        14.20 
TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 
       15.95        12.23         9.90         7.73        10.62         7.33 
TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 
       25.71         4.37        25.12        10.59        12.39        14.50 
TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 
       10.55        47.11        11.34         9.27        16.21         3.35 
TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 
       16.80        12.92        15.32        15.45        20.32         2.70 
TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0129 
        6.15        20.38        47.61         6.94         3.98        33.67 
TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 
       12.95        25.35        14.30        26.70        24.23        11.90 
TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 
        0.20        10.29         2.20        11.74         2.33        20.09 
TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 TCGA-06-0154 
       17.79        10.09         8.61        19.46        46.59        13.94 
TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 
       10.45         3.19        10.82         9.44        11.80         3.42 
TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 
       56.91        10.65         5.85        19.66         3.29        13.12 
TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 
        4.47         3.22         4.04        91.00         4.18        88.14 
TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 
       20.25         3.65        69.90        73.84        27.22        44.58 
TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 
       15.42        10.42        38.96         4.67         7.40         5.56 
TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 
        0.39         7.66         8.42         7.40        11.84         0.53 
TCGA-06-0219 TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 
        0.72        13.64        13.32        20.42        48.69        10.82 
TCGA-06-0397 TCGA-06-0402 TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 TCGA-06-0414 
        9.01         0.26         4.70         9.57         3.16        35.11 
TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 
       12.62         5.75         5.75         9.80         2.10        23.57 
TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 
       14.20        26.40        46.88         7.86         2.70         2.70 
TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 
        0.92        43.46        46.19         7.17        40.41        16.57 
TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1087 TCGA-06-1800 
       20.78        26.76        23.93         6.84         4.04        26.79 
TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 
       11.84        15.32        13.61        33.90         1.08        12.49 
TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 
        4.93        17.65        12.56        30.64         5.95        16.64 
TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 TCGA-06-6693 
        5.98         4.37         0.43        31.50         7.79       120.56 
TCGA-06-6694 TCGA-08-0244 TCGA-08-0245 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 
        7.36        22.68        37.84       115.86         1.74         8.42 
TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 
       25.71        12.16         9.80        29.23        65.33         1.28 
TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 
        8.42        17.95        24.56        31.10        37.58        22.29 
TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0389 TCGA-08-0392 TCGA-08-0509 
        3.39        12.23        14.93        15.35         0.72        12.56 
TCGA-08-0510 TCGA-08-0512 TCGA-08-0514 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 
        4.27        42.15        11.08        58.68        19.33        10.75 
TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 
        4.80         7.27        15.98        18.41         7.56        14.73 
TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 
       12.99        34.92        10.45         7.59        94.78         0.10 
TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 
       38.17        25.97        26.66         3.65        20.38        28.41 
TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 
       15.06        53.85        43.23         7.63         9.73        14.93 
TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 
       14.86        91.76        24.79        18.48        10.62        23.51 
TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 
       38.76         8.94        20.58       127.59         5.82         7.59 
TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 
       33.21        15.98        12.23        15.85         9.11        14.53 
TCGA-12-1098 TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 
        3.98         4.14         2.24        11.24         1.35         5.39 
TCGA-14-0867 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 
        2.04        19.30         0.79        13.78        50.53        19.10 
TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 
        3.91        26.07        16.37        11.77        21.90         0.66 
TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 
       10.75         9.07         5.95         4.64        31.33        14.86 
TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 
        5.49         1.58         7.92         2.33         7.30         5.26 
TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 
       14.93        11.28        17.88        14.53        11.77        31.27 
TCGA-28-5214 TCGA-28-5215 TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 
       23.44        11.01        13.64         5.16        22.68        12.76 
TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 
        5.42         7.36        11.38         5.42         3.75         1.61 
TCGA-81-5911 TCGA-87-5896 
       17.72        26.30 

  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
             0.03              0.07 
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
           117.40            211.17 
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
           18.395            15.965 
[1] "0.0 - 117.4 (18.4)" "0.1 - 211.2 (16.0)"
[1] "hr=" "1.1"
D47V2, continuous
D47V3, binary
                   cls
clus                  0   1
  3Q LOSS MUTATED    33  29
  3Q LOSS WILD-TYPE 540 483
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3Q LOSS MUTATED     33   29
  3Q LOSS WILD-TYPE  540  483
                        clus
vv                       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  BRAIN                               33               540
  CENTRAL NERVOUS SYSTEM              29               483
[1] 2 2
[1] FALSE
D47V4, binary
                   cls
clus                  0   1
  3Q LOSS MUTATED    26  36
  3Q LOSS WILD-TYPE 427 596
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3Q LOSS MUTATED     26   36
  3Q LOSS WILD-TYPE  427  596
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  FEMALE              26               427
  MALE                36               596
[1] 2 2
[1] FALSE
D47V5, binary
                   cls
clus                  0   1
  3Q LOSS MUTATED     9  48
  3Q LOSS WILD-TYPE 249 722
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3Q LOSS MUTATED      9   48
  3Q LOSS WILD-TYPE  249  722
     clus
vv    3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  NO                9               249
  YES              48               722
[1] 2 2
[1] FALSE
D47V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  3Q LOSS MUTATED            11                             2                7
  3Q LOSS WILD-TYPE         183                            28              122
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  3Q LOSS MUTATED                  11                   1
  3Q LOSS WILD-TYPE               178                  17
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  3Q LOSS MUTATED                                30
  3Q LOSS WILD-TYPE                             495
D47V7, multiclass
                                 clus
vv                                3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  ASTROCYTOMA                                  11               183
  GLIOBLASTOMA MULTIFORME (GBM)                 2                28
  OLIGOASTROCYTOMA                              7               122
  OLIGODENDROGLIOMA                            11               178
  TREATED PRIMARY GBM                           1                17
  UNTREATED PRIMARY (DE NOVO) GBM              30               495
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  3Q LOSS MUTATED                                  0     2
  3Q LOSS WILD-TYPE                                1    19
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  3Q LOSS MUTATED                           5    55
  3Q LOSS WILD-TYPE                        66   904
D47V8, multiclass
                                  clus
vv                                 3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          2                19
  BLACK OR AFRICAN AMERICAN                      5                66
  WHITE                                         55               904
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D47V9, binary
                   cls
clus                  0   1
  3Q LOSS MUTATED     3  52
  3Q LOSS WILD-TYPE  41 869
[1] "tbl2"
                   cls
clus                [,1] [,2]
  3Q LOSS MUTATED      3   52
  3Q LOSS WILD-TYPE   41  869
                        clus
vv                       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  HISPANIC OR LATINO                   3                41
  NOT HISPANIC OR LATINO              52               869
[1] 2 2
[1] FALSE

Clustering(48) Variable = 4P LOSS MUTATION ANALYSIS
D48V1, survival
                   sevent
clus2                 0   1
  4P LOSS MUTATED    63  64
  4P LOSS WILD-TYPE 417 534
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
              127               951 
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
               64               534 
$`4P LOSS MUTATED`
TCGA-HT-A619 TCGA-IK-8125 TCGA-06-5416 TCGA-06-A6S0 TCGA-12-1598 TCGA-12-3644 
       21.40        42.77         6.71         3.12        15.65        59.77 
TCGA-12-3646 TCGA-12-3653 TCGA-14-1454 TCGA-14-1458 TCGA-14-1823 TCGA-16-0848 
       44.02        14.53        30.18         6.67        17.85        17.59 
TCGA-19-2629 TCGA-19-4065 TCGA-27-1830 TCGA-27-1837 TCGA-27-1838 TCGA-32-1973 
       24.23         7.04         5.06        14.04        11.51        21.07 
TCGA-32-1978 TCGA-32-2632 TCGA-4W-AA9R TCGA-76-4925 TCGA-76-4928 TCGA-76-4934 
       15.85         8.84         4.08         4.80         3.09         2.53 
TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5277 TCGA-DB-5279 TCGA-DB-A4XA TCGA-DB-A4XH 
       75.25        47.93        50.86        44.52        18.84        31.63 
TCGA-DB-A64W TCGA-DB-A64X TCGA-DH-A669 TCGA-DH-A66G TCGA-DH-A7UT TCGA-DU-6399 
       14.40        18.51        30.21        17.19        17.46        65.75 
TCGA-DU-6400 TCGA-DU-6410 TCGA-DU-7010 TCGA-DU-7018 TCGA-DU-7294 TCGA-DU-8165 
        1.22         7.96        14.99        30.67        94.32        19.13 
TCGA-DU-8166 TCGA-DU-8168 TCGA-DU-A6S3 TCGA-DU-A6S8 TCGA-DU-A76R TCGA-DU-A7T8 
       16.96        14.17        21.57        22.29        21.30       139.04 
TCGA-DU-A7TA TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5311 TCGA-E1-A7YS 
       84.33        50.14        67.46        41.13       134.27        15.32 
TCGA-F6-A8O3 TCGA-FG-5962 TCGA-FG-5964 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-A60J 
        0.23        47.77        52.21        17.88        22.55        14.76 
TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7471 
       15.02        16.44         0.10         6.67        11.54         0.13 
TCGA-HT-7475 TCGA-HT-7480 TCGA-HT-7677 TCGA-HT-7692 TCGA-HT-8105 TCGA-HT-A5R9 
       17.42        75.19        16.24         2.96         6.25         0.07 
TCGA-HT-A74K TCGA-HW-7487 TCGA-HW-7491 TCGA-P5-A5EV TCGA-P5-A735 TCGA-P5-A737 
       15.35        45.44        68.32         0.23         9.60        12.23 
TCGA-P5-A77W TCGA-S9-A6TW TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WL TCGA-S9-A7IY 
       19.20        41.10       123.65        75.25        31.10        23.51 
TCGA-S9-A7IZ TCGA-TM-A7C5 TCGA-TM-A84T TCGA-TQ-A7RM TCGA-TQ-A7RO TCGA-TQ-A7RR 
       19.99        49.32        23.80        36.69        31.20        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RW TCGA-WH-A86K TCGA-02-0014 TCGA-02-0026 TCGA-02-0054 
       33.93        26.99        13.32        82.59        24.59         6.54 
TCGA-02-0069 TCGA-02-0079 TCGA-02-2483 TCGA-02-2485 TCGA-06-0138 TCGA-06-0152 
       28.70        27.25        15.32        15.45        24.23        12.33 
TCGA-06-0166 TCGA-06-0173 TCGA-06-0175 TCGA-06-0177 TCGA-06-0216 TCGA-06-0414 
        5.85         4.47         4.04         4.18        24.16        35.11 
TCGA-06-0645 TCGA-06-0744 TCGA-06-1087 TCGA-06-1800 TCGA-06-2557 TCGA-06-6693 
        5.75        46.88         4.04        26.79         1.08       120.56 
TCGA-08-0351 TCGA-08-0386 TCGA-08-0525 TCGA-12-0619 TCGA-12-0827 TCGA-14-0867 
       65.33        18.02        15.98        34.92        38.76         2.04 
TCGA-15-1449 TCGA-16-0849 TCGA-19-1387 TCGA-28-2514 TCGA-28-5207 TCGA-28-5214 
       13.28        26.07         5.95         5.26        11.28        23.44 
TCGA-76-6283 
        5.42 

$`4P LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K 
       42.05        62.01        17.16        23.90        20.09        17.82 
TCGA-FG-A713 TCGA-FG-A87N TCGA-HW-7490 TCGA-R8-A73M TCGA-06-1806 TCGA-06-5408 
       20.45        18.64        45.60        59.38        15.32        11.74 
TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 
        3.55         8.35         4.54         8.81         8.98         8.55 
TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 
        2.73         3.75         6.15         4.57         5.23         8.32 
TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 
       12.85         4.77         1.55         4.77         4.96        26.79 
TCGA-06-A5U1 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 
        1.87         2.56        14.60        17.72        15.35        21.73 
TCGA-12-1599 TCGA-12-1600 TCGA-12-1602 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 
       25.68        14.73         6.77        26.93        15.22        10.95 
TCGA-12-3651 TCGA-12-3652 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 
       12.69        34.92        14.93         3.22         2.04        15.12 
TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 
       11.97         0.95         6.21        23.05        13.78         3.25 
TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 
        2.89        16.50        26.33        15.95         1.38         1.12 
TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 
        3.75        32.05        58.78        23.11         7.10         1.15 
TCGA-14-1455 TCGA-14-1456 TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 
        0.92        40.96        12.43         0.99         1.97        17.79 
TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-3477 
        7.63         5.88         7.17        17.49         7.96         3.78 
TCGA-14-4157 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 
        3.42        29.03         4.57        10.29        14.01         9.14 
TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 
       21.24        13.97         6.41         8.61        14.27         3.39 
TCGA-19-1390 TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 
       25.38         3.65         7.17        12.66         3.25         0.13 
TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 
        9.67         4.87         1.08         7.53         0.16         4.08 
TCGA-19-2631 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 
        7.00         6.64        17.19         8.02        18.90         4.73 
TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 
       12.10         1.78        22.49        14.07        16.80        14.96 
TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 
       17.79        28.54        10.03        13.87         9.73         7.13 
TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX TCGA-27-1831 
        9.37         9.40         8.88        18.97        19.33        16.60 
TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 TCGA-27-2518 
        9.86        24.23        40.54        21.30        30.05        24.76 
TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 
       18.08        16.77        16.08         7.59         2.86        14.40 
TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 
       15.78         0.20         2.53         9.21         8.35         7.63 
TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 
        8.48         1.22         1.55         2.83         0.13         0.66 
TCGA-28-2506 TCGA-28-2509 TCGA-32-1970 TCGA-32-1976 TCGA-32-1977 TCGA-32-1979 
        6.74         4.77        15.39         0.49         0.10        19.50 
TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 
        1.18         4.67        12.69        14.86        16.93        12.23 
TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 
       20.78        15.02        15.95        22.78        25.18        21.14 
TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 
        3.72        12.59        19.86        10.85        19.23         0.85 
TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 
       13.35         8.94         9.53         0.99         4.44        11.84 
TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 
        0.20        15.12        12.46         1.45        25.58         3.45 
TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4926 
       20.91         4.34        14.33         8.22         7.50         4.54 
TCGA-76-4929 TCGA-76-4931 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 
        3.65         9.17        36.85        16.70         3.29         2.70 
TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 
       17.06         8.35        20.98         4.83         5.03        23.90 
TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC 
       34.45        18.64        36.20         5.92         6.28        20.55 
TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 
      117.50         7.69        43.89        36.36        60.10        40.18 
TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 
        0.26        21.01        53.62         6.38        17.69        26.76 
TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 
       37.38        46.95        48.30        49.94        49.12       122.73 
TCGA-DB-5273 TCGA-DB-5276 TCGA-DB-5278 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       81.96        72.92        91.13        36.56        78.28        46.42 
TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A64L 
       30.21        39.78        37.45        33.57        72.95        24.20 
TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U 
       25.48        30.12         5.98        31.40        27.45        27.81 
TCGA-DB-A64V TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       29.23        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A66D TCGA-DH-A66F 
       19.96        63.88        46.06        24.59        27.81        17.19 
TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 
       54.25        23.21        13.71        18.61        18.02        14.56 
TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 
       17.46         6.74        13.38         8.45         6.81       182.33 
TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 
       18.94        17.49        15.16       211.17        52.11        22.42 
TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       49.02        75.16        46.06        87.45         7.04        11.64 
TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6542 
      133.74        19.89        16.83        94.52       114.08         2.40 
TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7011 TCGA-DU-7012 
       11.47        62.96       156.23       154.36       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 
        8.84       117.40        90.77        26.30        10.36         7.96 
TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 
       18.94        44.02        25.91        60.30        23.31        41.98 
TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 
        2.76         5.10        23.74        14.60        20.68        21.40 
TCGA-DU-8167 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU 
       15.48        33.27        29.85        31.69        24.43        26.17 
TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A76K 
       24.99        33.96        25.55        95.11        20.98        11.41 
TCGA-DU-A76L TCGA-DU-A7T6 TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
       26.76        17.98        51.52        37.38         7.50        44.42 
TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5318 TCGA-E1-5319 
       38.89         0.56        79.99        57.93        78.21        95.57 
TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ 
      130.78        14.30        29.13        93.21         3.65        19.46 
TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YU 
       12.43        16.18        21.30        75.02        51.88         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O4 TCGA-FG-5963 TCGA-FG-5965 TCGA-FG-6688 
       32.35        39.48         0.20        25.48        36.82        18.77 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7641 
       14.93        42.54        41.33        18.44        15.35        20.61 
TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 
       20.09        28.34        13.68        14.24        16.01        14.96 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX 
       22.52        32.61        38.27        10.72        18.38        18.71 
TCGA-FG-A4MY TCGA-FG-A60L TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 
       23.70        21.53        22.26        28.54        10.78        36.66 
TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7470 TCGA-HT-7472 TCGA-HT-7473 
       48.69         5.72        27.52        40.11         0.03        16.54 
TCGA-HT-7474 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7481 
        3.75         6.54        24.26         6.38        40.34        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7680 
       56.09        57.60         0.23        14.27         0.16         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 
       44.68         6.05        42.74         0.10        31.69        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 
        0.10         0.10        17.52         6.90        14.53        39.48 
TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 
       19.23        39.09         0.23        50.63         0.49        23.61 
TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
       37.15         0.33         0.13         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 
        3.72        11.28        31.43         1.64        16.24         9.40 
TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8106 
       63.55         0.10        37.87        33.01        12.23         0.10 
TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 
        0.46         2.50         5.56        13.78         0.23        29.59 
TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 
       34.19        28.27        15.72         0.23        26.04         0.13 
TCGA-HT-A5R7 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 
       20.22        27.35         0.10         5.33         2.70        16.93 
TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H 
        1.81        16.14        16.83        17.52        17.65         2.43 
TCGA-HT-A74J TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7489 TCGA-HW-7493 
       10.52        11.05         0.10        56.58        41.49        69.27 
TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ 
       35.44        39.75        40.01        42.54        24.92        31.63 
TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 
       12.76        28.87        20.71        19.00        14.40        14.40 
TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 
        6.71         7.99         2.37         2.30         9.44         5.88 
TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X 
        7.96         7.59         1.28         0.23        10.42        13.25 
TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A736 TCGA-P5-A77X 
       11.64        10.95         9.01        13.61         7.56         3.45 
TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X 
        2.37         4.41        15.16         2.53        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX 
       14.04        19.33        14.83        14.53        13.61        12.23 
TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
       13.41         9.17        10.29        14.53        16.34        16.73 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
        1.91        16.50        16.70        11.08        12.99        88.83 
TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 
       94.03        32.65        30.87         5.46         9.90        28.08 
TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV 
        2.07        19.59        30.67        62.17        87.12        18.77 
TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 
       40.93        35.38        36.82        24.39        25.81        29.85 
TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6WE 
       32.61        35.15        98.24        95.93         5.85       135.22 
TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO 
       85.55        38.56        84.99        19.86        26.47        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7J0 
       18.64        14.07        36.13         7.92        26.93        20.02 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY 
        8.19         2.04        20.68        15.06        18.54        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 
       27.16       169.84        10.39        99.06        30.05        98.63 
TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7CA 
       31.59        18.71        20.48        54.77        48.33        34.78 
TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H 
       65.39        24.92        16.18        59.05        40.64        30.44 
TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q 
       28.08        24.16        40.83        24.79        33.24        25.38 
TCGA-TM-A84R TCGA-TM-A84S TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI 
       18.61        14.93        21.37        19.69        15.98         2.04 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RN TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RV 
       40.41        44.09        33.73        30.05        26.14        61.41 
TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD 
       31.36        45.93        43.20        13.51         0.10         7.89 
TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS 
       39.16        20.02        23.47        37.05        16.01        23.21 
TCGA-VW-A8FI TCGA-W9-A837 TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B 
        8.05        51.06        43.96        39.88        43.40        45.80 
TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 TCGA-02-0001 TCGA-02-0003 
       46.88        37.71        20.81         7.63        11.77         4.73 
TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 TCGA-02-0015 
       18.35        23.18        10.59        35.41        20.71        20.61 
TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 TCGA-02-0027 
       87.06        77.65        20.12        53.10        42.74        12.16 
TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 
       90.58         2.83        14.14         3.62        10.72        10.52 
TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 
       18.31         6.87        14.73         3.22        15.09        12.59 
TCGA-02-0055 TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 
        2.50        19.86         8.35         9.57         6.02        19.73 
TCGA-02-0068 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 TCGA-02-0080 
       26.43        25.05         5.49        10.19        20.84        89.72 
TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 
       22.72        12.62        51.32         8.81        57.76        16.96 
TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 
        3.48        27.02        65.00        11.67        17.65        23.18 
TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 
       92.65        99.98        15.65        48.95        16.54        16.93 
TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 
       17.72        10.75        14.47         3.98        13.87        14.20 
TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 
       15.95        12.23         9.90         7.73        10.62         7.33 
TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 
       15.91        25.71         4.37        25.12        10.59        12.39 
TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 
       14.50        10.55        47.11        11.34         9.27        16.21 
TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 
        3.35        16.80        12.92        20.32         2.70         6.15 
TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 
       20.38        47.61         6.94         3.98        22.72        33.67 
TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0139 TCGA-06-0140 
       12.95        25.35        14.30        26.70        11.90         0.20 
TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 
       10.29         2.20        11.74         2.33        20.09        17.79 
TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 TCGA-06-0154 TCGA-06-0155 
       10.09         8.61        19.46        46.59        13.94        10.45 
TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 
        3.19        10.82         9.44        11.80         3.42        56.91 
TCGA-06-0165 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0174 TCGA-06-0176 
       10.65        19.66         3.29        13.12         3.22        91.00 
TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 
       88.14        20.25         3.65        69.90        73.84        27.22 
TCGA-06-0188 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 
       44.58        15.42        10.42        38.96         4.67         7.40 
TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 
        5.56         0.39         7.66         8.42         7.40        11.84 
TCGA-06-0213 TCGA-06-0214 TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 TCGA-06-0238 
        0.53        15.02         0.72        19.82        13.64        13.32 
TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 
       20.42        48.69        10.82         9.01         0.26        72.36 
TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 TCGA-06-0644 TCGA-06-0646 TCGA-06-0648 
        4.70         9.57         3.16        12.62         5.75         9.80 
TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 TCGA-06-0745 TCGA-06-0747 
        2.10        23.57        14.20        26.40         7.86         2.70 
TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 
        2.70         0.92        43.46        46.19         7.17        40.41 
TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1801 
       16.57        20.78        26.76        23.93         6.84        11.84 
TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 
       15.32        13.61        33.90        12.49         4.93        17.65 
TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 
       12.56        30.64         5.95        16.64         5.98         4.37 
TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 TCGA-06-6694 TCGA-08-0244 
        0.43        31.50         7.79         5.39         7.36        22.68 
TCGA-08-0245 TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 
       37.84         4.18       115.86         1.74         8.42        25.71 
TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 
       12.16         9.80        29.23         1.28         8.42        17.95 
TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 
       24.56        31.10        37.58        22.29         3.39        12.23 
TCGA-08-0380 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 TCGA-08-0510 
       14.93        15.35        13.97         0.72        12.56         4.27 
TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 
       42.15        11.08        19.59        58.68        19.33        10.75 
TCGA-08-0521 TCGA-08-0524 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 
        4.80         7.27        18.41         7.56        14.73        12.99 
TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 
       10.45         7.59        94.78         0.10        38.17        25.97 
TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 
       26.66        12.13         3.65        20.38        28.41        15.06 
TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 
       53.85        43.23         7.63         9.73        14.93        14.86 
TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0826 
       91.76        24.79        18.48        10.62        23.51        27.78 
TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 
        8.94        20.58       127.59         5.82         7.59        33.21 
TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 
       15.98        12.23        15.85         9.11        14.53         3.98 
TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 TCGA-14-0871 
        4.14         2.24        11.24         1.35         5.39        28.93 
TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 TCGA-15-1447 
       19.30         0.79        13.78        50.53        19.10        53.19 
TCGA-16-0846 TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 
        3.91        16.37        11.77        21.90         0.66        10.75 
TCGA-19-1386 TCGA-19-1388 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 
        9.07        12.95         4.64        31.33        14.86         5.49 
TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-5204 TCGA-28-5208 
        1.58         7.92         2.33         7.30        14.93        17.88 
TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5215 TCGA-28-5216 TCGA-28-5218 
       14.53        11.77        31.27        11.01        13.64         5.16 
TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-76-6660 
       22.68        12.76         5.42         7.36        11.38         3.75 
TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        1.61        17.72        26.30 

  4P LOSS MUTATED 4P LOSS WILD-TYPE 
             0.07              0.03 
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
           139.04            211.17 
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
            18.02             15.65 
[1] "0.1 - 139.0 (18.0)" "0.0 - 211.2 (15.7)"
[1] "hr=" "1.3"
D48V2, continuous
D48V3, binary
                   cls
clus                  0   1
  4P LOSS MUTATED    56  71
  4P LOSS WILD-TYPE 517 441
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4P LOSS MUTATED     56   71
  4P LOSS WILD-TYPE  517  441
                        clus
vv                       4P LOSS MUTATED 4P LOSS WILD-TYPE
  BRAIN                               56               517
  CENTRAL NERVOUS SYSTEM              71               441
[1] 2 2
[1] FALSE
D48V4, binary
                   cls
clus                  0   1
  4P LOSS MUTATED    42  85
  4P LOSS WILD-TYPE 411 547
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4P LOSS MUTATED     42   85
  4P LOSS WILD-TYPE  411  547
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  FEMALE              42               411
  MALE                85               547
[1] 2 2
[1] FALSE
D48V5, binary
                   cls
clus                  0   1
  4P LOSS MUTATED    35  84
  4P LOSS WILD-TYPE 223 686
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4P LOSS MUTATED     35   84
  4P LOSS WILD-TYPE  223  686
     clus
vv    4P LOSS MUTATED 4P LOSS WILD-TYPE
  NO               35               223
  YES              84               686
[1] 2 2
[1] FALSE
D48V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  4P LOSS MUTATED            13                             3               19
  4P LOSS WILD-TYPE         181                            27              110
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  4P LOSS MUTATED                  39                   0
  4P LOSS WILD-TYPE               150                  18
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  4P LOSS MUTATED                                53
  4P LOSS WILD-TYPE                             472
D48V7, multiclass
                                 clus
vv                                4P LOSS MUTATED 4P LOSS WILD-TYPE
  ASTROCYTOMA                                  13               181
  GLIOBLASTOMA MULTIFORME (GBM)                 3                27
  OLIGOASTROCYTOMA                             19               110
  OLIGODENDROGLIOMA                            39               150
  TREATED PRIMARY GBM                           0                18
  UNTREATED PRIMARY (DE NOVO) GBM              53               472
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  4P LOSS MUTATED                                  0     5
  4P LOSS WILD-TYPE                                1    16
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  4P LOSS MUTATED                           6   114
  4P LOSS WILD-TYPE                        65   845
D48V8, multiclass
                                  clus
vv                                 4P LOSS MUTATED 4P LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          5                16
  BLACK OR AFRICAN AMERICAN                      6                65
  WHITE                                        114               845
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D48V9, binary
                   cls
clus                  0   1
  4P LOSS MUTATED     7 109
  4P LOSS WILD-TYPE  37 812
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4P LOSS MUTATED      7  109
  4P LOSS WILD-TYPE   37  812
                        clus
vv                       4P LOSS MUTATED 4P LOSS WILD-TYPE
  HISPANIC OR LATINO                   7                37
  NOT HISPANIC OR LATINO             109               812
[1] 2 2
[1] FALSE

Clustering(49) Variable = 4Q LOSS MUTATION ANALYSIS
D49V1, survival
                   sevent
clus2                 0   1
  4Q LOSS MUTATED    86  63
  4Q LOSS WILD-TYPE 394 535
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
              149               929 
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
               63               535 
$`4Q LOSS MUTATED`
TCGA-DH-A66B TCGA-HT-A619 TCGA-IK-8125 TCGA-06-5416 TCGA-06-A5U0 TCGA-12-1598 
       42.05        21.40        42.77         6.71        26.79        15.65 
TCGA-12-3644 TCGA-12-3646 TCGA-12-3653 TCGA-14-0740 TCGA-14-1453 TCGA-14-1454 
       59.77        44.02        14.53        11.97         1.15        30.18 
TCGA-14-1458 TCGA-14-1823 TCGA-16-0848 TCGA-19-1390 TCGA-19-2629 TCGA-19-4065 
        6.67        17.85        17.59        25.38        24.23         7.04 
TCGA-19-A6J5 TCGA-27-1830 TCGA-27-1838 TCGA-32-1973 TCGA-32-2632 TCGA-4W-AA9R 
       28.54         5.06        11.51        21.07         8.84         4.08 
TCGA-76-4934 TCGA-76-6285 TCGA-CS-4943 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5277 
        2.53         8.35        36.36        75.25        47.93        50.86 
TCGA-DB-5279 TCGA-DB-A4XA TCGA-DB-A4XE TCGA-DB-A4XH TCGA-DB-A64W TCGA-DB-A75O 
       44.52        18.84        37.45        31.63        14.40        30.74 
TCGA-DH-A669 TCGA-DH-A66G TCGA-DU-5853 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6410 
       30.21        17.19        13.38        65.75         1.22         7.96 
TCGA-DU-7008 TCGA-DU-7010 TCGA-DU-7018 TCGA-DU-7294 TCGA-DU-7299 TCGA-DU-7302 
      156.23        14.99        30.67        94.32        44.02        60.30 
TCGA-DU-7309 TCGA-DU-8165 TCGA-DU-8168 TCGA-DU-A5TS TCGA-DU-A6S3 TCGA-DU-A6S8 
        2.76        19.13        14.17        31.69        21.57        22.29 
TCGA-DU-A76R TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 
       21.30       139.04        84.33        50.14        67.46        41.13 
TCGA-E1-5311 TCGA-E1-A7YK TCGA-E1-A7YS TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-FG-5962 
      134.27        12.43        15.32        39.48         0.23        47.77 
TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-A60J TCGA-FG-A6IZ 
       25.48        52.21        17.88        22.55        14.76        15.02 
TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7471 
       16.44        22.26         0.10         6.67        11.54         0.13 
TCGA-HT-7480 TCGA-HT-7677 TCGA-HT-7692 TCGA-HT-7856 TCGA-HT-8105 TCGA-HT-A5R9 
       75.19        16.24         2.96        39.09         6.25         0.07 
TCGA-HT-A74K TCGA-HW-7487 TCGA-HW-7491 TCGA-HW-7493 TCGA-P5-A5EV TCGA-P5-A735 
       15.35        45.44        68.32        69.27         0.23         9.60 
TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A780 TCGA-QH-A6X4 TCGA-QH-A6XA TCGA-S9-A6TW 
       12.23        19.20         2.37        14.53        16.50        41.10 
TCGA-S9-A6WD TCGA-S9-A6WL TCGA-S9-A6WP TCGA-S9-A7IS TCGA-S9-A7IY TCGA-S9-A7IZ 
       75.25        31.10        18.64         7.92        23.51        19.99 
TCGA-S9-A7J0 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A84R TCGA-TM-A84T TCGA-TQ-A7RM 
       20.02        48.33        49.32        18.61        23.80        36.69 
TCGA-TQ-A7RO TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RW TCGA-WH-A86K TCGA-WY-A859 
       31.20        25.87        33.93        26.99        13.32        39.88 
TCGA-WY-A85A TCGA-WY-A85E TCGA-02-0024 TCGA-02-0026 TCGA-02-0054 TCGA-02-0079 
       43.40        20.81        53.10        24.59         6.54        27.25 
TCGA-02-2483 TCGA-02-2485 TCGA-06-0138 TCGA-06-0152 TCGA-06-0166 TCGA-06-0177 
       15.32        15.45        24.23        12.33         5.85         4.18 
TCGA-06-0216 TCGA-06-0414 TCGA-06-0645 TCGA-06-0744 TCGA-06-1087 TCGA-06-1800 
       24.16        35.11         5.75        46.88         4.04        26.79 
TCGA-06-1805 TCGA-06-2557 TCGA-06-2569 TCGA-06-6389 TCGA-06-6693 TCGA-08-0386 
       33.90         1.08         0.43         7.79       120.56        18.02 
TCGA-12-0619 TCGA-12-0827 TCGA-14-0867 TCGA-15-1447 TCGA-15-1449 TCGA-19-1387 
       34.92        38.76         2.04        53.19        13.28         5.95 
TCGA-26-1442 TCGA-28-2514 TCGA-28-5207 TCGA-28-5214 TCGA-76-6283 
       31.33         5.26        11.28        23.44         5.42 

$`4Q LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       62.01        17.16        23.90        20.09        17.82        20.45 
TCGA-FG-A87N TCGA-HW-7490 TCGA-R8-A73M TCGA-06-1806 TCGA-06-5408 TCGA-06-5410 
       18.64        45.60        59.38        15.32        11.74         3.55 
TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 TCGA-06-5418 
        8.35         4.54         8.81         8.98         8.55         2.73 
TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 
        3.75         6.15         4.57         5.23         8.32        12.85 
TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U1 TCGA-06-A6S0 
        4.77         1.55         4.77         4.96         1.87         3.12 
TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1599 
        2.56        14.60        17.72        15.35        21.73        25.68 
TCGA-12-1600 TCGA-12-1602 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 
       14.73         6.77        26.93        15.22        10.95        12.69 
TCGA-12-3652 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 TCGA-14-0781 
       34.92        14.93         3.22         2.04        15.12         0.95 
TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 
        6.21        23.05        13.78         3.25         2.89        16.50 
TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 
       26.33        15.95         1.38         1.12         3.75        32.05 
TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1455 TCGA-14-1456 TCGA-14-1459 
       58.78        23.11         7.10         0.92        40.96        12.43 
TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 
        0.99         1.97        17.79         7.63         5.88         7.17 
TCGA-14-2554 TCGA-14-2555 TCGA-14-3477 TCGA-14-4157 TCGA-16-1045 TCGA-16-1047 
       17.49         7.96         3.78         3.42        29.03         4.57 
TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 
       10.29        14.01         9.14        21.24        13.97         6.41 
TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 
        8.61        14.27         3.39         3.65         7.17        12.66 
TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 
        3.25         0.13         9.67         4.87         1.08         7.53 
TCGA-19-2624 TCGA-19-2625 TCGA-19-2631 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 
        0.16         4.08         7.00         6.64        17.19         8.02 
TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 
       18.90         4.73        12.10         1.78        22.49        14.07 
TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-26-1438 TCGA-26-1439 TCGA-26-1440 
       16.80        14.96        17.79        10.03        13.87         9.73 
TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX 
        7.13         9.37         9.40         8.88        18.97        19.33 
TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 
       16.60         9.86        24.23        40.54        21.30        30.05 
TCGA-27-1837 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 TCGA-27-2524 
       14.04        24.76        18.08        16.77        16.08         7.59 
TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 
        2.86        14.40        15.78         0.20         2.53         9.21 
TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 
        8.35         7.63         8.48         1.22         1.55         2.83 
TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 TCGA-32-1970 TCGA-32-1976 
        0.13         0.66         6.74         4.77        15.39         0.49 
TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 
        0.10        15.85        19.50         1.18         4.67        12.69 
TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 
       14.86        16.93        12.23        20.78        15.02        15.95 
TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 
       22.78        25.18        21.14         3.72        12.59        19.86 
TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 
       10.85        19.23         0.85        13.35         8.94         9.53 
TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 
        0.99         4.44        11.84         0.20        15.12        12.46 
TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 
        1.45        25.58         3.45        20.91         4.34        14.33 
TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 
        8.22         7.50         4.80         4.54         3.09         3.65 
TCGA-76-4931 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 
        9.17        36.85        16.70         3.29         2.70        17.06 
TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 
       20.98         4.83         5.03        23.90        34.45        18.64 
TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 
       36.20         5.92         6.28        20.55       117.50         7.69 
TCGA-CS-4942 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 
       43.89        60.10        40.18         0.26        21.01        53.62 
TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 
        6.38        17.69        26.76        37.38        46.95        48.30 
TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5276 TCGA-DB-5278 
       49.94        49.12       122.73        81.96        72.92        91.13 
TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XF 
       36.56        78.28        46.42        30.21        39.78        33.57 
TCGA-DB-A4XG TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R 
       72.95        24.20        25.48        30.12         5.98        31.40 
TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L 
       27.45        27.81        29.23        18.51        12.10        11.24 
TCGA-DB-A75M TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 
       17.88        16.18        19.96        63.88        46.06        24.59 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU 
       27.81        17.19        54.25        23.21        17.46        13.71 
TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5854 
       18.61        18.02        14.56        17.46         6.74         8.45 
TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 
        6.81       182.33        18.94        17.49        15.16       211.17 
TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6401 
       52.11        22.42        49.02        75.16        46.06        87.45 
TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 
        7.04        11.64       133.74        19.89        16.83        94.52 
TCGA-DU-6408 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7009 TCGA-DU-7011 
      114.08         2.40        11.47        62.96       154.36       105.21 
TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7019 TCGA-DU-7290 
        6.54         8.84       117.40        90.77        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7298 TCGA-DU-7301 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-8158 
        7.96        18.94        25.91        23.31        41.98         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8166 TCGA-DU-8167 
       23.74        14.60        20.68        21.40        16.96        15.48 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY 
       33.27        29.85        24.43        26.17        24.99        33.96 
TCGA-DU-A6S2 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A7T6 
       25.55        95.11        20.98        11.41        26.76        17.98 
TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ 
       51.52        37.38         7.50        44.42        38.89         0.56 
TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       79.99        57.93        78.21        95.57       130.78        14.30 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YL TCGA-E1-A7YM 
       29.13        93.21         3.65        19.46        16.18        21.30 
TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY 
       75.02        51.88         0.76        32.45        36.82       146.14 
TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-F6-A8O4 TCGA-FG-5965 
       13.08        73.48       145.05        32.35         0.20        36.82 
TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 
       18.77        14.93        42.54        41.33        18.44        15.35 
TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 
       20.61        20.09        28.34        13.68        14.24        16.01 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       14.96        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60L TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 
       18.71        23.70        21.53        28.54        10.78        36.66 
TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7470 TCGA-HT-7472 TCGA-HT-7473 
       48.69         5.72        27.52        40.11         0.03        16.54 
TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 
        3.75        17.42         6.54        24.26         6.38        40.34 
TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 
       95.93       106.95       172.77         4.01         5.03        29.85 
TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 
       23.18       122.47         4.57        17.29         3.16        22.06 
TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 
       45.99        56.09        57.60         0.23        14.27         0.16 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 
        0.76        44.68         6.05        42.74         0.10        31.69 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
       14.96         0.10         0.10        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 
       39.48        19.23         0.23        50.63         0.49        23.61 
TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
       37.15         0.33         0.13         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 
        3.72        11.28        31.43         1.64        16.24         9.40 
TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8106 
       63.55         0.10        37.87        33.01        12.23         0.10 
TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 
        0.46         2.50         5.56        13.78         0.23        29.59 
TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 
       34.19        28.27        15.72         0.23        26.04         0.13 
TCGA-HT-A5R7 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 
       20.22        27.35         0.10         5.33         2.70        16.93 
TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H 
        1.81        16.14        16.83        17.52        17.65         2.43 
TCGA-HT-A74J TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7489 TCGA-HW-7495 
       10.52        11.05         0.10        56.58        41.49        35.44 
TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK 
       39.75        40.01        42.54        24.92        31.63        12.76 
TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EW 
       28.87        20.71        19.00        14.40        14.40         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        7.99         2.37         2.30         9.44         5.88         7.96 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        7.59         1.28         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A736 TCGA-P5-A77X TCGA-P5-A781 
       10.95         9.01        13.61         7.56         3.45         4.41 
TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS 
       15.16         2.53        12.62        15.85        14.04        19.33 
TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ 
       14.83        14.53        13.61        12.23        13.41         9.17 
TCGA-QH-A6X3 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XC TCGA-QH-A86X 
       10.29        16.34        16.73         1.91        16.70        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y 
       12.99        88.83        94.03        32.65        30.87         5.46 
TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS 
        9.90        28.08         2.07        19.59        30.67        62.17 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       87.12        18.77        40.93        35.38        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 
       25.81        29.85        32.61        35.15        98.24        95.93 
TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI 
        5.85       123.65       135.22        85.55        38.56        84.99 
TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IX 
       19.86        26.47        18.61        14.07        36.13        26.93 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY 
        8.19         2.04        20.68        15.06        18.54        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 
       27.16       169.84        10.39        99.06        30.05        98.63 
TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7CA TCGA-TM-A7CF 
       31.59        18.71        20.48        54.77        34.78        65.39 
TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I 
       24.92        16.18        59.05        40.64        30.44        28.08 
TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84S 
       24.16        40.83        24.79        33.24        25.38        14.93 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RN TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RV TCGA-TQ-A8XE TCGA-VM-A8C8 
       33.73        30.05        26.14        61.41        31.36        45.93 
TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF 
       43.20        13.51         0.10         7.89        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 
       23.47        37.05        16.01        23.21         8.05        51.06 
TCGA-WY-A858 TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-06-0209 TCGA-02-0001 
       43.96        45.80        46.88        37.71         7.63        11.77 
TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 
        4.73        18.35        23.18        10.59        35.41        20.71 
TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0025 
       82.59        20.61        87.06        77.65        20.12        42.74 
TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 
       12.16        90.58         2.83        14.14         3.62        10.72 
TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 TCGA-02-0051 
       10.52        18.31         6.87        14.73         3.22        15.09 
TCGA-02-0052 TCGA-02-0055 TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 
       12.59         2.50        19.86         8.35         9.57         6.02 
TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 
       19.73        26.43        28.70        25.05         5.49        10.19 
TCGA-02-0075 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 
       20.84        89.72        22.72        12.62        51.32         8.81 
TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0106 
       57.76        16.96         3.48        27.02        65.00        11.67 
TCGA-02-0107 TCGA-02-0111 TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 
       17.65        23.18        92.65        99.98        15.65        48.95 
TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 TCGA-02-0281 
       16.54        16.93        17.72        10.75        14.47         3.98 
TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 
       13.87        14.20        15.95        12.23         9.90         7.73 
TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 
       10.62         7.33        15.91        25.71         4.37        25.12 
TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 
       10.59        12.39        14.50        10.55        47.11        11.34 
TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 TCGA-02-2486 
        9.27        16.21         3.35        16.80        12.92        20.32 
TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 
        2.70         6.15        20.38        47.61         6.94         3.98 
TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 
       22.72        33.67        12.95        25.35        14.30        26.70 
TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 
       11.90         0.20        10.29         2.20        11.74         2.33 
TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 
       20.09        17.79        10.09         8.61        19.46        46.59 
TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 
       13.94        10.45         3.19        10.82         9.44        11.80 
TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 
        3.42        56.91        10.65        19.66         3.29        13.12 
TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0178 TCGA-06-0179 
        4.47         3.22         4.04        91.00        88.14        20.25 
TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 
        3.65        69.90        73.84        27.22        44.58        15.42 
TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 
       10.42        38.96         4.67         7.40         5.56         0.39 
TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 
        7.66         8.42         7.40        11.84         0.53        15.02 
TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 
        0.72        19.82        13.64        13.32        20.42        48.69 
TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 TCGA-06-0410 TCGA-06-0412 
       10.82         9.01         0.26        72.36         4.70         9.57 
TCGA-06-0413 TCGA-06-0644 TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 
        3.16        12.62         5.75         9.80         2.10        23.57 
TCGA-06-0686 TCGA-06-0743 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 
       14.20        26.40         7.86         2.70         2.70         0.92 
TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 
       43.46        46.19         7.17        40.41        16.57        20.78 
TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 
       26.76        23.93         6.84        11.84        15.32        13.61 
TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 
       12.49         4.93        17.65        12.56        30.64         5.95 
TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2570 TCGA-06-6390 TCGA-06-6694 
       16.64         5.98         4.37        31.50         5.39         7.36 
TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 
       22.68        37.84         4.18       115.86         1.74         8.42 
TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 
       25.71        12.16         9.80        29.23        65.33         1.28 
TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 
        8.42        17.95        24.56        31.10        37.58        22.29 
TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 
        3.39        12.23        14.93        15.35        13.97         0.72 
TCGA-08-0509 TCGA-08-0510 TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 
       12.56         4.27        42.15        11.08        19.59        58.68 
TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 
       19.33        10.75         4.80         7.27        15.98        18.41 
TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 
        7.56        14.73        12.99        10.45         7.59        94.78 
TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 
        0.10        38.17        25.97        26.66        12.13         3.65 
TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 
       20.38        28.41        15.06        53.85        43.23         7.63 
TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 
        9.73        14.93        14.86        91.76        24.79        18.48 
TCGA-12-0821 TCGA-12-0822 TCGA-12-0826 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 
       10.62        23.51        27.78         8.94        20.58       127.59 
TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 
        5.82         7.59        33.21        15.98        12.23        15.85 
TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 
        9.11        14.53         3.98         4.14         2.24        11.24 
TCGA-14-0813 TCGA-14-0817 TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 
        1.35         5.39        28.93        19.30         0.79        13.78 
TCGA-15-1444 TCGA-15-1446 TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 
       50.53        19.10         3.91        26.07        16.37        11.77 
TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1388 TCGA-19-1389 
       21.90         0.66        10.75         9.07        12.95         4.64 
TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 
       14.86         5.49         1.58         7.92         2.33         7.30 
TCGA-28-5204 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5215 
       14.93        17.88        14.53        11.77        31.27        11.01 
TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 
       13.64         5.16        22.68        12.76         5.42         7.36 
TCGA-76-6280 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
       11.38         3.75         1.61        17.72        26.30 

  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
             0.07              0.03 
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
           156.23            211.17 
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
            21.30             15.35 
[1] "0.1 - 156.2 (21.3)" "0.0 - 211.2 (15.3)"
[1] "hr=" "1.7"
D49V2, continuous
D49V3, binary
                   cls
clus                  0   1
  4Q LOSS MUTATED    56  93
  4Q LOSS WILD-TYPE 517 419
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4Q LOSS MUTATED     56   93
  4Q LOSS WILD-TYPE  517  419
                        clus
vv                       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  BRAIN                               56               517
  CENTRAL NERVOUS SYSTEM              93               419
[1] 2 2
[1] FALSE
D49V4, binary
                   cls
clus                  0   1
  4Q LOSS MUTATED    58  91
  4Q LOSS WILD-TYPE 395 541
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4Q LOSS MUTATED     58   91
  4Q LOSS WILD-TYPE  395  541
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  FEMALE              58               395
  MALE                91               541
[1] 2 2
[1] FALSE
D49V5, binary
                   cls
clus                  0   1
  4Q LOSS MUTATED    45  95
  4Q LOSS WILD-TYPE 213 675
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4Q LOSS MUTATED     45   95
  4Q LOSS WILD-TYPE  213  675
     clus
vv    4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  NO               45               213
  YES              95               675
[1] 2 2
[1] FALSE
D49V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  4Q LOSS MUTATED            24                             4               23
  4Q LOSS WILD-TYPE         170                            26              106
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  4Q LOSS MUTATED                  46                   1
  4Q LOSS WILD-TYPE               143                  17
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  4Q LOSS MUTATED                                51
  4Q LOSS WILD-TYPE                             474
D49V7, multiclass
                                 clus
vv                                4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  ASTROCYTOMA                                  24               170
  GLIOBLASTOMA MULTIFORME (GBM)                 4                26
  OLIGOASTROCYTOMA                             23               106
  OLIGODENDROGLIOMA                            46               143
  TREATED PRIMARY GBM                           1                17
  UNTREATED PRIMARY (DE NOVO) GBM              51               474
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  4Q LOSS MUTATED                                  0     4
  4Q LOSS WILD-TYPE                                1    17
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  4Q LOSS MUTATED                           9   135
  4Q LOSS WILD-TYPE                        62   824
D49V8, multiclass
                                  clus
vv                                 4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          4                17
  BLACK OR AFRICAN AMERICAN                      9                62
  WHITE                                        135               824
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D49V9, binary
                   cls
clus                  0   1
  4Q LOSS MUTATED     7 124
  4Q LOSS WILD-TYPE  37 797
[1] "tbl2"
                   cls
clus                [,1] [,2]
  4Q LOSS MUTATED      7  124
  4Q LOSS WILD-TYPE   37  797
                        clus
vv                       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  HISPANIC OR LATINO                   7                37
  NOT HISPANIC OR LATINO             124               797
[1] 2 2
[1] FALSE

Clustering(50) Variable = 5P LOSS MUTATION ANALYSIS
D50V1, survival
                   sevent
clus2                 0   1
  5P LOSS MUTATED    34  46
  5P LOSS WILD-TYPE 446 552
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
               80               998 
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
               46               552 
$`5P LOSS MUTATED`
TCGA-12-3652 TCGA-12-3653 TCGA-14-0740 TCGA-14-0865 TCGA-14-1453 TCGA-14-1821 
       34.92        14.53        11.97        16.50         1.15        17.79 
TCGA-14-3477 TCGA-19-4065 TCGA-19-5954 TCGA-27-1834 TCGA-27-2521 TCGA-28-1755 
        3.78         7.04        12.10        40.54        16.77         1.55 
TCGA-41-5651 TCGA-4W-AA9R TCGA-76-4925 TCGA-76-4929 TCGA-CS-4943 TCGA-DB-5275 
       15.12         4.08         4.80         3.65        36.36        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5281 TCGA-DB-A4XE TCGA-DB-A4XH TCGA-DB-A64X 
       72.92        50.86        78.28        37.45        31.63        18.51 
TCGA-DH-5140 TCGA-DH-A66D TCGA-DH-A66G TCGA-DU-6399 TCGA-DU-7007 TCGA-DU-7010 
       19.96        27.81        17.19        65.75        62.96        14.99 
TCGA-DU-7306 TCGA-DU-8165 TCGA-DU-A7T6 TCGA-E1-5302 TCGA-E1-A7Z4 TCGA-FG-5965 
       41.98        19.13        17.98        50.14       145.05        36.82 
TCGA-FG-6689 TCGA-FG-A6J3 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7688 TCGA-HT-7884 
       14.93        22.26         3.75        17.42        31.69        11.28 
TCGA-HT-8106 TCGA-HT-A614 TCGA-HT-A61B TCGA-P5-A72W TCGA-P5-A780 TCGA-RY-A83Z 
        0.10         2.70        17.52        10.42         2.37         9.90 
TCGA-S9-A6WM TCGA-S9-A7R7 TCGA-TM-A84I TCGA-WY-A859 TCGA-02-0025 TCGA-02-0052 
       19.86        98.63        28.08        39.88        42.74        12.59 
TCGA-02-0069 TCGA-02-0084 TCGA-02-0104 TCGA-02-0115 TCGA-02-0339 TCGA-02-2483 
       28.70        12.62        65.00        15.65        12.39        15.32 
TCGA-06-0128 TCGA-06-0188 TCGA-06-0414 TCGA-06-0644 TCGA-06-0686 TCGA-06-1087 
       22.72        44.58        35.11        12.62        14.20         4.04 
TCGA-06-6389 TCGA-08-0245 TCGA-08-0344 TCGA-08-0386 TCGA-08-0516 TCGA-08-0517 
        7.79        37.84       115.86        18.02        19.59        58.68 
TCGA-12-0818 TCGA-14-0817 TCGA-14-0867 TCGA-14-0871 TCGA-16-0850 TCGA-19-1387 
       91.76         5.39         2.04        28.93        16.37         5.95 
TCGA-26-5133 TCGA-28-5215 
       14.86        11.01 

$`5P LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K 
       42.05        62.01        17.16        23.90        20.09        17.82 
TCGA-FG-A713 TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M 
       20.45        18.64        21.40        45.60        42.77        59.38 
TCGA-06-1806 TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 
       15.32        11.74         3.55         8.35         4.54         8.81 
TCGA-06-5414 TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 
        8.98         8.55         6.71         2.73         3.75         6.15 
TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 
        4.57         5.23         8.32        12.85         4.77         1.55 
TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 
        4.77         4.96        26.79         1.87         3.12         2.56 
TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 
       14.60        17.72        15.35        21.73        15.65        25.68 
TCGA-12-1600 TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 
       14.73         6.77        59.77        44.02        26.93        15.22 
TCGA-12-3650 TCGA-12-3651 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 
       10.95        12.69        14.93         3.22         2.04        15.12 
TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 
        0.95         6.21        23.05        13.78         3.25         2.89 
TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 
       26.33        15.95         1.38         1.12         3.75        32.05 
TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 
       58.78        23.11         7.10        30.18         0.92        40.96 
TCGA-14-1458 TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 TCGA-14-1823 TCGA-14-1825 
        6.67        12.43         0.99         1.97        17.85         7.63 
TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-4157 TCGA-16-0848 
        5.88         7.17        17.49         7.96         3.42        17.59 
TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 
       29.03         4.57        10.29        14.01         9.14        21.24 
TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 
       13.97         6.41         8.61        14.27         3.39        25.38 
TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 
        3.65         7.17        12.66         3.25         0.13         9.67 
TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 
        4.87         1.08         7.53         0.16         4.08        24.23 
TCGA-19-2631 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 
        7.00         6.64        17.19         8.02        18.90         4.73 
TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I 
        1.78        22.49        14.07        16.80        14.96        17.79 
TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 
       28.54        10.03        13.87         9.73         7.13         9.37 
TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 
        9.40         8.88        18.97        19.33         5.06        16.60 
TCGA-27-1832 TCGA-27-1833 TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 
        9.86        24.23        21.30        30.05        14.04        11.51 
TCGA-27-2518 TCGA-27-2519 TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 
       24.76        18.08        16.08         7.59         2.86        14.40 
TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 
       15.78         0.20         2.53         9.21         8.35         7.63 
TCGA-28-1752 TCGA-28-1753 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 
        8.48         1.22         2.83         0.13         0.66         6.74 
TCGA-28-2509 TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 
        4.77        15.39        21.07         0.49         0.10        15.85 
TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 
       19.50         1.18         4.67        12.69        14.86        16.93 
TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 TCGA-32-2632 TCGA-32-2634 
       12.23        20.78        15.02        15.95         8.84        22.78 
TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 
       25.18        21.14         3.72        12.59        19.86        10.85 
TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 
       19.23         0.85        13.35         8.94         9.53         0.99 
TCGA-41-3393 TCGA-41-3915 TCGA-41-4097 TCGA-41-6646 TCGA-4W-AA9S TCGA-4W-AA9T 
        4.44        11.84         0.20        12.46         1.45        25.58 
TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 
        3.45        20.91         4.34        14.33         8.22         7.50 
TCGA-76-4926 TCGA-76-4928 TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 
        4.54         3.09         9.17         2.53        36.85        16.70 
TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 
        3.29         2.70        17.06         8.35        20.98         4.83 
TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R 
        5.03        23.90        34.45        18.64        36.20         5.92 
TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4944 
        6.28        20.55       117.50         7.69        43.89        60.10 
TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.26        21.01        53.62         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 
       26.76        37.38        46.95        48.30        49.94        49.12 
TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 
      122.73        81.96        75.25        91.13        44.52        36.56 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XF TCGA-DB-A4XG 
       46.42        18.84        30.21        39.78        33.57        72.95 
TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S 
       24.20        25.48        30.12         5.98        31.40        27.45 
TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M 
       27.81        29.23        14.40        12.10        11.24        17.88 
TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       30.74        16.18        63.88        46.06        24.59        30.21 
TCGA-DH-A66F TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV 
       17.19        54.25        23.21        17.46        13.71        18.61 
TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 
       18.02        14.56        17.46         6.74        13.38         8.45 
TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 
        6.81       182.33        18.94        17.49        15.16       211.17 
TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6400 
       52.11        22.42        49.02        75.16        46.06         1.22 
TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 
       87.45         7.04        11.64       133.74        19.89        16.83 
TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7008 
       94.52       114.08         7.96         2.40        11.47       156.23 
TCGA-DU-7009 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 
      154.36       105.21         6.54         8.84       117.40        90.77 
TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 
       30.67        26.30        10.36         7.96        94.32        18.94 
TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7309 TCGA-DU-8158 
       44.02        25.91        60.30        23.31         2.76         5.10 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8166 TCGA-DU-8167 
       23.74        14.60        20.68        21.40        16.96        15.48 
TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU 
       14.17        33.27        29.85        31.69        24.43        26.17 
TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 
       24.99        33.96        25.55        21.57        95.11        20.98 
TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T8 TCGA-DU-A7TA 
       22.29        11.41        26.76        21.30       139.04        84.33 
TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ 
       51.52        37.38         7.50        44.42        38.89         0.56 
TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 
       67.46        41.13        79.99        57.93       134.27        78.21 
TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI 
       95.57       130.78        14.30        29.13        93.21         3.65 
TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ 
       19.46        12.43        16.18        21.30        75.02        51.88 
TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 
       15.32         0.76        32.45        36.82       146.14        13.08 
TCGA-E1-A7Z3 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 
       73.48        32.35        39.48         0.23         0.20        47.77 
TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-6688 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       25.48        52.21        18.77        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 
       15.35        17.88        22.55        20.61        20.09        28.34 
TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 
       13.68        14.24        16.01        14.96        22.52        32.61 
TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J 
       38.27        10.72        18.38        18.71        23.70        14.76 
TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 
       21.53        15.02        16.44        28.54        10.78        36.66 
TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 
       48.69         5.72        27.52         0.10         6.67        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7476 TCGA-HT-7477 
       40.11         0.13         0.03        16.54         6.54        24.26 
TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 
        6.38        40.34        75.19        95.93       106.95       172.77 
TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 
        4.01         5.03        29.85        23.18       122.47         4.57 
TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 
       17.29         3.16        22.06        45.99        56.09        57.60 
TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
        0.23        14.27         0.16        16.24         0.76        44.68 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 
        6.05        42.74         0.10        14.96         0.10         0.10 
TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 
        2.96        17.52         6.90        14.53        39.48        19.23 
TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 
       39.09         0.23        50.63         0.49        23.61        37.15 
TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 
        0.33         0.13         3.68         5.33        35.47         3.72 
TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 
       31.43         1.64        16.24         9.40        63.55         0.10 
TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8107 TCGA-HT-8108 
       37.87        33.01        12.23         6.25         0.46         2.50 
TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 
        5.56        13.78         0.23        29.59        34.19        28.27 
TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 
       15.72         0.23        26.04         0.13        20.22         0.07 
TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 
       27.35         0.10         5.33        16.93         1.81        16.14 
TCGA-HT-A618 TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L 
       16.83        17.65         2.43        10.52        15.35        11.05 
TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 
        0.10        56.58        45.44        41.49        68.32        69.27 
TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ 
       35.44        39.75        40.01        42.54        24.92        31.63 
TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 
       12.76        28.87        20.71        19.00        14.40        14.40 
TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 
        0.23         6.71         7.99         2.37         2.30         9.44 
TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72X 
        5.88         7.96         7.59         1.28         0.23        13.25 
TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 
       11.64        10.95         9.01        13.61         9.60         7.56 
TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       12.23        19.20         3.45         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV 
       12.62        15.85        14.04        19.33        14.83        14.53 
TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 
       13.61        12.23        13.41         9.17        10.29        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       16.34        16.73         1.91        16.50        16.70        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y 
       12.99        88.83        94.03        32.65        30.87         5.46 
TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU 
       28.08         2.07        19.59        30.67        62.17        87.12 
TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       18.77        41.10        40.93        35.38        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 
       25.81        29.85        32.61        35.15        98.24        95.93 
TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH 
        5.85       123.65        75.25       135.22        85.55        38.56 
TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ 
       84.99        31.10        26.47        18.61        18.64        14.07 
TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 
       36.13         7.92        26.93        23.51        19.99        20.02 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY 
        8.19         2.04        20.68        15.06        18.54        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R8 
       27.16       169.84        10.39        99.06        30.05        31.59 
TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA 
       18.71        20.48        54.77        48.33        49.32        34.78 
TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H 
       65.39        24.92        16.18        59.05        40.64        30.44 
TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R 
       24.16        40.83        24.79        33.24        25.38        18.61 
TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI 
       14.93        23.80        21.37        19.69        15.98         2.04 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP 
       40.41        44.09        36.69        33.73        31.20        30.05 
TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE 
       26.14        25.87        33.93        61.41        26.99        31.36 
TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE 
       45.93        43.20        13.51         0.10         7.89        39.16 
TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI 
       20.02        23.47        37.05        16.01        23.21         8.05 
TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C 
       51.06        13.32        43.96        43.40        45.80        46.88 
TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 
       37.71        20.81         7.63        11.77         4.73        18.35 
TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 
       23.18        10.59        35.41        20.71        82.59        20.61 
TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 TCGA-02-0026 TCGA-02-0027 
       87.06        77.65        20.12        53.10        24.59        12.16 
TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 
       90.58         2.83        14.14         3.62        10.72        10.52 
TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 TCGA-02-0051 TCGA-02-0054 
       18.31         6.87        14.73         3.22        15.09         6.54 
TCGA-02-0055 TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 
        2.50        19.86         8.35         9.57         6.02        19.73 
TCGA-02-0068 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 TCGA-02-0079 
       26.43        25.05         5.49        10.19        20.84        27.25 
TCGA-02-0080 TCGA-02-0083 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 
       89.72        22.72        51.32         8.81        57.76        16.96 
TCGA-02-0099 TCGA-02-0102 TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 TCGA-02-0113 
        3.48        27.02        11.67        17.65        23.18        92.65 
TCGA-02-0114 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 
       99.98        48.95        16.54        16.93        17.72        10.75 
TCGA-02-0271 TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 
       14.47         3.98        13.87        14.20        15.95        12.23 
TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 
        9.90         7.73        10.62         7.33        15.91        25.71 
TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 
        4.37        25.12        10.59        14.50        10.55        47.11 
TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 
       11.34         9.27        16.21         3.35        16.80        12.92 
TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 
       15.45        20.32         2.70         6.15        20.38        47.61 
TCGA-06-0126 TCGA-06-0127 TCGA-06-0129 TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 
        6.94         3.98        33.67        12.95        25.35        14.30 
TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 
       26.70        24.23        11.90         0.20        10.29         2.20 
TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 
       11.74         2.33        20.09        17.79        10.09         8.61 
TCGA-06-0150 TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 
       19.46        46.59        12.33        13.94        10.45         3.19 
TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 
       10.82         9.44        11.80         3.42        56.91        10.65 
TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 
        5.85        19.66         3.29        13.12         4.47         3.22 
TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 
        4.04        91.00         4.18        88.14        20.25         3.65 
TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 
       69.90        73.84        27.22        15.42        10.42        38.96 
TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 
        4.67         7.40         5.56         0.39         7.66         8.42 
TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 
        7.40        11.84         0.53        15.02        24.16         0.72 
TCGA-06-0221 TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 
       19.82        13.64        13.32        20.42        48.69        10.82 
TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 
        9.01         0.26        72.36         4.70         9.57         3.16 
TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0743 
        5.75         5.75         9.80         2.10        23.57        26.40 
TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 
       46.88         7.86         2.70         2.70         0.92        43.46 
TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 
       46.19         7.17        40.41        16.57        20.78        26.76 
TCGA-06-1084 TCGA-06-1086 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 
       23.93         6.84        26.79        11.84        15.32        13.61 
TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 
       33.90         1.08        12.49         4.93        17.65        12.56 
TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 
       30.64         5.95        16.64         5.98         4.37         0.43 
TCGA-06-2570 TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 TCGA-08-0246 
       31.50         5.39       120.56         7.36        22.68         4.18 
TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 
        1.74         8.42        25.71        12.16         9.80        29.23 
TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 
       65.33         1.28         8.42        17.95        24.56        31.10 
TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0389 
       37.58        22.29         3.39        12.23        14.93        15.35 
TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 TCGA-08-0510 TCGA-08-0512 TCGA-08-0514 
       13.97         0.72        12.56         4.27        42.15        11.08 
TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 
       19.33        10.75         4.80         7.27        15.98        18.41 
TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 
        7.56        14.73        12.99        34.92        10.45         7.59 
TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 
       94.78         0.10        38.17        25.97        26.66        12.13 
TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 
        3.65        20.38        28.41        15.06        53.85        43.23 
TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 TCGA-12-0819 TCGA-12-0820 
        7.63         9.73        14.93        14.86        24.79        18.48 
TCGA-12-0821 TCGA-12-0822 TCGA-12-0826 TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 
       10.62        23.51        27.78        38.76         8.94        20.58 
TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 
      127.59         5.82         7.59        33.21        15.98        12.23 
TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 TCGA-14-0787 
       15.85         9.11        14.53         3.98         4.14         2.24 
TCGA-14-0789 TCGA-14-0813 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 
       11.24         1.35        19.30         0.79        13.78        50.53 
TCGA-15-1446 TCGA-15-1447 TCGA-15-1449 TCGA-16-0846 TCGA-16-0849 TCGA-19-0955 
       19.10        53.19        13.28         3.91        26.07        11.77 
TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1388 TCGA-19-1389 
       21.90         0.66        10.75         9.07        12.95         4.64 
TCGA-26-1442 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 
       31.33         5.49         1.58         7.92         2.33         7.30 
TCGA-28-2514 TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 
        5.26        14.93        11.28        17.88        14.53        11.77 
TCGA-28-5213 TCGA-28-5214 TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 
       31.27        23.44        13.64         5.16        22.68        12.76 
TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 
        5.42         7.36        11.38         5.42         3.75         1.61 
TCGA-81-5911 TCGA-87-5896 
       17.72        26.30 

  5P LOSS MUTATED 5P LOSS WILD-TYPE 
             0.10              0.03 
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
           145.05            211.17 
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
           17.655            15.880 
[1] "0.1 - 145.1 (17.7)" "0.0 - 211.2 (15.9)"
[1] "hr=" "1.1"
D50V2, continuous
D50V3, binary
                   cls
clus                  0   1
  5P LOSS MUTATED    44  36
  5P LOSS WILD-TYPE 529 476
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5P LOSS MUTATED     44   36
  5P LOSS WILD-TYPE  529  476
                        clus
vv                       5P LOSS MUTATED 5P LOSS WILD-TYPE
  BRAIN                               44               529
  CENTRAL NERVOUS SYSTEM              36               476
[1] 2 2
[1] FALSE
D50V4, binary
                   cls
clus                  0   1
  5P LOSS MUTATED    33  47
  5P LOSS WILD-TYPE 420 585
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5P LOSS MUTATED     33   47
  5P LOSS WILD-TYPE  420  585
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  FEMALE              33               420
  MALE                47               585
[1] 2 2
[1] FALSE
D50V5, binary
                   cls
clus                  0   1
  5P LOSS MUTATED     8  67
  5P LOSS WILD-TYPE 250 703
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5P LOSS MUTATED      8   67
  5P LOSS WILD-TYPE  250  703
     clus
vv    5P LOSS MUTATED 5P LOSS WILD-TYPE
  NO                8               250
  YES              67               703
[1] 2 2
[1] FALSE
D50V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  5P LOSS MUTATED            20                             1               11
  5P LOSS WILD-TYPE         174                            29              118
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  5P LOSS MUTATED                   5                   1
  5P LOSS WILD-TYPE               184                  17
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  5P LOSS MUTATED                                42
  5P LOSS WILD-TYPE                             483
D50V7, multiclass
                                 clus
vv                                5P LOSS MUTATED 5P LOSS WILD-TYPE
  ASTROCYTOMA                                  20               174
  GLIOBLASTOMA MULTIFORME (GBM)                 1                29
  OLIGOASTROCYTOMA                             11               118
  OLIGODENDROGLIOMA                             5               184
  TREATED PRIMARY GBM                           1                17
  UNTREATED PRIMARY (DE NOVO) GBM              42               483
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  5P LOSS MUTATED                                  0     3
  5P LOSS WILD-TYPE                                1    18
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  5P LOSS MUTATED                           5    72
  5P LOSS WILD-TYPE                        66   887
D50V8, multiclass
                                  clus
vv                                 5P LOSS MUTATED 5P LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          3                18
  BLACK OR AFRICAN AMERICAN                      5                66
  WHITE                                         72               887
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D50V9, binary
                   cls
clus                  0   1
  5P LOSS MUTATED     2  68
  5P LOSS WILD-TYPE  42 853
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5P LOSS MUTATED      2   68
  5P LOSS WILD-TYPE   42  853
                        clus
vv                       5P LOSS MUTATED 5P LOSS WILD-TYPE
  HISPANIC OR LATINO                   2                42
  NOT HISPANIC OR LATINO              68               853
[1] 2 2
[1] FALSE

Clustering(51) Variable = 5Q LOSS MUTATION ANALYSIS
D51V1, survival
                   sevent
clus2                 0   1
  5Q LOSS MUTATED    33  47
  5Q LOSS WILD-TYPE 447 551
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
               80               998 
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
               47               551 
$`5Q LOSS MUTATED`
TCGA-CS-6665 TCGA-12-3652 TCGA-12-3653 TCGA-14-0740 TCGA-14-0865 TCGA-14-1453 
       51.55        34.92        14.53        11.97        16.50         1.15 
TCGA-14-1821 TCGA-14-3477 TCGA-19-0960 TCGA-19-4065 TCGA-19-5954 TCGA-27-1834 
       17.79         3.78         8.61         7.04        12.10        40.54 
TCGA-27-2521 TCGA-41-5651 TCGA-4W-AA9R TCGA-76-4925 TCGA-76-4929 TCGA-DB-5276 
       16.77        15.12         4.08         4.80         3.65        72.92 
TCGA-DB-5277 TCGA-DB-5281 TCGA-DB-A4XH TCGA-DB-A64X TCGA-DH-5140 TCGA-DH-A66D 
       50.86        78.28        31.63        18.51        19.96        27.81 
TCGA-DH-A66G TCGA-DU-6399 TCGA-DU-6401 TCGA-DU-6408 TCGA-DU-7007 TCGA-DU-7010 
       17.19        65.75        87.45       114.08        62.96        14.99 
TCGA-DU-8165 TCGA-DU-A7T6 TCGA-E1-5302 TCGA-E1-5304 TCGA-FG-A6J3 TCGA-HT-7475 
       19.13        17.98        50.14        41.13        22.26        17.42 
TCGA-HT-7477 TCGA-HT-7879 TCGA-HT-7884 TCGA-HT-8106 TCGA-HT-A614 TCGA-HT-A618 
       24.26         3.68        11.28         0.10         2.70        16.83 
TCGA-HT-A61B TCGA-IK-7675 TCGA-P5-A72W TCGA-P5-A780 TCGA-S9-A6WM TCGA-TM-A84I 
       17.52        19.00        10.42         2.37        19.86        28.08 
TCGA-WH-A86K TCGA-WY-A859 TCGA-02-0011 TCGA-02-0025 TCGA-02-0051 TCGA-02-0052 
       13.32        39.88        20.71        42.74        15.09        12.59 
TCGA-02-0069 TCGA-02-0084 TCGA-02-0104 TCGA-02-2483 TCGA-06-0128 TCGA-06-0188 
       28.70        12.62        65.00        15.32        22.72        44.58 
TCGA-06-0237 TCGA-06-0414 TCGA-06-0644 TCGA-06-0686 TCGA-06-1087 TCGA-06-2569 
       13.64        35.11        12.62        14.20         4.04         0.43 
TCGA-06-6389 TCGA-08-0344 TCGA-08-0350 TCGA-08-0386 TCGA-08-0516 TCGA-08-0517 
        7.79       115.86        29.23        18.02        19.59        58.68 
TCGA-12-0818 TCGA-14-0817 TCGA-14-0867 TCGA-14-0871 TCGA-16-0850 TCGA-19-1387 
       91.76         5.39         2.04        28.93        16.37         5.95 
TCGA-26-5133 TCGA-28-5215 
       14.86        11.01 

$`5Q LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        1.48         3.98        46.88        46.72        31.82        42.05 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       62.01        17.16        23.90        20.09        17.82        20.45 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 
       18.64        21.40        45.60        42.77        59.38        15.32 
TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 
       11.74         3.55         8.35         4.54         8.81         8.98 
TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 
        8.55         6.71         2.73         3.75         6.15         4.57 
TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 
        5.23         8.32        12.85         4.77         1.55         4.77 
TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK 
        4.96        26.79         1.87         3.12         2.56        14.60 
TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 
       17.72        15.35        21.73        15.65        25.68        14.73 
TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 
        6.77        59.77        44.02        26.93        15.22        10.95 
TCGA-12-3651 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 TCGA-14-0781 
       12.69        14.93         3.22         2.04        15.12         0.95 
TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 TCGA-14-0866 
        6.21        23.05        13.78         3.25         2.89        26.33 
TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 
       15.95         1.38         1.12         3.75        32.05        58.78 
TCGA-14-1451 TCGA-14-1452 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 
       23.11         7.10        30.18         0.92        40.96         6.67 
TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 
       12.43         0.99         1.97        17.85         7.63         5.88 
TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 
        7.17        17.49         7.96         3.42        17.59        29.03 
TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 
        4.57        10.29        14.01         9.14        21.24        13.97 
TCGA-16-1460 TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 TCGA-19-1392 TCGA-19-1786 
        6.41        14.27         3.39        25.38         3.65         7.17 
TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 
       12.66         3.25         0.13         9.67         4.87         1.08 
TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 TCGA-19-5947 
        7.53         0.16         4.08        24.23         7.00         6.64 
TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5955 TCGA-19-5956 
       17.19         8.02        18.90         4.73         1.78        22.49 
TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 
       14.07        16.80        14.96        17.79        28.54        10.03 
TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 
       13.87         9.73         7.13         9.37         9.40         8.88 
TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 
       18.97        19.33         5.06        16.60         9.86        24.23 
TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 
       21.30        30.05        14.04        11.51        24.76        18.08 
TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 
       16.08         7.59         2.86        14.40        15.78         0.20 
TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 
        2.53         9.21         8.35         7.63         8.48         1.22 
TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 
        1.55         2.83         0.13         0.66         6.74         4.77 
TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 
       15.39        21.07         0.49         0.10        15.85        19.50 
TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 
        1.18         4.67        12.69        14.86        16.93        12.23 
TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 
       20.78        15.02        15.95         8.84        22.78        25.18 
TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 
       21.14         3.72        12.59        19.86        10.85        19.23 
TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 
        0.85        13.35         8.94         9.53         0.99         4.44 
TCGA-41-3915 TCGA-41-4097 TCGA-41-6646 TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 
       11.84         0.20        12.46         1.45        25.58         3.45 
TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4926 
       20.91         4.34        14.33         8.22         7.50         4.54 
TCGA-76-4928 TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 
        3.09         9.17         2.53        36.85        16.70         3.29 
TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 
        2.70        17.06         8.35        20.98         4.83         5.03 
TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA 
       23.90        34.45        18.64        36.20         5.92         6.28 
TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 
       20.55       117.50         7.69        43.89        36.36        60.10 
TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.26        21.01        53.62         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 
       26.76        37.38        46.95        48.30        49.94        49.12 
TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5278 TCGA-DB-5279 
      122.73        81.96        75.25        47.93        91.13        44.52 
TCGA-DB-5280 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE 
       36.56        46.42        18.84        30.21        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       33.57        72.95        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A75K 
       31.40        27.45        27.81        29.23        14.40        12.10 
TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5142 TCGA-DH-5143 
       11.24        17.88        30.74        16.18        63.88        46.06 
TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66F TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       24.59        30.21        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       15.16       211.17        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6400 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
       46.06         1.22         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7008 
       16.83        94.52         7.96         2.40        11.47       156.23 
TCGA-DU-7009 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 
      154.36       105.21         6.54         8.84       117.40        90.77 
TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 
       30.67        26.30        10.36         7.96        94.32        18.94 
TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 
       44.02        25.91        60.30        23.31        41.98         2.76 
TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8166 
        5.10        23.74        14.60        20.68        21.40        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT 
       15.48        14.17        33.27        29.85        31.69        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T8 
       20.98        22.29        11.41        26.76        21.30       139.04 
TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI 
       84.33        51.52        37.38         7.50        44.42        38.89 
TCGA-DU-A7TJ TCGA-E1-5303 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 
        0.56        67.46        79.99        57.93       134.27        78.21 
TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI 
       95.57       130.78        14.30        29.13        93.21         3.65 
TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ 
       19.46        12.43        16.18        21.30        75.02        51.88 
TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 
       15.32         0.76        32.45        36.82       146.14        13.08 
TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 
       73.48       145.05        32.35        39.48         0.23         0.20 
TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 
       47.77        25.48        52.21        36.82        18.77        14.93 
TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 
       42.54        41.33        18.44        15.35        17.88        22.55 
TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 
       20.61        20.09        28.34        13.68        14.24        16.01 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       14.96        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 
       18.71        23.70        14.76        21.53        15.02        16.44 
TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 
       28.54        10.78        36.66        48.69         5.72        27.52 
TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 
        0.10         6.67        11.54        40.11         0.13         0.03 
TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7476 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 
       16.54         3.75         6.54         6.38        40.34        75.19 
TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 
       95.93       106.95       172.77         4.01         5.03        29.85 
TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 
       23.18       122.47         4.57        17.29         3.16        22.06 
TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 
       45.99        56.09        57.60         0.23        14.27         0.16 
TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 
       16.24         0.76        44.68         6.05        42.74         0.10 
TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 
       31.69        14.96         0.10         0.10         2.96        17.52 
TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 
        6.90        14.53        39.48        19.23        39.09         0.23 
TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 
       50.63         0.49        23.61        37.15         0.33         0.13 
TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 
        5.33        35.47         3.72        31.43         1.64        16.24 
TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 
        9.40        63.55         0.10        37.87        33.01        12.23 
TCGA-HT-8105 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 
        6.25         0.46         2.50         5.56        13.78         0.23 
TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV 
       29.59        34.19        28.27        15.72         0.23        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC 
        0.13        20.22         0.07        27.35         0.10         5.33 
TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J 
       16.93         1.81        16.14        17.65         2.43        10.52 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 
       15.35        11.05         0.10        56.58        45.44        41.49 
TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       68.32        69.27        35.44        39.75        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-KT-A74X 
       24.92        31.63        12.76        28.87        20.71        14.40 
TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ 
       14.40         0.23         6.71         7.99         2.37         2.30 
TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U 
        9.44         5.88         7.96         7.59         1.28         0.23 
TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 
       13.25        11.64        10.95         9.01        13.61         9.60 
TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A781 TCGA-QH-A65R 
        7.56        12.23        19.20         3.45         4.41        15.16 
TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU 
        2.53        12.62        15.85        14.04        19.33        14.83 
TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 
       14.53        13.61        12.23        13.41         9.17        10.29 
TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC 
       14.53        16.34        16.73         1.91        16.50        16.70 
TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X 
       11.08        12.99        88.83        94.03        32.65        30.87 
TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
        5.46         9.90        28.08         2.07        19.59        30.67 
TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY 
       62.17        87.12        18.77        41.10        40.93        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       36.82        24.39        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE 
       98.24        95.93         5.85       123.65        75.25       135.22 
TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WN TCGA-S9-A6WO 
       85.55        38.56        84.99        31.10        26.47        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.64        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       18.54        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       30.05        98.63        31.59        18.71        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       48.33        49.32        34.78        65.39        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M 
       59.05        40.64        30.44        24.16        40.83        24.79 
TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF 
       33.24        25.38        18.61        14.93        23.80        21.37 
TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM 
       19.69        15.98         2.04        40.41        44.09        36.69 
TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU 
       33.73        31.20        30.05        26.14        25.87        33.93 
TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA 
       61.41        26.99        31.36        45.93        43.20        13.51 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 
        0.10         7.89        39.16        20.02        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WY-A858 TCGA-WY-A85A 
       16.01        23.21         8.05        51.06        43.96        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 TCGA-02-0001 
       45.80        46.88        37.71        20.81         7.63        11.77 
TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 TCGA-02-0014 
        4.73        18.35        23.18        10.59        35.41        82.59 
TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 TCGA-02-0026 
       20.61        87.06        77.65        20.12        53.10        24.59 
TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 
       12.16        90.58         2.83        14.14         3.62        10.72 
TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 TCGA-02-0054 
       10.52        18.31         6.87        14.73         3.22         6.54 
TCGA-02-0055 TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 
        2.50        19.86         8.35         9.57         6.02        19.73 
TCGA-02-0068 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 TCGA-02-0079 
       26.43        25.05         5.49        10.19        20.84        27.25 
TCGA-02-0080 TCGA-02-0083 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 
       89.72        22.72        51.32         8.81        57.76        16.96 
TCGA-02-0099 TCGA-02-0102 TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 TCGA-02-0113 
        3.48        27.02        11.67        17.65        23.18        92.65 
TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 
       99.98        15.65        48.95        16.54        16.93        17.72 
TCGA-02-0269 TCGA-02-0271 TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 
       10.75        14.47         3.98        13.87        14.20        15.95 
TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 
       12.23         9.90         7.73        10.62         7.33        15.91 
TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 
       25.71         4.37        25.12        10.59        12.39        14.50 
TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 
       10.55        47.11        11.34         9.27        16.21         3.35 
TCGA-02-2466 TCGA-02-2470 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 
       16.80        12.92        15.45        20.32         2.70         6.15 
TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0129 TCGA-06-0130 
       20.38        47.61         6.94         3.98        33.67        12.95 
TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 
       25.35        14.30        26.70        24.23        11.90         0.20 
TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 
       10.29         2.20        11.74         2.33        20.09        17.79 
TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 
       10.09         8.61        19.46        46.59        12.33        13.94 
TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 
       10.45         3.19        10.82         9.44        11.80         3.42 
TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 
       56.91        10.65         5.85        19.66         3.29        13.12 
TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 
        4.47         3.22         4.04        91.00         4.18        88.14 
TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0189 
       20.25         3.65        69.90        73.84        27.22        15.42 
TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 
       10.42        38.96         4.67         7.40         5.56         0.39 
TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 
        7.66         8.42         7.40        11.84         0.53        15.02 
TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 
       24.16         0.72        19.82        13.32        20.42        48.69 
TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 TCGA-06-0410 TCGA-06-0412 
       10.82         9.01         0.26        72.36         4.70         9.57 
TCGA-06-0413 TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 
        3.16         5.75         5.75         9.80         2.10        23.57 
TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 
       26.40        46.88         7.86         2.70         2.70         0.92 
TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 
       43.46        46.19         7.17        40.41        16.57        20.78 
TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 
       26.76        23.93         6.84        26.79        11.84        15.32 
TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 
       13.61        33.90         1.08        12.49         4.93        17.65 
TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 
       12.56        30.64         5.95        16.64         5.98         4.37 
TCGA-06-2570 TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 TCGA-08-0245 
       31.50         5.39       120.56         7.36        22.68        37.84 
TCGA-08-0246 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 
        4.18         1.74         8.42        25.71        12.16         9.80 
TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 
       65.33         1.28         8.42        17.95        24.56        31.10 
TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0389 
       37.58        22.29         3.39        12.23        14.93        15.35 
TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 TCGA-08-0510 TCGA-08-0512 TCGA-08-0514 
       13.97         0.72        12.56         4.27        42.15        11.08 
TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 
       19.33        10.75         4.80         7.27        15.98        18.41 
TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 
        7.56        14.73        12.99        34.92        10.45         7.59 
TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 
       94.78         0.10        38.17        25.97        26.66        12.13 
TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 
        3.65        20.38        28.41        15.06        53.85        43.23 
TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 TCGA-12-0819 TCGA-12-0820 
        7.63         9.73        14.93        14.86        24.79        18.48 
TCGA-12-0821 TCGA-12-0822 TCGA-12-0826 TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 
       10.62        23.51        27.78        38.76         8.94        20.58 
TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 
      127.59         5.82         7.59        33.21        15.98        12.23 
TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 TCGA-14-0787 
       15.85         9.11        14.53         3.98         4.14         2.24 
TCGA-14-0789 TCGA-14-0813 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 
       11.24         1.35        19.30         0.79        13.78        50.53 
TCGA-15-1446 TCGA-15-1447 TCGA-15-1449 TCGA-16-0846 TCGA-16-0849 TCGA-19-0955 
       19.10        53.19        13.28         3.91        26.07        11.77 
TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1388 TCGA-19-1389 
       21.90         0.66        10.75         9.07        12.95         4.64 
TCGA-26-1442 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 
       31.33         5.49         1.58         7.92         2.33         7.30 
TCGA-28-2514 TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 
        5.26        14.93        11.28        17.88        14.53        11.77 
TCGA-28-5213 TCGA-28-5214 TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 
       31.27        23.44        13.64         5.16        22.68        12.76 
TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 
        5.42         7.36        11.38         5.42         3.75         1.61 
TCGA-81-5911 TCGA-87-5896 
       17.72        26.30 

  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
             0.10              0.03 
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
           115.86            211.17 
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
            17.47             15.88 
[1] "0.1 - 115.9 (17.5)" "0.0 - 211.2 (15.9)"
[1] "hr=" "1"  
D51V2, continuous
D51V3, binary
                   cls
clus                  0   1
  5Q LOSS MUTATED    46  34
  5Q LOSS WILD-TYPE 527 478
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5Q LOSS MUTATED     46   34
  5Q LOSS WILD-TYPE  527  478
                        clus
vv                       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  BRAIN                               46               527
  CENTRAL NERVOUS SYSTEM              34               478
[1] 2 2
[1] FALSE
D51V4, binary
                   cls
clus                  0   1
  5Q LOSS MUTATED    36  44
  5Q LOSS WILD-TYPE 417 588
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5Q LOSS MUTATED     36   44
  5Q LOSS WILD-TYPE  417  588
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  FEMALE              36               417
  MALE                44               588
[1] 2 2
[1] FALSE
D51V5, binary
                   cls
clus                  0   1
  5Q LOSS MUTATED     7  67
  5Q LOSS WILD-TYPE 251 703
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5Q LOSS MUTATED      7   67
  5Q LOSS WILD-TYPE  251  703
     clus
vv    5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  NO                7               251
  YES              67               703
[1] 2 2
[1] FALSE
D51V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  5Q LOSS MUTATED            20                             1                7
  5Q LOSS WILD-TYPE         174                            29              122
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  5Q LOSS MUTATED                   7                   0
  5Q LOSS WILD-TYPE               182                  18
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  5Q LOSS MUTATED                                45
  5Q LOSS WILD-TYPE                             480
D51V7, multiclass
                                 clus
vv                                5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  ASTROCYTOMA                                  20               174
  GLIOBLASTOMA MULTIFORME (GBM)                 1                29
  OLIGOASTROCYTOMA                              7               122
  OLIGODENDROGLIOMA                             7               182
  TREATED PRIMARY GBM                           0                18
  UNTREATED PRIMARY (DE NOVO) GBM              45               480
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  5Q LOSS MUTATED                                  0     2
  5Q LOSS WILD-TYPE                                1    19
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  5Q LOSS MUTATED                           5    73
  5Q LOSS WILD-TYPE                        66   886
D51V8, multiclass
                                  clus
vv                                 5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          2                19
  BLACK OR AFRICAN AMERICAN                      5                66
  WHITE                                         73               886
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D51V9, binary
                   cls
clus                  0   1
  5Q LOSS MUTATED     4  67
  5Q LOSS WILD-TYPE  40 854
[1] "tbl2"
                   cls
clus                [,1] [,2]
  5Q LOSS MUTATED      4   67
  5Q LOSS WILD-TYPE   40  854
                        clus
vv                       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  HISPANIC OR LATINO                   4                40
  NOT HISPANIC OR LATINO              67               854
[1] 2 2
[1] FALSE

Clustering(52) Variable = 6P LOSS MUTATION ANALYSIS
D52V1, survival
                   sevent
clus2                 0   1
  6P LOSS MUTATED    27  90
  6P LOSS WILD-TYPE 453 508
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
              117               961 
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
               90               508 
$`6P LOSS MUTATED`
TCGA-19-A6J4 TCGA-06-1806 TCGA-06-5410 TCGA-06-5416 TCGA-06-5856 TCGA-12-1602 
        3.98        15.32         3.55         6.71         3.75         6.77 
TCGA-12-3646 TCGA-12-3653 TCGA-14-0736 TCGA-14-0865 TCGA-14-1453 TCGA-14-1823 
       44.02        14.53        15.12        16.50         1.15        17.85 
TCGA-19-1392 TCGA-19-2629 TCGA-19-4065 TCGA-19-5947 TCGA-19-5960 TCGA-26-1439 
        3.65        24.23         7.04         6.64        14.96        13.87 
TCGA-27-1832 TCGA-27-2524 TCGA-28-1750 TCGA-28-2506 TCGA-28-2509 TCGA-32-1976 
        9.86         7.59         8.35         6.74         4.77         0.49 
TCGA-32-1980 TCGA-32-2495 TCGA-32-2615 TCGA-32-4210 TCGA-32-4211 TCGA-32-4719 
        1.18        15.02        15.95         3.72        12.59        10.85 
TCGA-41-4097 TCGA-41-5651 TCGA-74-6573 TCGA-74-6575 TCGA-76-4928 TCGA-76-4931 
        0.20        15.12         3.45        20.91         3.09         9.17 
TCGA-OX-A56R TCGA-CS-5397 TCGA-CS-6666 TCGA-DB-A4XF TCGA-DB-A4XH TCGA-DB-A64O 
        5.92         6.38        46.95        33.57        31.63        25.48 
TCGA-DH-A669 TCGA-DU-6400 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-A7T6 TCGA-E1-A7YK 
       30.21         1.22         5.10        23.74        17.98        12.43 
TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7Z2 TCGA-FG-5963 TCGA-FG-8191 TCGA-FG-A4MT 
       51.88        15.32        13.08        25.48        32.61        38.27 
TCGA-HT-7692 TCGA-HT-7855 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A617 TCGA-P5-A5F4 
        2.96        19.23        15.72         0.23        16.14         7.59 
TCGA-P5-A5F6 TCGA-P5-A780 TCGA-QH-A6CS TCGA-QH-A6CX TCGA-S9-A6TZ TCGA-TM-A7CF 
        1.28         2.37        19.33        12.23        36.82        65.39 
TCGA-TQ-A7RF TCGA-VM-A8C8 TCGA-VM-A8CD TCGA-06-0209 TCGA-02-0023 TCGA-02-0026 
       21.37        45.93         7.89         7.63        20.12        24.59 
TCGA-02-0039 TCGA-02-0048 TCGA-02-0051 TCGA-02-0074 TCGA-02-0080 TCGA-02-0086 
       10.52         3.22        15.09        10.19        89.72         8.81 
TCGA-02-0106 TCGA-02-0113 TCGA-02-0115 TCGA-02-0281 TCGA-02-0317 TCGA-02-0325 
       11.67        92.65        15.65         3.98        12.23        10.62 
TCGA-02-2483 TCGA-06-0129 TCGA-06-0130 TCGA-06-0138 TCGA-06-0141 TCGA-06-0162 
       15.32        33.67        12.95        24.23        10.29         3.42 
TCGA-06-0166 TCGA-06-0184 TCGA-06-0192 TCGA-06-0216 TCGA-06-0402 TCGA-06-0644 
        5.85        69.90        38.96        24.16         0.26        12.62 
TCGA-06-0649 TCGA-06-2557 TCGA-06-2561 TCGA-06-6390 TCGA-06-6694 TCGA-08-0246 
        2.10         1.08        17.65         5.39         7.36         4.18 
TCGA-08-0353 TCGA-08-0392 TCGA-08-0510 TCGA-08-0512 TCGA-12-0616 TCGA-12-0691 
        8.42         0.72         4.27        42.15        14.73        12.13 
TCGA-12-0692 TCGA-12-0822 TCGA-12-1098 TCGA-12-1099 TCGA-14-0817 TCGA-16-0846 
        3.65        23.51         3.98         4.14         5.39         3.91 
TCGA-19-0962 TCGA-28-2514 TCGA-28-5220 
        0.66         5.26        12.76 

$`6P LOSS WILD-TYPE`
TCGA-06-6391 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        1.48        51.55        46.88        46.72        31.82        42.05 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       62.01        17.16        23.90        20.09        17.82        20.45 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-5408 
       18.64        21.40        45.60        42.77        59.38        11.74 
TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 TCGA-06-5418 
        8.35         4.54         8.81         8.98         8.55         2.73 
TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 
        6.15         4.57         5.23         8.32        12.85         4.77 
TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 
        1.55         4.77         4.96        26.79         1.87         3.12 
TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 
        2.56        14.60        17.72        15.35        21.73        15.65 
TCGA-12-1599 TCGA-12-1600 TCGA-12-3644 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 
       25.68        14.73        59.77        26.93        15.22        10.95 
TCGA-12-3651 TCGA-12-3652 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 TCGA-14-0740 
       12.69        34.92        14.93         3.22         2.04        11.97 
TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 
        0.95         6.21        23.05        13.78         3.25         2.89 
TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 
       26.33        15.95         1.38         1.12         3.75        32.05 
TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 
       58.78        23.11         7.10        30.18         0.92        40.96 
TCGA-14-1458 TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 TCGA-14-1825 
        6.67        12.43         0.99         1.97        17.79         7.63 
TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-3477 TCGA-14-4157 
        5.88         7.17        17.49         7.96         3.78         3.42 
TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 
       17.59        29.03         4.57        10.29        14.01         9.14 
TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 
       21.24        13.97         6.41         8.61        14.27         3.39 
TCGA-19-1390 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 
       25.38         7.17        12.66         3.25         0.13         9.67 
TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2631 
        4.87         1.08         7.53         0.16         4.08         7.00 
TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 
       17.19         8.02        18.90         4.73        12.10         1.78 
TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 
       22.49        14.07        16.80        17.79        28.54        10.03 
TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 
        9.73         7.13         9.37         9.40         8.88        18.97 
TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 
       19.33         5.06        16.60        24.23        40.54        21.30 
TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 
       30.05        14.04        11.51        24.76        18.08        16.77 
TCGA-27-2523 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 
       16.08         2.86        14.40        15.78         0.20         2.53 
TCGA-28-1749 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 
        9.21         7.63         8.48         1.22         1.55         2.83 
TCGA-28-1757 TCGA-28-2502 TCGA-32-1970 TCGA-32-1973 TCGA-32-1977 TCGA-32-1978 
        0.13         0.66        15.39        21.07         0.10        15.85 
TCGA-32-1979 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 
       19.50         4.67        12.69        14.86        16.93        12.23 
TCGA-32-2494 TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 TCGA-32-4213 
       20.78         8.84        22.78        25.18        21.14        19.86 
TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 
       19.23         0.85        13.35         8.94         9.53         0.99 
TCGA-41-3393 TCGA-41-3915 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T 
        4.44        11.84        12.46         4.08         1.45        25.58 
TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 
        4.34        14.33         8.22         7.50         4.80         4.54 
TCGA-76-4929 TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 
        3.65         2.53        36.85        16.70         3.29         2.70 
TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 
       17.06         8.35        20.98         4.83         5.03        23.90 
TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 
       34.45        18.64        36.20         6.28        20.55       117.50 
TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 
        7.69        43.89        36.36        60.10        40.18         0.26 
TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6667 
       21.01        53.62        17.69        26.76        37.38        48.30 
TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.94        49.12       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XG 
       46.42        18.84        30.21        39.78        37.45        72.95 
TCGA-DB-A64L TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U 
       24.20        30.12         5.98        31.40        27.45        27.81 
TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M 
       29.23        14.40        18.51        12.10        11.24        17.88 
TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 
       30.74        16.18        19.96        63.88        46.06        24.59 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       15.16       211.17        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       46.06        65.75        87.45         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 
       19.89        16.83        94.52       114.08         7.96         2.40 
TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 
       11.47        62.96       156.23       154.36        14.99       105.21 
TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
        6.54         8.84       117.40        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 
       10.36         7.96        94.32        18.94        44.02        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8162 TCGA-DU-8163 
       60.30        23.31        41.98         2.76        14.60        20.68 
TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP 
       21.40        19.13        16.96        15.48        14.17        33.27 
TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY 
       29.85        31.69        24.43        26.17        24.99        33.96 
TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K 
       25.55        21.57        95.11        20.98        22.29        11.41 
TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC 
       26.76        21.30       139.04        84.33        51.52        37.38 
TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 
        7.50        44.42        38.89         0.56        50.14        67.46 
TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 
       41.13        79.99        57.93       134.27        78.21        95.57 
TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ 
      130.78        14.30        29.13        93.21         3.65        19.46 
TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW 
       16.18        21.30        75.02         0.76        32.45        36.82 
TCGA-E1-A7YY TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 
      146.14        73.48       145.05        32.35        39.48         0.23 
TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 
        0.20        47.77        52.21        36.82        18.77        14.93 
TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 
       42.54        41.33        18.44        15.35        17.88        22.55 
TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 
       20.61        20.09        28.34        13.68        14.24        16.01 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY 
       14.96        22.52        10.72        18.38        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y 
       14.76        21.53        15.02        16.44        22.26        28.54 
TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 
       10.78        36.66        48.69         5.72        27.52         0.10 
TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 
        6.67        11.54        40.11         0.13         0.03        16.54 
TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 
        3.75        17.42         6.54        24.26         6.38        40.34 
TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 
       75.19        95.93       106.95       172.77         4.01         5.03 
TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 
       29.85        23.18       122.47         4.57        17.29         3.16 
TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 
       22.06        45.99        56.09        57.60         0.23        14.27 
TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 
        0.16        16.24         0.76        44.68         6.05        42.74 
TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7693 
        0.10        31.69        14.96         0.10         0.10        17.52 
TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 
        6.90        14.53        39.48        39.09         0.23        50.63 
TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 
        0.49        23.61        37.15         0.33         0.13         3.68 
TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 
        5.33        35.47         3.72        11.28        31.43         1.64 
TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
       16.24         9.40        63.55         0.10        37.87        33.01 
TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 
       12.23         6.25         0.10         0.46         2.50         5.56 
TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-A4DV 
       13.78         0.23        29.59        34.19        28.27        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC 
        0.13        20.22         0.07        27.35         0.10         5.33 
TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C 
        2.70        16.93         1.81        16.83        17.52        17.65 
TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
        2.43        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 
       45.44        41.49        68.32        69.27        35.44        39.75 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL 
       40.01        42.54        24.92        31.63        12.76        28.87 
TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW 
       20.71        19.00        14.40        14.40         0.23         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        7.99         2.37         2.30         9.44         5.88         7.96 
TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 
        0.23        10.42        13.25        11.64        10.95         9.01 
TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X 
       13.61         9.60         7.56        12.23        19.20         3.45 
TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z 
        4.41        15.16         2.53        12.62        15.85        14.04 
TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 
       14.83        14.53        13.61        13.41         9.17        10.29 
TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC 
       14.53        16.34        16.73         1.91        16.50        16.70 
TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X 
       11.08        12.99        88.83        94.03        32.65        30.87 
TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
        5.46         9.90        28.08         2.07        19.59        30.67 
TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY 
       62.17        87.12        18.77        41.10        40.93        35.38 
TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       24.39        25.81        29.85        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       95.93         5.85       123.65        75.25       135.22        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO 
       38.56        84.99        31.10        19.86        26.47        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.64        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       18.54        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       30.05        98.63        31.59        18.71        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F 
       48.33        49.32        34.78        24.92        16.18        59.05 
TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M 
       40.64        30.44        28.08        24.16        40.83        24.79 
TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RG 
       33.24        25.38        18.61        14.93        23.80        19.69 
TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN 
       15.98         2.04        40.41        44.09        36.69        33.73 
TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV 
       31.20        30.05        26.14        25.87        33.93        61.41 
TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CE 
       26.99        31.36        43.20        13.51         0.10        39.16 
TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI 
       20.02        23.47        37.05        16.01        23.21         8.05 
TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B 
       51.06        13.32        43.96        39.88        43.40        45.80 
TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 
       46.88        37.71        20.81        11.77         4.73        18.35 
TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 
       23.18        10.59        35.41        20.71        82.59        20.61 
TCGA-02-0016 TCGA-02-0021 TCGA-02-0024 TCGA-02-0025 TCGA-02-0027 TCGA-02-0028 
       87.06        77.65        53.10        42.74        12.16        90.58 
TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0043 TCGA-02-0046 
        2.83        14.14         3.62        10.72        18.31         6.87 
TCGA-02-0047 TCGA-02-0052 TCGA-02-0054 TCGA-02-0055 TCGA-02-0057 TCGA-02-0058 
       14.73        12.59         6.54         2.50        19.86         8.35 
TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 
        9.57         6.02        19.73        26.43        28.70        25.05 
TCGA-02-0071 TCGA-02-0075 TCGA-02-0079 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 
        5.49        20.84        27.25        22.72        12.62        51.32 
TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0107 
       57.76        16.96         3.48        27.02        65.00        17.65 
TCGA-02-0111 TCGA-02-0114 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 
       23.18        99.98        48.95        16.54        16.93        17.72 
TCGA-02-0269 TCGA-02-0271 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0321 
       10.75        14.47        13.87        14.20        15.95         9.90 
TCGA-02-0324 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 
        7.73         7.33        15.91        25.71         4.37        25.12 
TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 
       10.59        12.39        14.50        10.55        47.11        11.34 
TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 TCGA-02-2485 
        9.27        16.21         3.35        16.80        12.92        15.45 
TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 
       20.32         2.70         6.15        20.38        47.61         6.94 
TCGA-06-0127 TCGA-06-0128 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0139 
        3.98        22.72        25.35        14.30        26.70        11.90 
TCGA-06-0140 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 
        0.20         2.20        11.74         2.33        20.09        17.79 
TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 
       10.09         8.61        19.46        46.59        12.33        13.94 
TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0164 
       10.45         3.19        10.82         9.44        11.80        56.91 
TCGA-06-0165 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 
       10.65        19.66         3.29        13.12         4.47         3.22 
TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 
        4.04        91.00         4.18        88.14        20.25         3.65 
TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 TCGA-06-0190 TCGA-06-0194 
       73.84        27.22        44.58        15.42        10.42         4.67 
TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 
        7.40         5.56         0.39         7.66         8.42         7.40 
TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 
       11.84         0.53        15.02         0.72        19.82        13.64 
TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0409 
       13.32        20.42        48.69        10.82         9.01        72.36 
TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 TCGA-06-0414 TCGA-06-0645 TCGA-06-0646 
        4.70         9.57         3.16        35.11         5.75         5.75 
TCGA-06-0648 TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 
        9.80        23.57        14.20        26.40        46.88         7.86 
TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 
        2.70         2.70         0.92        43.46        46.19         7.17 
TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 
       40.41        16.57        20.78        26.76        23.93         6.84 
TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 
        4.04        26.79        11.84        15.32        13.61        33.90 
TCGA-06-2558 TCGA-06-2559 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 
       12.49         4.93        12.56        30.64         5.95        16.64 
TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 TCGA-06-6693 
        5.98         4.37         0.43        31.50         7.79       120.56 
TCGA-08-0244 TCGA-08-0245 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 
       22.68        37.84       115.86         1.74         8.42        25.71 
TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 TCGA-08-0354 
       12.16         9.80        29.23        65.33         1.28        17.95 
TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 
       24.56        31.10        37.58        22.29         3.39        12.23 
TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 TCGA-08-0509 TCGA-08-0514 
       14.93        18.02        15.35        13.97        12.56        11.08 
TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 
       19.59        58.68        19.33        10.75         4.80         7.27 
TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 
       15.98        18.41         7.56        12.99        34.92        10.45 
TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 
        7.59        94.78         0.10        38.17        25.97        26.66 
TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 
       20.38        28.41        15.06        53.85        43.23         7.63 
TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 
        9.73        14.93        14.86        91.76        24.79        18.48 
TCGA-12-0821 TCGA-12-0826 TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 
       10.62        27.78        38.76         8.94        20.58       127.59 
TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 
        5.82         7.59        33.21        15.98        12.23        15.85 
TCGA-12-1096 TCGA-12-1097 TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 TCGA-14-0867 
        9.11        14.53         2.24        11.24         1.35         2.04 
TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 
       28.93        19.30         0.79        13.78        50.53        19.10 
TCGA-15-1447 TCGA-15-1449 TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 
       53.19        13.28        26.07        16.37        11.77        21.90 
TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1388 TCGA-19-1389 TCGA-26-1442 
       10.75         9.07         5.95        12.95         4.64        31.33 
TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 
       14.86         5.49         1.58         7.92         2.33         7.30 
TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 
       14.93        11.28        17.88        14.53        11.77        31.27 
TCGA-28-5214 TCGA-28-5215 TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 TCGA-28-6450 
       23.44        11.01        13.64         5.16        22.68         5.42 
TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 
        7.36        11.38         5.42         3.75         1.61        17.72 
TCGA-87-5896 
       26.30 

  6P LOSS MUTATED 6P LOSS WILD-TYPE 
             0.20              0.03 
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
            92.65            211.17 
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
            11.67             16.80 
[1] "0.2 - 92.7 (11.7)"  "0.0 - 211.2 (16.8)"
[1] "hr=" "2.2"
D52V2, continuous
D52V3, binary
                   cls
clus                  0   1
  6P LOSS MUTATED    85  32
  6P LOSS WILD-TYPE 488 480
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6P LOSS MUTATED     85   32
  6P LOSS WILD-TYPE  488  480
                        clus
vv                       6P LOSS MUTATED 6P LOSS WILD-TYPE
  BRAIN                               85               488
  CENTRAL NERVOUS SYSTEM              32               480
[1] 2 2
[1] FALSE
D52V4, binary
                   cls
clus                  0   1
  6P LOSS MUTATED    51  66
  6P LOSS WILD-TYPE 402 566
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6P LOSS MUTATED     51   66
  6P LOSS WILD-TYPE  402  566
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  FEMALE              51               402
  MALE                66               566
[1] 2 2
[1] FALSE
D52V5, binary
                   cls
clus                  0   1
  6P LOSS MUTATED    23  85
  6P LOSS WILD-TYPE 235 685
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6P LOSS MUTATED     23   85
  6P LOSS WILD-TYPE  235  685
     clus
vv    6P LOSS MUTATED 6P LOSS WILD-TYPE
  NO               23               235
  YES              85               685
[1] 2 2
[1] FALSE
D52V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  6P LOSS MUTATED            15                             3                4
  6P LOSS WILD-TYPE         179                            27              125
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  6P LOSS MUTATED                  13                   3
  6P LOSS WILD-TYPE               176                  15
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  6P LOSS MUTATED                                79
  6P LOSS WILD-TYPE                             446
D52V7, multiclass
                                 clus
vv                                6P LOSS MUTATED 6P LOSS WILD-TYPE
  ASTROCYTOMA                                  15               179
  GLIOBLASTOMA MULTIFORME (GBM)                 3                27
  OLIGOASTROCYTOMA                              4               125
  OLIGODENDROGLIOMA                            13               176
  TREATED PRIMARY GBM                           3                15
  UNTREATED PRIMARY (DE NOVO) GBM              79               446
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  6P LOSS MUTATED                                  1     4
  6P LOSS WILD-TYPE                                0    17
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  6P LOSS MUTATED                          10    99
  6P LOSS WILD-TYPE                        61   860
D52V8, multiclass
                                  clus
vv                                 6P LOSS MUTATED 6P LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               1                 0
  ASIAN                                          4                17
  BLACK OR AFRICAN AMERICAN                     10                61
  WHITE                                         99               860
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D52V9, binary
                   cls
clus                  0   1
  6P LOSS MUTATED     2 101
  6P LOSS WILD-TYPE  42 820
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6P LOSS MUTATED      2  101
  6P LOSS WILD-TYPE   42  820
                        clus
vv                       6P LOSS MUTATED 6P LOSS WILD-TYPE
  HISPANIC OR LATINO                   2                42
  NOT HISPANIC OR LATINO             101               820
[1] 2 2
[1] FALSE

Clustering(53) Variable = 6Q LOSS MUTATION ANALYSIS
D53V1, survival
                   sevent
clus2                 0   1
  6Q LOSS MUTATED    59 127
  6Q LOSS WILD-TYPE 421 471
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
              186               892 
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
              127               471 
$`6Q LOSS MUTATED`
TCGA-19-A6J4 TCGA-DH-A66B TCGA-HT-A619 TCGA-06-1806 TCGA-06-5408 TCGA-06-5410 
        3.98        42.05        21.40        15.32        11.74         3.55 
TCGA-06-5413 TCGA-06-5416 TCGA-06-5856 TCGA-06-A6S1 TCGA-12-0615 TCGA-12-1602 
        8.81         6.71         3.75         2.56        15.35         6.77 
TCGA-12-3646 TCGA-12-3653 TCGA-12-5299 TCGA-14-0736 TCGA-14-0865 TCGA-14-1453 
       44.02        14.53         3.22        15.12        16.50         1.15 
TCGA-14-1823 TCGA-14-4157 TCGA-16-1045 TCGA-16-1063 TCGA-19-1392 TCGA-19-2629 
       17.85         3.42        29.03        13.97         3.65        24.23 
TCGA-19-4065 TCGA-19-5947 TCGA-19-5952 TCGA-19-5960 TCGA-26-1439 TCGA-26-1443 
        7.04         6.64        18.90        14.96        13.87         7.13 
TCGA-27-1832 TCGA-27-2524 TCGA-28-1750 TCGA-28-2506 TCGA-28-2509 TCGA-32-1976 
        9.86         7.59         8.35         6.74         4.77         0.49 
TCGA-32-1980 TCGA-32-2495 TCGA-32-2615 TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 
        1.18        15.02        15.95        21.14         3.72        12.59 
TCGA-32-4719 TCGA-41-3392 TCGA-41-4097 TCGA-41-5651 TCGA-4W-AA9T TCGA-74-6573 
       10.85         0.99         0.20        15.12        25.58         3.45 
TCGA-74-6575 TCGA-76-4928 TCGA-76-4931 TCGA-76-6285 TCGA-OX-A56R TCGA-CS-4944 
       20.91         3.09         9.17         8.35         5.92        60.10 
TCGA-CS-5397 TCGA-CS-6666 TCGA-DB-5280 TCGA-DB-A4XF TCGA-DB-A4XH TCGA-DB-A64O 
        6.38        46.95        36.56        33.57        31.63        25.48 
TCGA-DH-A669 TCGA-DU-5847 TCGA-DU-5855 TCGA-DU-5872 TCGA-DU-6400 TCGA-DU-6405 
       30.21        18.02         6.81        17.49         1.22        19.89 
TCGA-DU-6542 TCGA-DU-7012 TCGA-DU-7298 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-A7T6 
        2.40         6.54        18.94         5.10        23.74        17.98 
TCGA-DU-A7TC TCGA-E1-5307 TCGA-E1-A7YK TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7Z2 
       37.38        57.93        12.43        51.88        15.32        13.08 
TCGA-FG-5963 TCGA-FG-7636 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A6J3 TCGA-HT-7475 
       25.48        17.88        32.61        38.27        22.26        17.42 
TCGA-HT-7606 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7692 TCGA-HT-7855 TCGA-HT-8564 
       17.29        31.69        14.96         2.96        19.23        15.72 
TCGA-HT-A4DS TCGA-HT-A5RB TCGA-HT-A617 TCGA-HW-A5KK TCGA-P5-A5EV TCGA-P5-A5EZ 
        0.23         0.10        16.14        12.76         0.23         2.30 
TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72W TCGA-P5-A780 TCGA-QH-A6CS 
        7.96         7.59         1.28        10.42         2.37        19.33 
TCGA-QH-A6CX TCGA-QH-A870 TCGA-S9-A6TZ TCGA-S9-A7R8 TCGA-TM-A7CF TCGA-TM-A84Q 
       12.23        12.99        36.82        31.59        65.39        25.38 
TCGA-TQ-A7RF TCGA-VM-A8C8 TCGA-VM-A8CD TCGA-VM-A8CF TCGA-WY-A85B TCGA-06-0209 
       21.37        45.93         7.89        20.02        45.80         7.63 
TCGA-02-0007 TCGA-02-0023 TCGA-02-0026 TCGA-02-0039 TCGA-02-0048 TCGA-02-0051 
       23.18        20.12        24.59        10.52         3.22        15.09 
TCGA-02-0060 TCGA-02-0074 TCGA-02-0080 TCGA-02-0086 TCGA-02-0106 TCGA-02-0113 
        6.02        10.19        89.72         8.81        11.67        92.65 
TCGA-02-0115 TCGA-02-0258 TCGA-02-0281 TCGA-02-0317 TCGA-02-0324 TCGA-02-0325 
       15.65        16.54         3.98        12.23         7.73        10.62 
TCGA-02-0330 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-2483 TCGA-06-0129 
       15.91        14.50        10.55        47.11        15.32        33.67 
TCGA-06-0130 TCGA-06-0138 TCGA-06-0141 TCGA-06-0162 TCGA-06-0166 TCGA-06-0184 
       12.95        24.23        10.29         3.42         5.85        69.90 
TCGA-06-0185 TCGA-06-0187 TCGA-06-0192 TCGA-06-0214 TCGA-06-0216 TCGA-06-0402 
       73.84        27.22        38.96        15.02        24.16         0.26 
TCGA-06-0644 TCGA-06-0649 TCGA-06-0750 TCGA-06-2557 TCGA-06-2561 TCGA-06-6390 
       12.62         2.10         0.92         1.08        17.65         5.39 
TCGA-06-6694 TCGA-08-0246 TCGA-08-0353 TCGA-08-0358 TCGA-08-0380 TCGA-08-0392 
        7.36         4.18         8.42        22.29        14.93         0.72 
TCGA-08-0510 TCGA-08-0512 TCGA-08-0517 TCGA-08-0525 TCGA-12-0616 TCGA-12-0654 
        4.27        42.15        58.68        15.98        14.73         7.59 
TCGA-12-0656 TCGA-12-0691 TCGA-12-0692 TCGA-12-0772 TCGA-12-0822 TCGA-12-1095 
       94.78        12.13         3.65        53.85        23.51        15.85 
TCGA-12-1099 TCGA-14-0817 TCGA-14-1037 TCGA-15-0742 TCGA-16-0846 TCGA-19-0962 
        4.14         5.39        19.30        13.78         3.91         0.66 
TCGA-28-2514 TCGA-28-5204 TCGA-28-5209 TCGA-28-5213 TCGA-28-5220 TCGA-76-6660 
        5.26        14.93        14.53        31.27        12.76         3.75 

$`6Q LOSS WILD-TYPE`
TCGA-06-6391 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DU-7300 
        1.48        51.55        46.88        46.72        31.82        62.01 
TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 TCGA-FG-A87N 
       17.16        23.90        20.09        17.82        20.45        18.64 
TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-5411 TCGA-06-5412 TCGA-06-5414 
       45.60        42.77        59.38         8.35         4.54         8.98 
TCGA-06-5415 TCGA-06-5418 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 
        8.55         2.73         6.15         4.57         5.23         8.32 
TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 
       12.85         4.77         1.55         4.77         4.96        26.79 
TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-1092 TCGA-12-1598 
        1.87         3.12        14.60        17.72        21.73        15.65 
TCGA-12-1599 TCGA-12-1600 TCGA-12-3644 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 
       25.68        14.73        59.77        26.93        15.22        10.95 
TCGA-12-3651 TCGA-12-3652 TCGA-12-5295 TCGA-12-5301 TCGA-14-0740 TCGA-14-0781 
       12.69        34.92        14.93         2.04        11.97         0.95 
TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 TCGA-14-0866 
        6.21        23.05        13.78         3.25         2.89        26.33 
TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 
       15.95         1.38         1.12         3.75        32.05        58.78 
TCGA-14-1451 TCGA-14-1452 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 
       23.11         7.10        30.18         0.92        40.96         6.67 
TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 TCGA-14-1825 TCGA-14-1827 
       12.43         0.99         1.97        17.79         7.63         5.88 
TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-3477 TCGA-16-0848 TCGA-16-1047 
        7.17        17.49         7.96         3.78        17.59         4.57 
TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1460 TCGA-19-0960 
       10.29        14.01         9.14        21.24         6.41         8.61 
TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 
       14.27         3.39        25.38         7.17        12.66         3.25 
TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 
        0.13         9.67         4.87         1.08         7.53         0.16 
TCGA-19-2625 TCGA-19-2631 TCGA-19-5950 TCGA-19-5951 TCGA-19-5953 TCGA-19-5954 
        4.08         7.00        17.19         8.02         4.73        12.10 
TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 TCGA-19-A60I TCGA-19-A6J5 
        1.78        22.49        14.07        16.80        17.79        28.54 
TCGA-26-1438 TCGA-26-1440 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 
       10.03         9.73         9.37         9.40         8.88        18.97 
TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 
       19.33         5.06        16.60        24.23        40.54        21.30 
TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 
       30.05        14.04        11.51        24.76        18.08        16.77 
TCGA-27-2523 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 
       16.08         2.86        14.40        15.78         0.20         2.53 
TCGA-28-1749 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 
        9.21         7.63         8.48         1.22         1.55         2.83 
TCGA-28-1757 TCGA-28-2502 TCGA-32-1970 TCGA-32-1973 TCGA-32-1977 TCGA-32-1978 
        0.13         0.66        15.39        21.07         0.10        15.85 
TCGA-32-1979 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 
       19.50         4.67        12.69        14.86        16.93        12.23 
TCGA-32-2494 TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 TCGA-32-4213 TCGA-32-5222 
       20.78         8.84        22.78        25.18        19.86        19.23 
TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3393 TCGA-41-3915 
        0.85        13.35         8.94         9.53         4.44        11.84 
TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 
       12.46         4.08         1.45         4.34        14.33         8.22 
TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 TCGA-76-4929 TCGA-76-4934 TCGA-76-4935 
        7.50         4.80         4.54         3.65         2.53        36.85 
TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6286 TCGA-76-6656 
       16.70         3.29         2.70        17.06        20.98         4.83 
TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-RR-A6KA 
        5.03        23.90        34.45        18.64        36.20         6.28 
TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-5393 
       20.55       117.50         7.69        43.89        36.36        40.18 
TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 
        0.26        21.01        53.62        17.69        26.76        37.38 
TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 
       48.30        49.94        49.12       122.73        81.96        75.25 
TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5281 
       47.93        72.92        50.86        91.13        44.52        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XG 
       46.42        18.84        30.21        39.78        37.45        72.95 
TCGA-DB-A64L TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U 
       24.20        30.12         5.98        31.40        27.45        27.81 
TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M 
       29.23        14.40        18.51        12.10        11.24        17.88 
TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 
       30.74        16.18        19.96        63.88        46.06        24.59 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 
       13.71        18.61        14.56        17.46         6.74        13.38 
TCGA-DU-5854 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 
        8.45       182.33        18.94        15.16       211.17        52.11 
TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6401 
       22.42        49.02        75.16        46.06        65.75        87.45 
TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 
        7.04        11.64       133.74        16.83        94.52       114.08 
TCGA-DU-6410 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 
        7.96        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
      105.21         8.84       117.40        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 
       10.36         7.96        94.32        44.02        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 
       23.31        41.98         2.76        14.60        20.68        21.40 
TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR 
       19.13        16.96        15.48        14.17        33.27        29.85 
TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 
       31.69        24.43        26.17        24.99        33.96        25.55 
TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L 
       21.57        95.11        20.98        22.29        11.41        26.76 
TCGA-DU-A76R TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TD TCGA-DU-A7TG 
       21.30       139.04        84.33        51.52         7.50        44.42 
TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
       38.89         0.56        50.14        67.46        41.13        79.99 
TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE 
      134.27        78.21        95.57       130.78        14.30        29.13 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO 
       93.21         3.65        19.46        16.18        21.30        75.02 
TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z3 TCGA-E1-A7Z4 
        0.76        32.45        36.82       146.14        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5964 
       32.35        39.48         0.23         0.20        47.77        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 
       15.35        22.55        20.61        20.09        28.34        13.68 
TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-A4MU TCGA-FG-A4MW 
       14.24        16.01        14.96        22.52        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 
       18.71        23.70        14.76        21.53        15.02        16.44 
TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 
       28.54        10.78        36.66        48.69         5.72        27.52 
TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 
        0.10         6.67        11.54        40.11         0.13         0.03 
TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 
       16.54         3.75         6.54        24.26         6.38        40.34 
TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 
       75.19        95.93       106.95       172.77         4.01         5.03 
TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7607 TCGA-HT-7608 
       29.85        23.18       122.47         4.57         3.16        22.06 
TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 
       45.99        56.09        57.60         0.23        14.27         0.16 
TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 
       16.24         0.76        44.68         6.05        42.74         0.10 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 
        0.10         0.10        17.52         6.90        14.53        39.48 
TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 
       39.09         0.23        50.63         0.49        23.61        37.15 
TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 
        0.33         0.13         3.68         5.33        35.47         3.72 
TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 
       11.28        31.43         1.64        16.24         9.40        63.55 
TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 
        0.10        37.87        33.01        12.23         6.25         0.10 
TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 
        0.46         2.50         5.56        13.78         0.23        29.59 
TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 
       34.19        28.27        26.04         0.13        20.22         0.07 
TCGA-HT-A5RA TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A618 
       27.35         5.33         2.70        16.93         1.81        16.83 
TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L 
       17.52        17.65         2.43        10.52        15.35        11.05 
TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 
        0.10        56.58        45.44        41.49        68.32        69.27 
TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ 
       35.44        39.75        40.01        42.54        24.92        31.63 
TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EW 
       28.87        20.71        19.00        14.40        14.40         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A72U TCGA-P5-A72X 
        7.99         2.37         9.44         5.88         0.23        13.25 
TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 
       11.64        10.95         9.01        13.61         9.60         7.56 
TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       12.23        19.20         3.45         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW 
       12.62        15.85        14.04        14.83        14.53        13.61 
TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
       13.41         9.17        10.29        14.53        16.34        16.73 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-R8-A6MK TCGA-R8-A6ML 
        1.91        16.50        16.70        11.08        88.83        94.03 
TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 
       32.65        30.87         5.46         9.90        28.08         2.07 
TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW 
       19.59        30.67        62.17        87.12        18.77        41.10 
TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 
       40.93        35.38        24.39        25.81        29.85        32.61 
TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD 
       35.15        98.24        95.93         5.85       123.65        75.25 
TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM 
      135.22        85.55        38.56        84.99        31.10        19.86 
TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS 
       26.47        18.61        18.64        14.07        36.13         7.92 
TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 
       26.93        23.51        19.99        20.02         8.19         2.04 
TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 
       20.68        15.06        18.54        28.37        27.16       169.84 
TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A89V TCGA-S9-A89Z 
       10.39        99.06        30.05        98.63        18.71        20.48 
TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A84B TCGA-TM-A84C 
       54.77        48.33        49.32        34.78        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       59.05        40.64        30.44        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RG 
       24.79        33.24        18.61        14.93        23.80        19.69 
TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN 
       15.98         2.04        40.41        44.09        36.69        33.73 
TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV 
       31.20        30.05        26.14        25.87        33.93        61.41 
TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CE 
       26.99        31.36        43.20        13.51         0.10        39.16 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 
       23.47        37.05        16.01        23.21         8.05        51.06 
TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85C TCGA-WY-A85D 
       13.32        43.96        39.88        43.40        46.88        37.71 
TCGA-WY-A85E TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0009 TCGA-02-0010 
       20.81        11.77         4.73        18.35        10.59        35.41 
TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0024 
       20.71        82.59        20.61        87.06        77.65        53.10 
TCGA-02-0025 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 
       42.74        12.16        90.58         2.83        14.14         3.62 
TCGA-02-0038 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0052 TCGA-02-0054 
       10.72        18.31         6.87        14.73        12.59         6.54 
TCGA-02-0055 TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 TCGA-02-0064 TCGA-02-0068 
        2.50        19.86         8.35         9.57        19.73        26.43 
TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 TCGA-02-0075 TCGA-02-0079 TCGA-02-0083 
       28.70        25.05         5.49        20.84        27.25        22.72 
TCGA-02-0084 TCGA-02-0085 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 
       12.62        51.32        57.76        16.96         3.48        27.02 
TCGA-02-0104 TCGA-02-0107 TCGA-02-0111 TCGA-02-0114 TCGA-02-0116 TCGA-02-0260 
       65.00        17.65        23.18        99.98        48.95        16.93 
TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 
       17.72        10.75        14.47        13.87        14.20        15.95 
TCGA-02-0321 TCGA-02-0326 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 
        9.90         7.33        25.71         4.37        25.12        10.59 
TCGA-02-0339 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 
       12.39        11.34         9.27        16.21         3.35        16.80 
TCGA-02-2470 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 
       12.92        15.45        20.32         2.70         6.15        20.38 
TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0132 TCGA-06-0133 
       47.61         6.94         3.98        22.72        25.35        14.30 
TCGA-06-0137 TCGA-06-0139 TCGA-06-0140 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 
       26.70        11.90         0.20         2.20        11.74         2.33 
TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 
       20.09        17.79        10.09         8.61        19.46        46.59 
TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 
       12.33        13.94        10.45         3.19        10.82         9.44 
TCGA-06-0160 TCGA-06-0164 TCGA-06-0165 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 
       11.80        56.91        10.65        19.66         3.29        13.12 
TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 
        4.47         3.22         4.04        91.00         4.18        88.14 
TCGA-06-0179 TCGA-06-0182 TCGA-06-0188 TCGA-06-0189 TCGA-06-0190 TCGA-06-0194 
       20.25         3.65        44.58        15.42        10.42         4.67 
TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 
        7.40         5.56         0.39         7.66         8.42         7.40 
TCGA-06-0211 TCGA-06-0213 TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 TCGA-06-0238 
       11.84         0.53         0.72        19.82        13.64        13.32 
TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0409 TCGA-06-0410 
       20.42        48.69        10.82         9.01        72.36         4.70 
TCGA-06-0412 TCGA-06-0413 TCGA-06-0414 TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 
        9.57         3.16        35.11         5.75         5.75         9.80 
TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 
       23.57        14.20        26.40        46.88         7.86         2.70 
TCGA-06-0749 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 
        2.70        43.46        46.19         7.17        40.41        16.57 
TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1087 TCGA-06-1800 
       20.78        26.76        23.93         6.84         4.04        26.79 
TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 TCGA-06-2558 TCGA-06-2559 
       11.84        15.32        13.61        33.90        12.49         4.93 
TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 
       12.56        30.64         5.95        16.64         5.98         4.37 
TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 TCGA-06-6693 TCGA-08-0244 TCGA-08-0245 
        0.43        31.50         7.79       120.56        22.68        37.84 
TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 
      115.86         1.74         8.42        25.71        12.16         9.80 
TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 
       29.23        65.33         1.28        17.95        24.56        31.10 
TCGA-08-0357 TCGA-08-0359 TCGA-08-0375 TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 
       37.58         3.39        12.23        18.02        15.35        13.97 
TCGA-08-0509 TCGA-08-0514 TCGA-08-0516 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 
       12.56        11.08        19.59        19.33        10.75         4.80 
TCGA-08-0524 TCGA-08-0529 TCGA-08-0531 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 
        7.27        18.41         7.56        12.99        34.92        10.45 
TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0703 TCGA-12-0707 
        0.10        38.17        25.97        26.66        20.38        28.41 
TCGA-12-0769 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 
       15.06        43.23         7.63         9.73        14.93        14.86 
TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 TCGA-12-0826 TCGA-12-0827 
       91.76        24.79        18.48        10.62        27.78        38.76 
TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 
        8.94        20.58       127.59         5.82         7.59        33.21 
TCGA-12-1093 TCGA-12-1094 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-14-0787 
       15.98        12.23         9.11        14.53         3.98         2.24 
TCGA-14-0789 TCGA-14-0813 TCGA-14-0867 TCGA-14-0871 TCGA-14-1043 TCGA-15-1444 
       11.24         1.35         2.04        28.93         0.79        50.53 
TCGA-15-1446 TCGA-15-1447 TCGA-15-1449 TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 
       19.10        53.19        13.28        26.07        16.37        11.77 
TCGA-19-0957 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1388 TCGA-19-1389 
       21.90        10.75         9.07         5.95        12.95         4.64 
TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 
       31.33        14.86         5.49         1.58         7.92         2.33 
TCGA-28-2513 TCGA-28-5207 TCGA-28-5208 TCGA-28-5211 TCGA-28-5214 TCGA-28-5215 
        7.30        11.28        17.88        11.77        23.44        11.01 
TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 
       13.64         5.16        22.68         5.42         7.36        11.38 
TCGA-76-6283 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        5.42         1.61        17.72        26.30 

  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
             0.10              0.03 
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
            94.78            211.17 
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
           13.920            16.815 
[1] "0.1 - 94.8 (13.9)"  "0.0 - 211.2 (16.8)"
[1] "hr=" "1.8"
D53V2, continuous
D53V3, binary
                   cls
clus                  0   1
  6Q LOSS MUTATED   125  63
  6Q LOSS WILD-TYPE 448 449
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6Q LOSS MUTATED    125   63
  6Q LOSS WILD-TYPE  448  449
                        clus
vv                       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  BRAIN                              125               448
  CENTRAL NERVOUS SYSTEM              63               449
[1] 2 2
[1] FALSE
D53V4, binary
                   cls
clus                  0   1
  6Q LOSS MUTATED    86 102
  6Q LOSS WILD-TYPE 367 530
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6Q LOSS MUTATED     86  102
  6Q LOSS WILD-TYPE  367  530
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  FEMALE              86               367
  MALE               102               530
[1] 2 2
[1] FALSE
D53V5, binary
                   cls
clus                  0   1
  6Q LOSS MUTATED    34 141
  6Q LOSS WILD-TYPE 224 629
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6Q LOSS MUTATED     34  141
  6Q LOSS WILD-TYPE  224  629
     clus
vv    6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  NO               34               224
  YES             141               629
[1] 2 2
[1] FALSE
D53V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  6Q LOSS MUTATED            37                             6               10
  6Q LOSS WILD-TYPE         157                            24              119
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  6Q LOSS MUTATED                  16                   4
  6Q LOSS WILD-TYPE               173                  14
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  6Q LOSS MUTATED                               115
  6Q LOSS WILD-TYPE                             410
D53V7, multiclass
                                 clus
vv                                6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  ASTROCYTOMA                                  37               157
  GLIOBLASTOMA MULTIFORME (GBM)                 6                24
  OLIGOASTROCYTOMA                             10               119
  OLIGODENDROGLIOMA                            16               173
  TREATED PRIMARY GBM                           4                14
  UNTREATED PRIMARY (DE NOVO) GBM             115               410
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  6Q LOSS MUTATED                                  1     6
  6Q LOSS WILD-TYPE                                0    15
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  6Q LOSS MUTATED                          18   157
  6Q LOSS WILD-TYPE                        53   802
D53V8, multiclass
                                  clus
vv                                 6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               1                 0
  ASIAN                                          6                15
  BLACK OR AFRICAN AMERICAN                     18                53
  WHITE                                        157               802
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D53V9, binary
                   cls
clus                  0   1
  6Q LOSS MUTATED     3 159
  6Q LOSS WILD-TYPE  41 762
[1] "tbl2"
                   cls
clus                [,1] [,2]
  6Q LOSS MUTATED      3  159
  6Q LOSS WILD-TYPE   41  762
                        clus
vv                       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  HISPANIC OR LATINO                   3                41
  NOT HISPANIC OR LATINO             159               762
[1] 2 2
[1] FALSE

Clustering(54) Variable = 7P LOSS MUTATION ANALYSIS
D54V1, survival
                   sevent
clus2                 0   1
  7P LOSS MUTATED     4   6
  7P LOSS WILD-TYPE 476 592
  7P LOSS MUTATED 7P LOSS WILD-TYPE 
               10              1068 
  7P LOSS MUTATED 7P LOSS WILD-TYPE 
                6               592 
$`7P LOSS MUTATED`
TCGA-14-3477 TCGA-19-0960 TCGA-HW-A5KL TCGA-P5-A5F6 TCGA-S9-A6TS TCGA-02-0015 
        3.78         8.61        28.87         1.28        62.17        20.61 
TCGA-02-0026 TCGA-06-0221 TCGA-06-0410 TCGA-08-0516 
       24.59        19.82         4.70        19.59 

$`7P LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K 
       42.05        62.01        17.16        23.90        20.09        17.82 
TCGA-FG-A713 TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M 
       20.45        18.64        21.40        45.60        42.77        59.38 
TCGA-06-1806 TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 
       15.32        11.74         3.55         8.35         4.54         8.81 
TCGA-06-5414 TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 
        8.98         8.55         6.71         2.73         3.75         6.15 
TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 
        4.57         5.23         8.32        12.85         4.77         1.55 
TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 
        4.77         4.96        26.79         1.87         3.12         2.56 
TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 
       14.60        17.72        15.35        21.73        15.65        25.68 
TCGA-12-1600 TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 
       14.73         6.77        59.77        44.02        26.93        15.22 
TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 TCGA-12-5299 
       10.95        12.69        34.92        14.53        14.93         3.22 
TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 
        2.04        15.12        11.97         0.95         6.21        23.05 
TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 
       13.78         3.25         2.89        16.50        26.33        15.95 
TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 
        1.38         1.12         3.75        32.05        58.78        23.11 
TCGA-14-1452 TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 
        7.10         1.15        30.18         0.92        40.96         6.67 
TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 TCGA-14-1823 TCGA-14-1825 
       12.43         0.99         1.97        17.79        17.85         7.63 
TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-4157 TCGA-16-0848 
        5.88         7.17        17.49         7.96         3.42        17.59 
TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 
       29.03         4.57        10.29        14.01         9.14        21.24 
TCGA-16-1063 TCGA-16-1460 TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 TCGA-19-1392 
       13.97         6.41        14.27         3.39        25.38         3.65 
TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 
        7.17        12.66         3.25         0.13         9.67         4.87 
TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 
        1.08         7.53         0.16         4.08        24.23         7.00 
TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 
        7.04         6.64        17.19         8.02        18.90         4.73 
TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 
       12.10         1.78        22.49        14.07        16.80        14.96 
TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 
       17.79        28.54        10.03        13.87         9.73         7.13 
TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 
        9.37         9.40         8.88        18.97        19.33         5.06 
TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 
       16.60         9.86        24.23        40.54        21.30        30.05 
TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 
       14.04        11.51        24.76        18.08        16.77        16.08 
TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 
        7.59         2.86        14.40        15.78         0.20         2.53 
TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 
        9.21         8.35         7.63         8.48         1.22         1.55 
TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 TCGA-32-1970 
        2.83         0.13         0.66         6.74         4.77        15.39 
TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 
       21.07         0.49         0.10        15.85        19.50         1.18 
TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 
        4.67        12.69        14.86        16.93        12.23        20.78 
TCGA-32-2495 TCGA-32-2615 TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 
       15.02        15.95         8.84        22.78        25.18        21.14 
TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 
        3.72        12.59        19.86        10.85        19.23         0.85 
TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 
       13.35         8.94         9.53         0.99         4.44        11.84 
TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T 
        0.20        15.12        12.46         4.08         1.45        25.58 
TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 
        3.45        20.91         4.34        14.33         8.22         7.50 
TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4934 
        4.80         4.54         3.09         3.65         9.17         2.53 
TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 
       36.85        16.70         3.29         2.70        17.06         8.35 
TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 
       20.98         4.83         5.03        23.90        34.45        18.64 
TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 
       36.20         5.92         6.28        20.55       117.50         7.69 
TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 
       43.89        36.36        60.10        40.18         0.26        21.01 
TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 
       53.62         6.38        17.69        26.76        37.38        46.95 
TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 
       48.30        49.94        49.12       122.73        81.96        75.25 
TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 
       47.93        72.92        50.86        91.13        44.52        36.56 
TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE 
       78.28        46.42        18.84        30.21        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        30.12 
TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W 
        5.98        31.40        27.45        27.81        29.23        14.40 
TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D 
       19.96        63.88        46.06        24.59        30.21        27.81 
TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU 
       17.19        17.19        54.25        23.21        17.46        13.71 
TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 
       18.61        18.02        14.56        17.46         6.74        13.38 
TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 
        8.45         6.81       182.33        18.94        17.49        15.16 
TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 
      211.17        52.11        22.42        49.02        75.16        46.06 
TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       65.75         1.22        87.45         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 
       19.89        16.83        94.52       114.08         7.96         2.40 
TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 
       11.47        62.96       156.23       154.36        14.99       105.21 
TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
        6.54         8.84       117.40        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 
       10.36         7.96        94.32        18.94        44.02        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 
       60.30        23.31        41.98         2.76         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 
       14.60        20.68        21.40        19.13        16.96        15.48 
TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU 
       14.17        33.27        29.85        31.69        24.43        26.17 
TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 
       24.99        33.96        25.55        21.57        95.11        20.98 
TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 
       22.29        11.41        26.76        21.30        17.98       139.04 
TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI 
       84.33        51.52        37.38         7.50        44.42        38.89 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 
        0.56        50.14        67.46        41.13        79.99        57.93 
TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE 
      134.27        78.21        95.57       130.78        14.30        29.13 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       93.21         3.65        19.46        12.43        16.18        21.30 
TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW 
       75.02        51.88        15.32         0.76        32.45        36.82 
TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 
      146.14        13.08        73.48       145.05        32.35        39.48 
TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 
        0.23         0.20        47.77        25.48        52.21        36.82 
TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 
       18.77        14.93        42.54        41.33        18.44        15.35 
TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 
       17.88        22.55        20.61        20.09        28.34        13.68 
TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT 
       14.24        16.01        14.96        22.52        32.61        38.27 
TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L 
       10.72        18.38        18.71        23.70        14.76        21.53 
TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 
       15.02        16.44        22.26        28.54        10.78        36.66 
TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 
       48.69         5.72        27.52         0.10         6.67        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
        6.54        24.26         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 
        0.76        44.68         6.05        42.74         0.10        31.69 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 
       14.96         0.10         0.10         2.96        17.52         6.90 
TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 
       14.53        39.48        19.23        39.09         0.23        50.63 
TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 
        0.49        23.61        37.15         0.33         0.13         3.68 
TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 
        5.33        35.47         3.72        11.28        31.43         1.64 
TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
       16.24         9.40        63.55         0.10        37.87        33.01 
TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 
       12.23         6.25         0.10         0.46         2.50         5.56 
TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 
       13.78         0.23        29.59        34.19        28.27        15.72 
TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA 
        0.23        26.04         0.13        20.22         0.07        27.35 
TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 
        0.10         5.33         2.70        16.93         1.81        16.14 
TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K 
       16.83        17.52        17.65         2.43        10.52        15.35 
TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 
       11.05         0.10        56.58        45.44        41.49        68.32 
TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 
       69.27        35.44        39.75        40.01        42.54        24.92 
TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 
       31.63        12.76        20.71        19.00        14.40        14.40 
TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 
        0.23         6.71         7.99         2.37         2.30         9.44 
TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X 
        5.88         7.96         7.59         0.23        10.42        13.25 
TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 
       11.64        10.95         9.01        13.61         9.60         7.56 
TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R 
       12.23        19.20         3.45         2.37         4.41        15.16 
TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU 
        2.53        12.62        15.85        14.04        19.33        14.83 
TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 
       14.53        13.61        12.23        13.41         9.17        10.29 
TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC 
       14.53        16.34        16.73         1.91        16.50        16.70 
TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X 
       11.08        12.99        88.83        94.03        32.65        30.87 
TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
        5.46         9.90        28.08         2.07        19.59        30.67 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ 
       87.12        18.77        41.10        40.93        35.38        36.82 
TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       24.39        25.81        29.85        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       95.93         5.85       123.65        75.25       135.22        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO 
       38.56        84.99        31.10        19.86        26.47        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.64        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       18.54        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       30.05        98.63        31.59        18.71        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       48.33        49.32        34.78        65.39        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       59.05        40.64        30.44        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       36.69        33.73        31.20        30.05        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 
       33.93        61.41        26.99        31.36        45.93        43.20 
TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH 
       13.51         0.10         7.89        39.16        20.02        23.47 
TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K 
       37.05        16.01        23.21         8.05        51.06        13.32 
TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D 
       43.96        39.88        43.40        45.80        46.88        37.71 
TCGA-WY-A85E TCGA-06-0209 TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 
       20.81         7.63        11.77         4.73        18.35        23.18 
TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0016 TCGA-02-0021 
       10.59        35.41        20.71        82.59        87.06        77.65 
TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 
       20.12        53.10        42.74        12.16        90.58         2.83 
TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 
       14.14         3.62        10.72        10.52        18.31         6.87 
TCGA-02-0047 TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0055 
       14.73         3.22        15.09        12.59         6.54         2.50 
TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 
       19.86         8.35         9.57         6.02        19.73        26.43 
TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 TCGA-02-0079 
       28.70        25.05         5.49        10.19        20.84        27.25 
TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 
       89.72        22.72        12.62        51.32         8.81        57.76 
TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0106 TCGA-02-0107 
       16.96         3.48        27.02        65.00        11.67        17.65 
TCGA-02-0111 TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 
       23.18        92.65        99.98        15.65        48.95        16.54 
TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 TCGA-02-0281 TCGA-02-0285 
       16.93        17.72        10.75        14.47         3.98        13.87 
TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 
       14.20        15.95        12.23         9.90         7.73        10.62 
TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 
        7.33        15.91        25.71         4.37        25.12        10.59 
TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 
       12.39        14.50        10.55        47.11        11.34         9.27 
TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 
       16.21         3.35        16.80        12.92        15.32        15.45 
TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 
       20.32         2.70         6.15        20.38        47.61         6.94 
TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 
        3.98        22.72        33.67        12.95        25.35        14.30 
TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 
       26.70        24.23        11.90         0.20        10.29         2.20 
TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 
       11.74         2.33        20.09        17.79        10.09         8.61 
TCGA-06-0150 TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 
       19.46        46.59        12.33        13.94        10.45         3.19 
TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 
       10.82         9.44        11.80         3.42        56.91        10.65 
TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 
        5.85        19.66         3.29        13.12         4.47         3.22 
TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 
        4.04        91.00         4.18        88.14        20.25         3.65 
TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 TCGA-06-0190 
       69.90        73.84        27.22        44.58        15.42        10.42 
TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 
       38.96         4.67         7.40         5.56         0.39         7.66 
TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 TCGA-06-0216 
        8.42         7.40        11.84         0.53        15.02        24.16 
TCGA-06-0219 TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 
        0.72        13.64        13.32        20.42        48.69        10.82 
TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 TCGA-06-0412 TCGA-06-0413 TCGA-06-0414 
        9.01         0.26        72.36         9.57         3.16        35.11 
TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 
       12.62         5.75         5.75         9.80         2.10        23.57 
TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 
       14.20        26.40        46.88         7.86         2.70         2.70 
TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 
        0.92        43.46        46.19         7.17        40.41        16.57 
TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1087 TCGA-06-1800 
       20.78        26.76        23.93         6.84         4.04        26.79 
TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 
       11.84        15.32        13.61        33.90         1.08        12.49 
TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 
        4.93        17.65        12.56        30.64         5.95        16.64 
TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 
        5.98         4.37         0.43        31.50         7.79         5.39 
TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 TCGA-08-0344 
      120.56         7.36        22.68        37.84         4.18       115.86 
TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 
        1.74         8.42        25.71        12.16         9.80        29.23 
TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 
       65.33         1.28         8.42        17.95        24.56        31.10 
TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 
       37.58        22.29         3.39        12.23        14.93        18.02 
TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 TCGA-08-0510 TCGA-08-0512 
       15.35        13.97         0.72        12.56         4.27        42.15 
TCGA-08-0514 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 
       11.08        58.68        19.33        10.75         4.80         7.27 
TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 
       15.98        18.41         7.56        14.73        12.99        34.92 
TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 
       10.45         7.59        94.78         0.10        38.17        25.97 
TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 
       26.66        12.13         3.65        20.38        28.41        15.06 
TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 
       53.85        43.23         7.63         9.73        14.93        14.86 
TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0826 
       91.76        24.79        18.48        10.62        23.51        27.78 
TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 
       38.76         8.94        20.58       127.59         5.82         7.59 
TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 
       33.21        15.98        12.23        15.85         9.11        14.53 
TCGA-12-1098 TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 
        3.98         4.14         2.24        11.24         1.35         5.39 
TCGA-14-0867 TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 
        2.04        28.93        19.30         0.79        13.78        50.53 
TCGA-15-1446 TCGA-15-1447 TCGA-15-1449 TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 
       19.10        53.19        13.28         3.91        26.07        16.37 
TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 
       11.77        21.90         0.66        10.75         9.07         5.95 
TCGA-19-1388 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 
       12.95         4.64        31.33        14.86         5.49         1.58 
TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 TCGA-28-5207 
        7.92         2.33         7.30         5.26        14.93        11.28 
TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5215 
       17.88        14.53        11.77        31.27        23.44        11.01 
TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 
       13.64         5.16        22.68        12.76         5.42         7.36 
TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
       11.38         5.42         3.75         1.61        17.72        26.30 

  7P LOSS MUTATED 7P LOSS WILD-TYPE 
             1.28              0.03 
  7P LOSS MUTATED 7P LOSS WILD-TYPE 
            62.17            211.17 
  7P LOSS MUTATED 7P LOSS WILD-TYPE 
           19.705            15.980 
[1] "1.3 - 62.2 (19.7)"  "0.0 - 211.2 (16.0)"
[1] "hr=" "1.2"
D54V2, continuous
D54V3, binary
                   cls
clus                  0   1
  7P LOSS MUTATED     7   3
  7P LOSS WILD-TYPE 566 509
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7P LOSS MUTATED      7    3
  7P LOSS WILD-TYPE  566  509
                        clus
vv                       7P LOSS MUTATED 7P LOSS WILD-TYPE
  BRAIN                                7               566
  CENTRAL NERVOUS SYSTEM               3               509
[1] 2 2
[1] FALSE
D54V4, binary
                   cls
clus                  0   1
  7P LOSS MUTATED     5   5
  7P LOSS WILD-TYPE 448 627
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7P LOSS MUTATED      5    5
  7P LOSS WILD-TYPE  448  627
        clus
vv       7P LOSS MUTATED 7P LOSS WILD-TYPE
  FEMALE               5               448
  MALE                 5               627
[1] 2 2
[1] FALSE
D54V5, binary
                   cls
clus                  0   1
  7P LOSS MUTATED     1   8
  7P LOSS WILD-TYPE 257 762
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7P LOSS MUTATED      1    8
  7P LOSS WILD-TYPE  257  762
     clus
vv    7P LOSS MUTATED 7P LOSS WILD-TYPE
  NO                1               257
  YES               8               762
[1] 2 2
[1] FALSE
D54V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  7P LOSS MUTATED             2                             0                0
  7P LOSS WILD-TYPE         192                            30              129
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  7P LOSS MUTATED                   1                   0
  7P LOSS WILD-TYPE               188                  18
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  7P LOSS MUTATED                                 7
  7P LOSS WILD-TYPE                             518
D54V7, multiclass
                                 clus
vv                                7P LOSS MUTATED 7P LOSS WILD-TYPE
  ASTROCYTOMA                                   2               192
  GLIOBLASTOMA MULTIFORME (GBM)                 0                30
  OLIGOASTROCYTOMA                              0               129
  OLIGODENDROGLIOMA                             1               188
  TREATED PRIMARY GBM                           0                18
  UNTREATED PRIMARY (DE NOVO) GBM               7               518
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  7P LOSS MUTATED                                  0     0
  7P LOSS WILD-TYPE                                1    21
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  7P LOSS MUTATED                           1     9
  7P LOSS WILD-TYPE                        70   950
D54V8, multiclass
                                  clus
vv                                 7P LOSS MUTATED 7P LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                21
  BLACK OR AFRICAN AMERICAN                      1                70
  WHITE                                          9               950
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D54V9, binary
                   cls
clus                  0   1
  7P LOSS MUTATED     0   9
  7P LOSS WILD-TYPE  44 912
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7P LOSS MUTATED      0    9
  7P LOSS WILD-TYPE   44  912
                        clus
vv                       7P LOSS MUTATED 7P LOSS WILD-TYPE
  HISPANIC OR LATINO                   0                44
  NOT HISPANIC OR LATINO               9               912
[1] 2 2
[1] FALSE

Clustering(55) Variable = 7Q LOSS MUTATION ANALYSIS
D55V1, survival
                   sevent
clus2                 0   1
  7Q LOSS MUTATED     4   5
  7Q LOSS WILD-TYPE 476 593
  7Q LOSS MUTATED 7Q LOSS WILD-TYPE 
                9              1069 
  7Q LOSS MUTATED 7Q LOSS WILD-TYPE 
                5               593 
$`7Q LOSS MUTATED`
TCGA-DH-A66B TCGA-14-3477 TCGA-CS-5393 TCGA-P5-A5F6 TCGA-S9-A6TS TCGA-02-0015 
       42.05         3.78        40.18         1.28        62.17        20.61 
TCGA-06-0221 TCGA-06-0410 TCGA-08-0516 
       19.82         4.70        19.59 

$`7Q LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       62.01        17.16        23.90        20.09        17.82        20.45 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 
       18.64        21.40        45.60        42.77        59.38        15.32 
TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 
       11.74         3.55         8.35         4.54         8.81         8.98 
TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 
        8.55         6.71         2.73         3.75         6.15         4.57 
TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 
        5.23         8.32        12.85         4.77         1.55         4.77 
TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK 
        4.96        26.79         1.87         3.12         2.56        14.60 
TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 
       17.72        15.35        21.73        15.65        25.68        14.73 
TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 
        6.77        59.77        44.02        26.93        15.22        10.95 
TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 
       12.69        34.92        14.53        14.93         3.22         2.04 
TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 
       15.12        11.97         0.95         6.21        23.05        13.78 
TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 
        3.25         2.89        16.50        26.33        15.95         1.38 
TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 
        1.12         3.75        32.05        58.78        23.11         7.10 
TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 
        1.15        30.18         0.92        40.96         6.67        12.43 
TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 
        0.99         1.97        17.79        17.85         7.63         5.88 
TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 
        7.17        17.49         7.96         3.42        17.59        29.03 
TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 
        4.57        10.29        14.01         9.14        21.24        13.97 
TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 TCGA-19-1392 
        6.41         8.61        14.27         3.39        25.38         3.65 
TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 
        7.17        12.66         3.25         0.13         9.67         4.87 
TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 
        1.08         7.53         0.16         4.08        24.23         7.00 
TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 
        7.04         6.64        17.19         8.02        18.90         4.73 
TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 
       12.10         1.78        22.49        14.07        16.80        14.96 
TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 
       17.79        28.54        10.03        13.87         9.73         7.13 
TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 
        9.37         9.40         8.88        18.97        19.33         5.06 
TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 
       16.60         9.86        24.23        40.54        21.30        30.05 
TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 
       14.04        11.51        24.76        18.08        16.77        16.08 
TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 
        7.59         2.86        14.40        15.78         0.20         2.53 
TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 
        9.21         8.35         7.63         8.48         1.22         1.55 
TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 TCGA-32-1970 
        2.83         0.13         0.66         6.74         4.77        15.39 
TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 
       21.07         0.49         0.10        15.85        19.50         1.18 
TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 
        4.67        12.69        14.86        16.93        12.23        20.78 
TCGA-32-2495 TCGA-32-2615 TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 
       15.02        15.95         8.84        22.78        25.18        21.14 
TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 
        3.72        12.59        19.86        10.85        19.23         0.85 
TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 
       13.35         8.94         9.53         0.99         4.44        11.84 
TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T 
        0.20        15.12        12.46         4.08         1.45        25.58 
TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 
        3.45        20.91         4.34        14.33         8.22         7.50 
TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4934 
        4.80         4.54         3.09         3.65         9.17         2.53 
TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 
       36.85        16.70         3.29         2.70        17.06         8.35 
TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 
       20.98         4.83         5.03        23.90        34.45        18.64 
TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 
       36.20         5.92         6.28        20.55       117.50         7.69 
TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 
       43.89        36.36        60.10         0.26        21.01        53.62 
TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 
        6.38        17.69        26.76        37.38        46.95        48.30 
TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.94        49.12       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       46.42        18.84        30.21        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       12.10        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F 
       63.88        46.06        24.59        30.21        27.81        17.19 
TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV 
       17.19        54.25        23.21        17.46        13.71        18.61 
TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 
       18.02        14.56        17.46         6.74        13.38         8.45 
TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 
        6.81       182.33        18.94        17.49        15.16       211.17 
TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
       52.11        22.42        49.02        75.16        46.06        65.75 
TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
        1.22        87.45         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 
       16.83        94.52       114.08         7.96         2.40        11.47 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 
       62.96       156.23       154.36        14.99       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        8.84       117.40        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 
        7.96        94.32        18.94        44.02        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       20.68        21.40        19.13        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       33.27        29.85        31.69        24.43        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       33.96        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA 
       11.41        26.76        21.30        17.98       139.04        84.33 
TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ 
       51.52        37.38         7.50        44.42        38.89         0.56 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 
       50.14        67.46        41.13        79.99        57.93       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH 
       78.21        95.57       130.78        14.30        29.13        93.21 
TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO 
        3.65        19.46        12.43        16.18        21.30        75.02 
TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY 
       51.88        15.32         0.76        32.45        36.82       146.14 
TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 
       13.08        73.48       145.05        32.35        39.48         0.23 
TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 
        0.20        47.77        25.48        52.21        36.82        18.77 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 
       14.93        42.54        41.33        18.44        15.35        17.88 
TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 
       22.55        20.61        20.09        28.34        13.68        14.24 
TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU 
       16.01        14.96        22.52        32.61        38.27        10.72 
TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ 
       18.38        18.71        23.70        14.76        21.53        15.02 
TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 
       16.44        22.26        28.54        10.78        36.66        48.69 
TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 
        5.72        27.52         0.10         6.67        11.54        40.11 
TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 
        0.13         0.03        16.54         3.75        17.42         6.54 
TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 
       24.26         6.38        40.34        75.19        95.93       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
        4.57        17.29         3.16        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       57.60         0.23        14.27         0.16        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 
       44.68         6.05        42.74         0.10        31.69        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
        0.10         0.10         2.96        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 
       39.48        19.23        39.09         0.23        50.63         0.49 
TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
       23.61        37.15         0.33         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 
       35.47         3.72        11.28        31.43         1.64        16.24 
TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 
        9.40        63.55         0.10        37.87        33.01        12.23 
TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 
        6.25         0.10         0.46         2.50         5.56        13.78 
TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS 
        0.23        29.59        34.19        28.27        15.72         0.23 
TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB 
       26.04         0.13        20.22         0.07        27.35         0.10 
TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 
        5.33         2.70        16.93         1.81        16.14        16.83 
TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L 
       17.52        17.65         2.43        10.52        15.35        11.05 
TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 
        0.10        56.58        45.44        41.49        68.32        69.27 
TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ 
       35.44        39.75        40.01        42.54        24.92        31.63 
TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 
       12.76        28.87        20.71        19.00        14.40        14.40 
TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 
        0.23         6.71         7.99         2.37         2.30         9.44 
TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X 
        5.88         7.96         7.59         0.23        10.42        13.25 
TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 
       11.64        10.95         9.01        13.61         9.60         7.56 
TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R 
       12.23        19.20         3.45         2.37         4.41        15.16 
TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU 
        2.53        12.62        15.85        14.04        19.33        14.83 
TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 
       14.53        13.61        12.23        13.41         9.17        10.29 
TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC 
       14.53        16.34        16.73         1.91        16.50        16.70 
TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X 
       11.08        12.99        88.83        94.03        32.65        30.87 
TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
        5.46         9.90        28.08         2.07        19.59        30.67 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ 
       87.12        18.77        41.10        40.93        35.38        36.82 
TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       24.39        25.81        29.85        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       95.93         5.85       123.65        75.25       135.22        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO 
       38.56        84.99        31.10        19.86        26.47        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.64        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       18.54        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       30.05        98.63        31.59        18.71        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       48.33        49.32        34.78        65.39        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       59.05        40.64        30.44        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       36.69        33.73        31.20        30.05        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 
       33.93        61.41        26.99        31.36        45.93        43.20 
TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH 
       13.51         0.10         7.89        39.16        20.02        23.47 
TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K 
       37.05        16.01        23.21         8.05        51.06        13.32 
TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D 
       43.96        39.88        43.40        45.80        46.88        37.71 
TCGA-WY-A85E TCGA-06-0209 TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 
       20.81         7.63        11.77         4.73        18.35        23.18 
TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0016 TCGA-02-0021 
       10.59        35.41        20.71        82.59        87.06        77.65 
TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 
       20.12        53.10        42.74        24.59        12.16        90.58 
TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 
        2.83        14.14         3.62        10.72        10.52        18.31 
TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 
        6.87        14.73         3.22        15.09        12.59         6.54 
TCGA-02-0055 TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 
        2.50        19.86         8.35         9.57         6.02        19.73 
TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 
       26.43        28.70        25.05         5.49        10.19        20.84 
TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 
       27.25        89.72        22.72        12.62        51.32         8.81 
TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0106 
       57.76        16.96         3.48        27.02        65.00        11.67 
TCGA-02-0107 TCGA-02-0111 TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 
       17.65        23.18        92.65        99.98        15.65        48.95 
TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 TCGA-02-0281 
       16.54        16.93        17.72        10.75        14.47         3.98 
TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 
       13.87        14.20        15.95        12.23         9.90         7.73 
TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 
       10.62         7.33        15.91        25.71         4.37        25.12 
TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 
       10.59        12.39        14.50        10.55        47.11        11.34 
TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 
        9.27        16.21         3.35        16.80        12.92        15.32 
TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 
       15.45        20.32         2.70         6.15        20.38        47.61 
TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 TCGA-06-0132 
        6.94         3.98        22.72        33.67        12.95        25.35 
TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 
       14.30        26.70        24.23        11.90         0.20        10.29 
TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 
        2.20        11.74         2.33        20.09        17.79        10.09 
TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 
        8.61        19.46        46.59        12.33        13.94        10.45 
TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 
        3.19        10.82         9.44        11.80         3.42        56.91 
TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 
       10.65         5.85        19.66         3.29        13.12         4.47 
TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 
        3.22         4.04        91.00         4.18        88.14        20.25 
TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 
        3.65        69.90        73.84        27.22        44.58        15.42 
TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 
       10.42        38.96         4.67         7.40         5.56         0.39 
TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 
        7.66         8.42         7.40        11.84         0.53        15.02 
TCGA-06-0216 TCGA-06-0219 TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 
       24.16         0.72        13.64        13.32        20.42        48.69 
TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 TCGA-06-0412 TCGA-06-0413 
       10.82         9.01         0.26        72.36         9.57         3.16 
TCGA-06-0414 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 
       35.11        12.62         5.75         5.75         9.80         2.10 
TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 
       23.57        14.20        26.40        46.88         7.86         2.70 
TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 
        2.70         0.92        43.46        46.19         7.17        40.41 
TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1087 
       16.57        20.78        26.76        23.93         6.84         4.04 
TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 
       26.79        11.84        15.32        13.61        33.90         1.08 
TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 
       12.49         4.93        17.65        12.56        30.64         5.95 
TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 
       16.64         5.98         4.37         0.43        31.50         7.79 
TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 
        5.39       120.56         7.36        22.68        37.84         4.18 
TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 
      115.86         1.74         8.42        25.71        12.16         9.80 
TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 
       29.23        65.33         1.28         8.42        17.95        24.56 
TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 
       31.10        37.58        22.29         3.39        12.23        14.93 
TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 TCGA-08-0510 
       18.02        15.35        13.97         0.72        12.56         4.27 
TCGA-08-0512 TCGA-08-0514 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 
       42.15        11.08        58.68        19.33        10.75         4.80 
TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 
        7.27        15.98        18.41         7.56        14.73        12.99 
TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 
       34.92        10.45         7.59        94.78         0.10        38.17 
TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 
       25.97        26.66        12.13         3.65        20.38        28.41 
TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 
       15.06        53.85        43.23         7.63         9.73        14.93 
TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 
       14.86        91.76        24.79        18.48        10.62        23.51 
TCGA-12-0826 TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 
       27.78        38.76         8.94        20.58       127.59         5.82 
TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 
        7.59        33.21        15.98        12.23        15.85         9.11 
TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 
       14.53         3.98         4.14         2.24        11.24         1.35 
TCGA-14-0817 TCGA-14-0867 TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 
        5.39         2.04        28.93        19.30         0.79        13.78 
TCGA-15-1444 TCGA-15-1446 TCGA-15-1447 TCGA-15-1449 TCGA-16-0846 TCGA-16-0849 
       50.53        19.10        53.19        13.28         3.91        26.07 
TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 
       16.37        11.77        21.90         0.66        10.75         9.07 
TCGA-19-1387 TCGA-19-1388 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 
        5.95        12.95         4.64        31.33        14.86         5.49 
TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 
        1.58         7.92         2.33         7.30         5.26        14.93 
TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 
       11.28        17.88        14.53        11.77        31.27        23.44 
TCGA-28-5215 TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 
       11.01        13.64         5.16        22.68        12.76         5.42 
TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 
        7.36        11.38         5.42         3.75         1.61        17.72 
TCGA-87-5896 
       26.30 

  7Q LOSS MUTATED 7Q LOSS WILD-TYPE 
             1.28              0.03 
  7Q LOSS MUTATED 7Q LOSS WILD-TYPE 
            62.17            211.17 
  7Q LOSS MUTATED 7Q LOSS WILD-TYPE 
            19.82             15.98 
[1] "1.3 - 62.2 (19.8)"  "0.0 - 211.2 (16.0)"
[1] "hr=" "1"  
D55V2, continuous
D55V3, binary
                   cls
clus                  0   1
  7Q LOSS MUTATED     5   4
  7Q LOSS WILD-TYPE 568 508
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7Q LOSS MUTATED      5    4
  7Q LOSS WILD-TYPE  568  508
                        clus
vv                       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  BRAIN                                5               568
  CENTRAL NERVOUS SYSTEM               4               508
[1] 2 2
[1] FALSE
D55V4, binary
                   cls
clus                  0   1
  7Q LOSS MUTATED     3   6
  7Q LOSS WILD-TYPE 450 626
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7Q LOSS MUTATED      3    6
  7Q LOSS WILD-TYPE  450  626
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  FEMALE               3               450
  MALE                 6               626
[1] 2 2
[1] FALSE
D55V5, binary
                   cls
clus                  0   1
  7Q LOSS MUTATED     1   7
  7Q LOSS WILD-TYPE 257 763
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7Q LOSS MUTATED      1    7
  7Q LOSS WILD-TYPE  257  763
     clus
vv    7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  NO                1               257
  YES               7               763
[1] 2 2
[1] FALSE
D55V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  7Q LOSS MUTATED             3                             0                0
  7Q LOSS WILD-TYPE         191                            30              129
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  7Q LOSS MUTATED                   1                   0
  7Q LOSS WILD-TYPE               188                  18
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  7Q LOSS MUTATED                                 5
  7Q LOSS WILD-TYPE                             520
D55V7, multiclass
                                 clus
vv                                7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  ASTROCYTOMA                                   3               191
  GLIOBLASTOMA MULTIFORME (GBM)                 0                30
  OLIGOASTROCYTOMA                              0               129
  OLIGODENDROGLIOMA                             1               188
  TREATED PRIMARY GBM                           0                18
  UNTREATED PRIMARY (DE NOVO) GBM               5               520
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  7Q LOSS MUTATED                                  0     0
  7Q LOSS WILD-TYPE                                1    21
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  7Q LOSS MUTATED                           1     8
  7Q LOSS WILD-TYPE                        70   951
D55V8, multiclass
                                  clus
vv                                 7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          0                21
  BLACK OR AFRICAN AMERICAN                      1                70
  WHITE                                          8               951
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D55V9, binary
                   cls
clus                  0   1
  7Q LOSS MUTATED     0   8
  7Q LOSS WILD-TYPE  44 913
[1] "tbl2"
                   cls
clus                [,1] [,2]
  7Q LOSS MUTATED      0    8
  7Q LOSS WILD-TYPE   44  913
                        clus
vv                       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  HISPANIC OR LATINO                   0                44
  NOT HISPANIC OR LATINO               8               913
[1] 2 2
[1] FALSE

Clustering(56) Variable = 8P LOSS MUTATION ANALYSIS
D56V1, survival
                   sevent
clus2                 0   1
  8P LOSS MUTATED    22  52
  8P LOSS WILD-TYPE 458 546
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
               74              1004 
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
               52               546 
$`8P LOSS MUTATED`
TCGA-DH-A66B TCGA-06-5408 TCGA-06-5411 TCGA-06-5413 TCGA-12-1598 TCGA-14-0736 
       42.05        11.74         8.35         8.81        15.65        15.12 
TCGA-14-0862 TCGA-14-1034 TCGA-14-1450 TCGA-14-1794 TCGA-14-1823 TCGA-16-1063 
        2.89        15.95        58.78         0.99        17.85        13.97 
TCGA-19-0960 TCGA-19-1786 TCGA-26-1439 TCGA-26-5136 TCGA-27-2524 TCGA-28-1750 
        8.61         7.17        13.87        18.97         7.59         8.35 
TCGA-28-2502 TCGA-28-2509 TCGA-32-4208 TCGA-32-4210 TCGA-32-4719 TCGA-41-3915 
        0.66         4.77        21.14         3.72        10.85        11.84 
TCGA-74-6584 TCGA-76-4934 TCGA-DB-5277 TCGA-DH-5140 TCGA-DU-7006 TCGA-DU-8165 
        7.50         2.53        50.86        19.96        11.47        19.13 
TCGA-DU-A7TJ TCGA-E1-5304 TCGA-E1-A7YQ TCGA-E1-A7YV TCGA-HT-7688 TCGA-HT-8564 
        0.56        41.13        51.88        32.45        31.69        15.72 
TCGA-HT-A4DS TCGA-P5-A5F6 TCGA-QH-A6CV TCGA-S9-A6WM TCGA-TQ-A7RR TCGA-02-0001 
        0.23         1.28        14.53        19.86        25.87        11.77 
TCGA-02-0025 TCGA-02-0059 TCGA-02-0060 TCGA-02-0086 TCGA-02-0106 TCGA-02-0111 
       42.74         9.57         6.02         8.81        11.67        23.18 
TCGA-02-0115 TCGA-02-0281 TCGA-02-0324 TCGA-02-0430 TCGA-02-2486 TCGA-06-0159 
       15.65         3.98         7.73        10.55        20.32         9.44 
TCGA-06-0171 TCGA-06-0195 TCGA-06-0216 TCGA-06-0410 TCGA-06-0743 TCGA-06-2570 
       13.12         7.40        24.16         4.70        26.40        31.50 
TCGA-06-6693 TCGA-08-0246 TCGA-08-0392 TCGA-08-0510 TCGA-08-0525 TCGA-12-0776 
      120.56         4.18         0.72         4.27        15.98         9.73 
TCGA-12-0826 TCGA-12-0827 TCGA-12-1098 TCGA-15-1447 TCGA-16-0846 TCGA-19-1385 
       27.78        38.76         3.98        53.19         3.91        10.75 
TCGA-28-2514 TCGA-28-5204 
        5.26        14.93 

$`8P LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       62.01        17.16        23.90        20.09        17.82        20.45 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 
       18.64        21.40        45.60        42.77        59.38        15.32 
TCGA-06-5410 TCGA-06-5412 TCGA-06-5414 TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 
        3.55         4.54         8.98         8.55         6.71         2.73 
TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 
        3.75         6.15         4.57         5.23         8.32        12.85 
TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 
        4.77         1.55         4.77         4.96        26.79         1.87 
TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 
        3.12         2.56        14.60        17.72        15.35        21.73 
TCGA-12-1599 TCGA-12-1600 TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 
       25.68        14.73         6.77        59.77        44.02        26.93 
TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 
       15.22        10.95        12.69        34.92        14.53        14.93 
TCGA-12-5299 TCGA-12-5301 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 
        3.22         2.04        11.97         0.95         6.21        23.05 
TCGA-14-0790 TCGA-14-0812 TCGA-14-0865 TCGA-14-0866 TCGA-14-1395 TCGA-14-1396 
       13.78         3.25        16.50        26.33         1.38         1.12 
TCGA-14-1401 TCGA-14-1402 TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 TCGA-14-1454 
        3.75        32.05        23.11         7.10         1.15        30.18 
TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1795 TCGA-14-1821 
        0.92        40.96         6.67        12.43         1.97        17.79 
TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-3477 
        7.63         5.88         7.17        17.49         7.96         3.78 
TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 
        3.42        17.59        29.03         4.57        10.29        14.01 
TCGA-16-1060 TCGA-16-1062 TCGA-16-1460 TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 
        9.14        21.24         6.41        14.27         3.39        25.38 
TCGA-19-1392 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 
        3.65        12.66         3.25         0.13         9.67         4.87 
TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 
        1.08         7.53         0.16         4.08        24.23         7.00 
TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 
        7.04         6.64        17.19         8.02        18.90         4.73 
TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 
       12.10         1.78        22.49        14.07        16.80        14.96 
TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 
       17.79        28.54        10.03         9.73         7.13         9.37 
TCGA-26-5132 TCGA-26-5135 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 
        9.40         8.88        19.33         5.06        16.60         9.86 
TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 
       24.23        40.54        21.30        30.05        14.04        11.51 
TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 TCGA-27-2526 TCGA-27-2527 
       24.76        18.08        16.77        16.08         2.86        14.40 
TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 TCGA-28-1751 TCGA-28-1752 
       15.78         0.20         2.53         9.21         7.63         8.48 
TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2506 TCGA-32-1970 
        1.22         1.55         2.83         0.13         6.74        15.39 
TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 
       21.07         0.49         0.10        15.85        19.50         1.18 
TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 
        4.67        12.69        14.86        16.93        12.23        20.78 
TCGA-32-2495 TCGA-32-2615 TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 TCGA-32-4211 
       15.02        15.95         8.84        22.78        25.18        12.59 
TCGA-32-4213 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 
       19.86        19.23         0.85        13.35         8.94         9.53 
TCGA-41-3392 TCGA-41-3393 TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R 
        0.99         4.44         0.20        15.12        12.46         4.08 
TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 
        1.45        25.58         3.45        20.91         4.34        14.33 
TCGA-74-6581 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 
        8.22         4.80         4.54         3.09         3.65         9.17 
TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 
       36.85        16.70         3.29         2.70        17.06         8.35 
TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 
       20.98         4.83         5.03        23.90        34.45        18.64 
TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 
       36.20         5.92         6.28        20.55       117.50         7.69 
TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 
       43.89        36.36        60.10        40.18         0.26        21.01 
TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 
       53.62         6.38        17.69        26.76        37.38        46.95 
TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 
       48.30        49.94        49.12       122.73        81.96        75.25 
TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       47.93        72.92        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       46.42        18.84        30.21        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5142 
       12.10        11.24        17.88        30.74        16.18        63.88 
TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G 
       46.06        24.59        30.21        27.81        17.19        17.19 
TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 
       54.25        23.21        17.46        13.71        18.61        18.02 
TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 
       14.56        17.46         6.74        13.38         8.45         6.81 
TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 
      182.33        18.94        17.49        15.16       211.17        52.11 
TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 
       22.42        49.02        75.16        46.06        65.75         1.22 
TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 
       87.45         7.04        11.64       133.74        19.89        16.83 
TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7007 TCGA-DU-7008 
       94.52       114.08         7.96         2.40        62.96       156.23 
TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 
      154.36        14.99       105.21         6.54         8.84       117.40 
TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 
       90.77        30.67        26.30        10.36         7.96        94.32 
TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 
       18.94        44.02        25.91        60.30        23.31        41.98 
TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 
        2.76         5.10        23.74        14.60        20.68        21.40 
TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS 
       16.96        15.48        14.17        33.27        29.85        31.69 
TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 
       24.43        26.17        24.99        33.96        25.55        21.57 
TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R 
       95.11        20.98        22.29        11.41        26.76        21.30 
TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       17.98       139.04        84.33        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-DU-A7TI TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5305 TCGA-E1-5307 
       44.42        38.89        50.14        67.46        79.99        57.93 
TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE 
      134.27        78.21        95.57       130.78        14.30        29.13 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       93.21         3.65        19.46        12.43        16.18        21.30 
TCGA-E1-A7YO TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 
       75.02        15.32         0.76        36.82       146.14        13.08 
TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 
       73.48       145.05        32.35        39.48         0.23         0.20 
TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 
       47.77        25.48        52.21        36.82        18.77        14.93 
TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 
       42.54        41.33        18.44        15.35        17.88        22.55 
TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 
       20.61        20.09        28.34        13.68        14.24        16.01 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       14.96        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 
       18.71        23.70        14.76        21.53        15.02        16.44 
TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q 
       22.26        28.54        10.78        36.66        48.69         5.72 
TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 
       27.52         0.10         6.67        11.54        40.11         0.13 
TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 
        0.03        16.54         3.75        17.42         6.54        24.26 
TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 
        6.38        40.34        75.19        95.93       106.95       172.77 
TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 
        4.01         5.03        29.85        23.18       122.47         4.57 
TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 
       17.29         3.16        22.06        45.99        56.09        57.60 
TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
        0.23        14.27         0.16        16.24         0.76        44.68 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 
        6.05        42.74         0.10        14.96         0.10         0.10 
TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 
        2.96        17.52         6.90        14.53        39.48        19.23 
TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 
       39.09         0.23        50.63         0.49        23.61        37.15 
TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 
        0.33         0.13         3.68         5.33        35.47         3.72 
TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 
       11.28        31.43         1.64        16.24         9.40        63.55 
TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 
        0.10        37.87        33.01        12.23         6.25         0.10 
TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 
        0.46         2.50         5.56        13.78         0.23        29.59 
TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 
       34.19        28.27        26.04         0.13        20.22         0.07 
TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 
       27.35         0.10         5.33         2.70        16.93         1.81 
TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J 
       16.14        16.83        17.52        17.65         2.43        10.52 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 
       15.35        11.05         0.10        56.58        45.44        41.49 
TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       68.32        69.27        35.44        39.75        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 
       24.92        31.63        12.76        28.87        20.71        19.00 
TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY 
       14.40        14.40         0.23         6.71         7.99         2.37 
TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A72U 
        2.30         9.44         5.88         7.96         7.59         0.23 
TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 
       10.42        13.25        11.64        10.95         9.01        13.61 
TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 
        9.60         7.56        12.23        19.20         3.45         2.37 
TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z 
        4.41        15.16         2.53        12.62        15.85        14.04 
TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ 
       19.33        14.83        13.61        12.23        13.41         9.17 
TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA 
       10.29        14.53        16.34        16.73         1.91        16.50 
TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO 
       16.70        11.08        12.99        88.83        94.03        32.65 
TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 
       30.87         5.46         9.90        28.08         2.07        19.59 
TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX 
       30.67        62.17        87.12        18.77        41.10        40.93 
TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 
       35.38        36.82        24.39        25.81        29.85        32.61 
TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD 
       35.15        98.24        95.93         5.85       123.65        75.25 
TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WN 
      135.22        85.55        38.56        84.99        31.10        26.47 
TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX 
       18.61        18.64        14.07        36.13         7.92        26.93 
TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       23.51        19.99        20.02         8.19         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 
       15.06        18.54        28.37        27.16       169.84        10.39 
TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z 
       99.06        30.05        98.63        31.59        18.71        20.48 
TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B 
       54.77        48.33        49.32        34.78        65.39        24.92 
TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J 
       16.18        59.05        40.64        30.44        28.08        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ 
       23.80        21.37        19.69        15.98         2.04        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ 
       44.09        36.69        33.73        31.20        30.05        26.14 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 
       33.93        61.41        26.99        31.36        45.93        43.20 
TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH 
       13.51         0.10         7.89        39.16        20.02        23.47 
TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K 
       37.05        16.01        23.21         8.05        51.06        13.32 
TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D 
       43.96        39.88        43.40        45.80        46.88        37.71 
TCGA-WY-A85E TCGA-06-0209 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 
       20.81         7.63         4.73        18.35        23.18        10.59 
TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 
       35.41        20.71        82.59        20.61        87.06        77.65 
TCGA-02-0023 TCGA-02-0024 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 
       20.12        53.10        24.59        12.16        90.58         2.83 
TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 
       14.14         3.62        10.72        10.52        18.31         6.87 
TCGA-02-0047 TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0055 
       14.73         3.22        15.09        12.59         6.54         2.50 
TCGA-02-0057 TCGA-02-0058 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 
       19.86         8.35        19.73        26.43        28.70        25.05 
TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 
        5.49        10.19        20.84        27.25        89.72        22.72 
TCGA-02-0084 TCGA-02-0085 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 
       12.62        51.32        57.76        16.96         3.48        27.02 
TCGA-02-0104 TCGA-02-0107 TCGA-02-0113 TCGA-02-0114 TCGA-02-0116 TCGA-02-0258 
       65.00        17.65        92.65        99.98        48.95        16.54 
TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 TCGA-02-0285 TCGA-02-0289 
       16.93        17.72        10.75        14.47        13.87        14.20 
TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 
       15.95        12.23         9.90        10.62         7.33        15.91 
TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 
       25.71         4.37        25.12        10.59        12.39        14.50 
TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 
       47.11        11.34         9.27        16.21         3.35        16.80 
TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 
       12.92        15.32        15.45         2.70         6.15        20.38 
TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 
       47.61         6.94         3.98        22.72        33.67        12.95 
TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 
       25.35        14.30        26.70        24.23        11.90         0.20 
TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 
       10.29         2.20        11.74         2.33        20.09        17.79 
TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 
       10.09         8.61        19.46        46.59        12.33        13.94 
TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 
       10.45         3.19        10.82        11.80         3.42        56.91 
TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0173 TCGA-06-0174 
       10.65         5.85        19.66         3.29         4.47         3.22 
TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 
        4.04        91.00         4.18        88.14        20.25         3.65 
TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 TCGA-06-0190 
       69.90        73.84        27.22        44.58        15.42        10.42 
TCGA-06-0192 TCGA-06-0194 TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 
       38.96         4.67         5.56         0.39         7.66         8.42 
TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 TCGA-06-0219 TCGA-06-0221 
        7.40        11.84         0.53        15.02         0.72        19.82 
TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 
       13.64        13.32        20.42        48.69        10.82         9.01 
TCGA-06-0402 TCGA-06-0409 TCGA-06-0412 TCGA-06-0413 TCGA-06-0414 TCGA-06-0644 
        0.26        72.36         9.57         3.16        35.11        12.62 
TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 
        5.75         5.75         9.80         2.10        23.57        14.20 
TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 
       46.88         7.86         2.70         2.70         0.92        43.46 
TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 
       46.19         7.17        40.41        16.57        20.78        26.76 
TCGA-06-1084 TCGA-06-1086 TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 
       23.93         6.84         4.04        26.79        11.84        15.32 
TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 
       13.61        33.90         1.08        12.49         4.93        17.65 
TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 
       12.56        30.64         5.95        16.64         5.98         4.37 
TCGA-06-2569 TCGA-06-6389 TCGA-06-6390 TCGA-06-6694 TCGA-08-0244 TCGA-08-0245 
        0.43         7.79         5.39         7.36        22.68        37.84 
TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 
      115.86         1.74         8.42        25.71        12.16         9.80 
TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 
       29.23        65.33         1.28         8.42        17.95        24.56 
TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 
       31.10        37.58        22.29         3.39        12.23        14.93 
TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 TCGA-08-0509 TCGA-08-0512 TCGA-08-0514 
       18.02        15.35        13.97        12.56        42.15        11.08 
TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 
       19.59        58.68        19.33        10.75         4.80         7.27 
TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 
       18.41         7.56        14.73        12.99        34.92        10.45 
TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 
        7.59        94.78         0.10        38.17        25.97        26.66 
TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 
       12.13         3.65        20.38        28.41        15.06        53.85 
TCGA-12-0773 TCGA-12-0775 TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 
       43.23         7.63        14.93        14.86        91.76        24.79 
TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 
       18.48        10.62        23.51         8.94        20.58       127.59 
TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 
        5.82         7.59        33.21        15.98        12.23        15.85 
TCGA-12-1096 TCGA-12-1097 TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 
        9.11        14.53         4.14         2.24        11.24         1.35 
TCGA-14-0817 TCGA-14-0867 TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 
        5.39         2.04        28.93        19.30         0.79        13.78 
TCGA-15-1444 TCGA-15-1446 TCGA-15-1449 TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 
       50.53        19.10        13.28        26.07        16.37        11.77 
TCGA-19-0957 TCGA-19-0962 TCGA-19-1386 TCGA-19-1387 TCGA-19-1388 TCGA-19-1389 
       21.90         0.66         9.07         5.95        12.95         4.64 
TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 
       31.33        14.86         5.49         1.58         7.92         2.33 
TCGA-28-2513 TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 
        7.30        11.28        17.88        14.53        11.77        31.27 
TCGA-28-5214 TCGA-28-5215 TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 
       23.44        11.01        13.64         5.16        22.68        12.76 
TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 
        5.42         7.36        11.38         5.42         3.75         1.61 
TCGA-81-5911 TCGA-87-5896 
       17.72        26.30 

  8P LOSS MUTATED 8P LOSS WILD-TYPE 
             0.23              0.03 
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
           120.56            211.17 
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
           11.755            16.405 
[1] "0.2 - 120.6 (11.8)" "0.0 - 211.2 (16.4)"
[1] "hr=" "1.7"
D56V2, continuous
D56V3, binary
                   cls
clus                  0   1
  8P LOSS MUTATED    58  17
  8P LOSS WILD-TYPE 515 495
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8P LOSS MUTATED     58   17
  8P LOSS WILD-TYPE  515  495
                        clus
vv                       8P LOSS MUTATED 8P LOSS WILD-TYPE
  BRAIN                               58               515
  CENTRAL NERVOUS SYSTEM              17               495
[1] 2 2
[1] FALSE
D56V4, binary
                   cls
clus                  0   1
  8P LOSS MUTATED    35  40
  8P LOSS WILD-TYPE 418 592
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8P LOSS MUTATED     35   40
  8P LOSS WILD-TYPE  418  592
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  FEMALE              35               418
  MALE                40               592
[1] 2 2
[1] FALSE
D56V5, binary
                   cls
clus                  0   1
  8P LOSS MUTATED     8  62
  8P LOSS WILD-TYPE 250 708
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8P LOSS MUTATED      8   62
  8P LOSS WILD-TYPE  250  708
     clus
vv    8P LOSS MUTATED 8P LOSS WILD-TYPE
  NO                8               250
  YES              62               708
[1] 2 2
[1] FALSE
D56V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  8P LOSS MUTATED             9                             1                4
  8P LOSS WILD-TYPE         185                            29              125
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  8P LOSS MUTATED                   4                   1
  8P LOSS WILD-TYPE               185                  17
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  8P LOSS MUTATED                                56
  8P LOSS WILD-TYPE                             469
D56V7, multiclass
                                 clus
vv                                8P LOSS MUTATED 8P LOSS WILD-TYPE
  ASTROCYTOMA                                   9               185
  GLIOBLASTOMA MULTIFORME (GBM)                 1                29
  OLIGOASTROCYTOMA                              4               125
  OLIGODENDROGLIOMA                             4               185
  TREATED PRIMARY GBM                           1                17
  UNTREATED PRIMARY (DE NOVO) GBM              56               469
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  8P LOSS MUTATED                                  0     6
  8P LOSS WILD-TYPE                                1    15
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  8P LOSS MUTATED                           4    60
  8P LOSS WILD-TYPE                        67   899
D56V8, multiclass
                                  clus
vv                                 8P LOSS MUTATED 8P LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          6                15
  BLACK OR AFRICAN AMERICAN                      4                67
  WHITE                                         60               899
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D56V9, binary
                   cls
clus                  0   1
  8P LOSS MUTATED     2  63
  8P LOSS WILD-TYPE  42 858
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8P LOSS MUTATED      2   63
  8P LOSS WILD-TYPE   42  858
                        clus
vv                       8P LOSS MUTATED 8P LOSS WILD-TYPE
  HISPANIC OR LATINO                   2                42
  NOT HISPANIC OR LATINO              63               858
[1] 2 2
[1] FALSE

Clustering(57) Variable = 8Q LOSS MUTATION ANALYSIS
D57V1, survival
                   sevent
clus2                 0   1
  8Q LOSS MUTATED    14  38
  8Q LOSS WILD-TYPE 466 560
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
               52              1026 
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
               38               560 
$`8Q LOSS MUTATED`
TCGA-06-5408 TCGA-06-5411 TCGA-06-5413 TCGA-12-1598 TCGA-14-0736 TCGA-14-1034 
       11.74         8.35         8.81        15.65        15.12        15.95 
TCGA-14-1450 TCGA-14-1794 TCGA-14-1823 TCGA-26-1439 TCGA-26-5136 TCGA-28-1750 
       58.78         0.99        17.85        13.87        18.97         8.35 
TCGA-28-2502 TCGA-28-2509 TCGA-32-4210 TCGA-32-4719 TCGA-41-3915 TCGA-74-6584 
        0.66         4.77         3.72        10.85        11.84         7.50 
TCGA-76-4934 TCGA-DH-5140 TCGA-DU-7006 TCGA-DU-8165 TCGA-E1-5304 TCGA-E1-A7YQ 
        2.53        19.96        11.47        19.13        41.13        51.88 
TCGA-HT-8564 TCGA-HT-A4DS TCGA-P5-A5F6 TCGA-QH-A6CV TCGA-S9-A6WM TCGA-TQ-A7RR 
       15.72         0.23         1.28        14.53        19.86        25.87 
TCGA-02-0001 TCGA-02-0025 TCGA-02-0059 TCGA-02-0086 TCGA-02-0115 TCGA-02-0281 
       11.77        42.74         9.57         8.81        15.65         3.98 
TCGA-02-0324 TCGA-02-2486 TCGA-06-0159 TCGA-06-0171 TCGA-06-0195 TCGA-06-0216 
        7.73        20.32         9.44        13.12         7.40        24.16 
TCGA-06-0410 TCGA-06-0743 TCGA-08-0246 TCGA-08-0392 TCGA-08-0510 TCGA-08-0525 
        4.70        26.40         4.18         0.72         4.27        15.98 
TCGA-12-0776 TCGA-12-0826 TCGA-16-0846 TCGA-28-2514 
        9.73        27.78         3.91         5.26 

$`8Q LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K 
       42.05        62.01        17.16        23.90        20.09        17.82 
TCGA-FG-A713 TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M 
       20.45        18.64        21.40        45.60        42.77        59.38 
TCGA-06-1806 TCGA-06-5410 TCGA-06-5412 TCGA-06-5414 TCGA-06-5415 TCGA-06-5416 
       15.32         3.55         4.54         8.98         8.55         6.71 
TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 
        2.73         3.75         6.15         4.57         5.23         8.32 
TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 
       12.85         4.77         1.55         4.77         4.96        26.79 
TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 
        1.87         3.12         2.56        14.60        17.72        15.35 
TCGA-12-1092 TCGA-12-1599 TCGA-12-1600 TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 
       21.73        25.68        14.73         6.77        59.77        44.02 
TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 
       26.93        15.22        10.95        12.69        34.92        14.53 
TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 
       14.93         3.22         2.04        11.97         0.95         6.21 
TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 
       23.05        13.78         3.25         2.89        16.50        26.33 
TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1451 TCGA-14-1452 
        1.38         1.12         3.75        32.05        23.11         7.10 
TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 
        1.15        30.18         0.92        40.96         6.67        12.43 
TCGA-14-1795 TCGA-14-1821 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 
        1.97        17.79         7.63         5.88         7.17        17.49 
TCGA-14-2555 TCGA-14-3477 TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 
        7.96         3.78         3.42        17.59        29.03         4.57 
TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 
       10.29        14.01         9.14        21.24        13.97         6.41 
TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 TCGA-19-1392 TCGA-19-1786 
        8.61        14.27         3.39        25.38         3.65         7.17 
TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 
       12.66         3.25         0.13         9.67         4.87         1.08 
TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 
        7.53         0.16         4.08        24.23         7.00         7.04 
TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 
        6.64        17.19         8.02        18.90         4.73        12.10 
TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I 
        1.78        22.49        14.07        16.80        14.96        17.79 
TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 
       28.54        10.03         9.73         7.13         9.37         9.40 
TCGA-26-5135 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 
        8.88        19.33         5.06        16.60         9.86        24.23 
TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 
       40.54        21.30        30.05        14.04        11.51        24.76 
TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 
       18.08        16.77        16.08         7.59         2.86        14.40 
TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 TCGA-28-1751 TCGA-28-1752 
       15.78         0.20         2.53         9.21         7.63         8.48 
TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2506 TCGA-32-1970 
        1.22         1.55         2.83         0.13         6.74        15.39 
TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 
       21.07         0.49         0.10        15.85        19.50         1.18 
TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 
        4.67        12.69        14.86        16.93        12.23        20.78 
TCGA-32-2495 TCGA-32-2615 TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 
       15.02        15.95         8.84        22.78        25.18        21.14 
TCGA-32-4211 TCGA-32-4213 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 
       12.59        19.86        19.23         0.85        13.35         8.94 
TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 
        9.53         0.99         4.44         0.20        15.12        12.46 
TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 
        4.08         1.45        25.58         3.45        20.91         4.34 
TCGA-74-6578 TCGA-74-6581 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 
       14.33         8.22         4.80         4.54         3.09         3.65 
TCGA-76-4931 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 
        9.17        36.85        16.70         3.29         2.70        17.06 
TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 
        8.35        20.98         4.83         5.03        23.90        34.45 
TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 
       18.64        36.20         5.92         6.28        20.55       117.50 
TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 
        7.69        43.89        36.36        60.10        40.18         0.26 
TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 
       21.01        53.62         6.38        17.69        26.76        37.38 
TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 
       46.95        48.30        49.94        49.12       122.73        81.96 
TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 
       75.25        47.93        72.92        50.86        91.13        44.52 
TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD 
       36.56        78.28        46.42        18.84        30.21        39.78 
TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O 
       37.45        33.57        72.95        31.63        24.20        25.48 
TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V 
       30.12         5.98        31.40        27.45        27.81        29.23 
TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O 
       14.40        18.51        12.10        11.24        17.88        30.74 
TCGA-DB-A75P TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D 
       16.18        63.88        46.06        24.59        30.21        27.81 
TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU 
       17.19        17.19        54.25        23.21        17.46        13.71 
TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 
       18.61        18.02        14.56        17.46         6.74        13.38 
TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 
        8.45         6.81       182.33        18.94        17.49        15.16 
TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 
      211.17        52.11        22.42        49.02        75.16        46.06 
TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       65.75         1.22        87.45         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 
       19.89        16.83        94.52       114.08         7.96         2.40 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 
       62.96       156.23       154.36        14.99       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        8.84       117.40        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 
        7.96        94.32        18.94        44.02        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP 
       20.68        21.40        16.96        15.48        14.17        33.27 
TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY 
       29.85        31.69        24.43        26.17        24.99        33.96 
TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K 
       25.55        21.57        95.11        20.98        22.29        11.41 
TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB 
       26.76        21.30        17.98       139.04        84.33        51.52 
TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 
       37.38         7.50        44.42        38.89         0.56        50.14 
TCGA-E1-5303 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 
       67.46        79.99        57.93       134.27        78.21        95.57 
TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ 
      130.78        14.30        29.13        93.21         3.65        19.46 
TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YS TCGA-E1-A7YU 
       12.43        16.18        21.30        75.02        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       18.44        15.35        17.88        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 
       28.34        13.68        14.24        16.01        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY 
       32.61        38.27        10.72        18.38        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y 
       14.76        21.53        15.02        16.44        22.26        28.54 
TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 
       10.78        36.66        48.69         5.72        27.52         0.10 
TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 
        6.67        11.54        40.11         0.13         0.03        16.54 
TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 
        3.75        17.42         6.54        24.26         6.38        40.34 
TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 
       75.19        95.93       106.95       172.77         4.01         5.03 
TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 
       29.85        23.18       122.47         4.57        17.29         3.16 
TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 
       22.06        45.99        56.09        57.60         0.23        14.27 
TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 
        0.16        16.24         0.76        44.68         6.05        42.74 
TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 
        0.10        31.69        14.96         0.10         0.10         2.96 
TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 
       17.52         6.90        14.53        39.48        19.23        39.09 
TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 
        0.23        50.63         0.49        23.61        37.15         0.33 
TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 
        0.13         3.68         5.33        35.47         3.72        11.28 
TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 
       31.43         1.64        16.24         9.40        63.55         0.10 
TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 
       37.87        33.01        12.23         6.25         0.10         0.46 
TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 
        2.50         5.56        13.78         0.23        29.59        34.19 
TCGA-HT-8563 TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA 
       28.27        26.04         0.13        20.22         0.07        27.35 
TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 
        0.10         5.33         2.70        16.93         1.81        16.14 
TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K 
       16.83        17.52        17.65         2.43        10.52        15.35 
TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 
       11.05         0.10        56.58        45.44        41.49        68.32 
TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 
       69.27        35.44        39.75        40.01        42.54        24.92 
TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X 
       31.63        12.76        28.87        20.71        19.00        14.40 
TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ 
       14.40         0.23         6.71         7.99         2.37         2.30 
TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A72U TCGA-P5-A72W 
        9.44         5.88         7.96         7.59         0.23        10.42 
TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 
       13.25        11.64        10.95         9.01        13.61         9.60 
TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 
        7.56        12.23        19.20         3.45         2.37         4.41 
TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS 
       15.16         2.53        12.62        15.85        14.04        19.33 
TCGA-QH-A6CU TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 
       14.83        13.61        12.23        13.41         9.17        10.29 
TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC 
       14.53        16.34        16.73         1.91        16.50        16.70 
TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X 
       11.08        12.99        88.83        94.03        32.65        30.87 
TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
        5.46         9.90        28.08         2.07        19.59        30.67 
TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY 
       62.17        87.12        18.77        41.10        40.93        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       36.82        24.39        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE 
       98.24        95.93         5.85       123.65        75.25       135.22 
TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WN TCGA-S9-A6WO 
       85.55        38.56        84.99        31.10        26.47        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.64        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       18.54        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       30.05        98.63        31.59        18.71        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       48.33        49.32        34.78        65.39        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       59.05        40.64        30.44        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RU 
       36.69        33.73        31.20        30.05        26.14        33.93 
TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA 
       61.41        26.99        31.36        45.93        43.20        13.51 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 
        0.10         7.89        39.16        20.02        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       16.01        23.21         8.05        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 
TCGA-06-0209 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 
        7.63         4.73        18.35        23.18        10.59        35.41 
TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 
       20.71        82.59        20.61        87.06        77.65        20.12 
TCGA-02-0024 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 
       53.10        24.59        12.16        90.58         2.83        14.14 
TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 
        3.62        10.72        10.52        18.31         6.87        14.73 
TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0055 TCGA-02-0057 
        3.22        15.09        12.59         6.54         2.50        19.86 
TCGA-02-0058 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 
        8.35         6.02        19.73        26.43        28.70        25.05 
TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 
        5.49        10.19        20.84        27.25        89.72        22.72 
TCGA-02-0084 TCGA-02-0085 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 
       12.62        51.32        57.76        16.96         3.48        27.02 
TCGA-02-0104 TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 TCGA-02-0113 TCGA-02-0114 
       65.00        11.67        17.65        23.18        92.65        99.98 
TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 
       48.95        16.54        16.93        17.72        10.75        14.47 
TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0325 
       13.87        14.20        15.95        12.23         9.90        10.62 
TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 
        7.33        15.91        25.71         4.37        25.12        10.59 
TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 
       12.39        14.50        10.55        47.11        11.34         9.27 
TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 
       16.21         3.35        16.80        12.92        15.32        15.45 
TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 
        2.70         6.15        20.38        47.61         6.94         3.98 
TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 
       22.72        33.67        12.95        25.35        14.30        26.70 
TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 
       24.23        11.90         0.20        10.29         2.20        11.74 
TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 
        2.33        20.09        17.79        10.09         8.61        19.46 
TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 
       46.59        12.33        13.94        10.45         3.19        10.82 
TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 
       11.80         3.42        56.91        10.65         5.85        19.66 
TCGA-06-0169 TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 
        3.29         4.47         3.22         4.04        91.00         4.18 
TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 
       88.14        20.25         3.65        69.90        73.84        27.22 
TCGA-06-0188 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0197 
       44.58        15.42        10.42        38.96         4.67         5.56 
TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 
        0.39         7.66         8.42         7.40        11.84         0.53 
TCGA-06-0214 TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 
       15.02         0.72        19.82        13.64        13.32        20.42 
TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 TCGA-06-0412 
       48.69        10.82         9.01         0.26        72.36         9.57 
TCGA-06-0413 TCGA-06-0414 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 
        3.16        35.11        12.62         5.75         5.75         9.80 
TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 
        2.10        23.57        14.20        46.88         7.86         2.70 
TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 
        2.70         0.92        43.46        46.19         7.17        40.41 
TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1087 
       16.57        20.78        26.76        23.93         6.84         4.04 
TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 
       26.79        11.84        15.32        13.61        33.90         1.08 
TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 
       12.49         4.93        17.65        12.56        30.64         5.95 
TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 
       16.64         5.98         4.37         0.43        31.50         7.79 
TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 TCGA-08-0245 TCGA-08-0344 
        5.39       120.56         7.36        22.68        37.84       115.86 
TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 
        1.74         8.42        25.71        12.16         9.80        29.23 
TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 
       65.33         1.28         8.42        17.95        24.56        31.10 
TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 
       37.58        22.29         3.39        12.23        14.93        18.02 
TCGA-08-0389 TCGA-08-0390 TCGA-08-0509 TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 
       15.35        13.97        12.56        42.15        11.08        19.59 
TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0529 
       58.68        19.33        10.75         4.80         7.27        18.41 
TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 
        7.56        14.73        12.99        34.92        10.45         7.59 
TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 
       94.78         0.10        38.17        25.97        26.66        12.13 
TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 
        3.65        20.38        28.41        15.06        53.85        43.23 
TCGA-12-0775 TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 
        7.63        14.93        14.86        91.76        24.79        18.48 
TCGA-12-0821 TCGA-12-0822 TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 
       10.62        23.51        38.76         8.94        20.58       127.59 
TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 
        5.82         7.59        33.21        15.98        12.23        15.85 
TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 
        9.11        14.53         3.98         4.14         2.24        11.24 
TCGA-14-0813 TCGA-14-0817 TCGA-14-0867 TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 
        1.35         5.39         2.04        28.93        19.30         0.79 
TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 TCGA-15-1447 TCGA-15-1449 TCGA-16-0849 
       13.78        50.53        19.10        53.19        13.28        26.07 
TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 
       16.37        11.77        21.90         0.66        10.75         9.07 
TCGA-19-1387 TCGA-19-1388 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 
        5.95        12.95         4.64        31.33        14.86         5.49 
TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-5204 TCGA-28-5207 
        1.58         7.92         2.33         7.30        14.93        11.28 
TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5215 
       17.88        14.53        11.77        31.27        23.44        11.01 
TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 
       13.64         5.16        22.68        12.76         5.42         7.36 
TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
       11.38         5.42         3.75         1.61        17.72        26.30 

  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
             0.23              0.03 
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
            58.78            211.17 
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
           11.605            16.355 
[1] "0.2 - 58.8 (11.6)"  "0.0 - 211.2 (16.4)"
[1] "hr=" "2.1"
D57V2, continuous
D57V3, binary
                   cls
clus                  0   1
  8Q LOSS MUTATED    41  11
  8Q LOSS WILD-TYPE 532 501
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8Q LOSS MUTATED     41   11
  8Q LOSS WILD-TYPE  532  501
                        clus
vv                       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  BRAIN                               41               532
  CENTRAL NERVOUS SYSTEM              11               501
[1] 2 2
[1] FALSE
D57V4, binary
                   cls
clus                  0   1
  8Q LOSS MUTATED    25  27
  8Q LOSS WILD-TYPE 428 605
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8Q LOSS MUTATED     25   27
  8Q LOSS WILD-TYPE  428  605
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  FEMALE              25               428
  MALE                27               605
[1] 2 2
[1] FALSE
D57V5, binary
                   cls
clus                  0   1
  8Q LOSS MUTATED     5  43
  8Q LOSS WILD-TYPE 253 727
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8Q LOSS MUTATED      5   43
  8Q LOSS WILD-TYPE  253  727
     clus
vv    8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  NO                5               253
  YES              43               727
[1] 2 2
[1] FALSE
D57V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  8Q LOSS MUTATED             5                             1                3
  8Q LOSS WILD-TYPE         189                            29              126
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  8Q LOSS MUTATED                   3                   1
  8Q LOSS WILD-TYPE               186                  17
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  8Q LOSS MUTATED                                39
  8Q LOSS WILD-TYPE                             486
D57V7, multiclass
                                 clus
vv                                8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  ASTROCYTOMA                                   5               189
  GLIOBLASTOMA MULTIFORME (GBM)                 1                29
  OLIGOASTROCYTOMA                              3               126
  OLIGODENDROGLIOMA                             3               186
  TREATED PRIMARY GBM                           1                17
  UNTREATED PRIMARY (DE NOVO) GBM              39               486
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  8Q LOSS MUTATED                                  0     3
  8Q LOSS WILD-TYPE                                1    18
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  8Q LOSS MUTATED                           3    41
  8Q LOSS WILD-TYPE                        68   918
D57V8, multiclass
                                  clus
vv                                 8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          3                18
  BLACK OR AFRICAN AMERICAN                      3                68
  WHITE                                         41               918
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D57V9, binary
                   cls
clus                  0   1
  8Q LOSS MUTATED     2  43
  8Q LOSS WILD-TYPE  42 878
[1] "tbl2"
                   cls
clus                [,1] [,2]
  8Q LOSS MUTATED      2   43
  8Q LOSS WILD-TYPE   42  878
                        clus
vv                       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  HISPANIC OR LATINO                   2                42
  NOT HISPANIC OR LATINO              43               878
[1] 2 2
[1] FALSE

Clustering(58) Variable = 9P LOSS MUTATION ANALYSIS
D58V1, survival
                   sevent
clus2                 0   1
  9P LOSS MUTATED   102 211
  9P LOSS WILD-TYPE 378 387
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
              313               765 
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
              211               387 
$`9P LOSS MUTATED`
TCGA-19-A6J4 TCGA-CS-6670 TCGA-DB-A4XC TCGA-E1-A7YN TCGA-HW-7490 TCGA-06-1806 
        3.98        46.88        46.72        23.90        45.60        15.32 
TCGA-06-5412 TCGA-06-5415 TCGA-06-5418 TCGA-06-5856 TCGA-06-5859 TCGA-06-6695 
        4.54         8.55         2.73         3.75         4.57         8.32 
TCGA-06-6697 TCGA-06-6699 TCGA-06-A5U0 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-12-0615 
       12.85         1.55        26.79         3.12         2.56        15.35 
TCGA-12-1092 TCGA-12-1599 TCGA-12-1602 TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 
       21.73        25.68         6.77        12.69        34.92        14.53 
TCGA-14-0736 TCGA-14-0740 TCGA-14-0783 TCGA-14-0786 TCGA-14-0862 TCGA-14-1395 
       15.12        11.97         6.21        23.05         2.89         1.38 
TCGA-14-1396 TCGA-14-1402 TCGA-14-1453 TCGA-14-1458 TCGA-16-1045 TCGA-16-1047 
        1.12        32.05         1.15         6.67        29.03         4.57 
TCGA-16-1056 TCGA-16-1063 TCGA-19-0960 TCGA-19-0963 TCGA-19-1786 TCGA-19-2619 
       14.01        13.97         8.61        14.27         7.17         9.67 
TCGA-19-2620 TCGA-19-2625 TCGA-19-2629 TCGA-19-5947 TCGA-19-5950 TCGA-19-5952 
        4.87         4.08        24.23         6.64        17.19        18.90 
TCGA-19-5955 TCGA-19-5958 TCGA-19-5959 TCGA-26-1439 TCGA-27-1833 TCGA-27-2521 
        1.78        14.07        16.80        13.87        24.23        16.77 
TCGA-27-2526 TCGA-28-1750 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 
        2.86         8.35         2.83         0.13         0.66         6.74 
TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 TCGA-32-1991 TCGA-32-4208 TCGA-32-4211 
       15.39        21.07         0.49        16.93        21.14        12.59 
TCGA-32-4213 TCGA-32-4719 TCGA-41-2572 TCGA-41-2573 TCGA-41-3392 TCGA-41-3393 
       19.86        10.85        13.35         8.94         0.99         4.44 
TCGA-41-4097 TCGA-4W-AA9R TCGA-74-6575 TCGA-74-6584 TCGA-76-4928 TCGA-76-4931 
        0.20         4.08        20.91         7.50         3.09         9.17 
TCGA-76-4935 TCGA-76-6282 TCGA-76-6657 TCGA-76-6664 TCGA-OX-A56R TCGA-CS-4943 
       36.85        17.06         5.03        36.20         5.92        36.36 
TCGA-CS-5393 TCGA-CS-5395 TCGA-CS-5397 TCGA-CS-6188 TCGA-CS-6666 TCGA-DB-5277 
       40.18        21.01         6.38        26.76        46.95        50.86 
TCGA-DB-5279 TCGA-DB-5281 TCGA-DB-A4XB TCGA-DB-A4XF TCGA-DB-A4XH TCGA-DB-A64L 
       44.52        78.28        30.21        33.57        31.63        24.20 
TCGA-DB-A64V TCGA-DB-A75L TCGA-DB-A75P TCGA-DH-A7UR TCGA-DU-5847 TCGA-DU-5851 
       29.23        11.24        16.18        54.25        18.02        17.46 
TCGA-DU-5855 TCGA-DU-6395 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6402 TCGA-DU-6403 
        6.81        49.02        46.06        65.75         7.04        11.64 
TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7019 
        2.40        11.47        62.96       117.40        90.77        26.30 
TCGA-DU-7292 TCGA-DU-7298 TCGA-DU-7301 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-8162 
        7.96        18.94        25.91        23.31        41.98        14.60 
TCGA-DU-8168 TCGA-DU-A5TY TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A7T6 TCGA-DU-A7TA 
       14.17        33.96        20.98        22.29        17.98        84.33 
TCGA-DU-A7TD TCGA-DU-A7TJ TCGA-E1-5304 TCGA-E1-5307 TCGA-E1-A7YD TCGA-E1-A7YE 
        7.50         0.56        41.13        57.93        14.30        29.13 
TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YM TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7Z3 
        3.65        19.46        21.30        51.88        15.32        73.48 
TCGA-EZ-7264 TCGA-F6-A8O4 TCGA-FG-5963 TCGA-FG-5965 TCGA-FG-6690 TCGA-FG-6692 
       39.48         0.20        25.48        36.82        42.54        18.44 
TCGA-FG-7636 TCGA-FG-8185 TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A711 TCGA-FG-A87Q 
       17.88        14.24        18.38        18.71        48.69         5.72 
TCGA-HT-7471 TCGA-HT-7606 TCGA-HT-7687 TCGA-HT-7689 TCGA-HT-7692 TCGA-HT-7902 
        0.13        17.29         0.10        14.96         2.96        31.43 
TCGA-HT-8104 TCGA-HT-8108 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A614 TCGA-HW-8320 
       12.23         2.50        27.35         0.10         2.70        40.01 
TCGA-HW-8322 TCGA-HW-A5KM TCGA-IK-7675 TCGA-P5-A5EV TCGA-P5-A5F2 TCGA-P5-A5F4 
       24.92        20.71        19.00         0.23         7.96         7.59 
TCGA-P5-A5F6 TCGA-P5-A72Z TCGA-P5-A780 TCGA-QH-A6CV TCGA-QH-A6CZ TCGA-RY-A83Z 
        1.28        11.64         2.37        14.53         9.17         9.90 
TCGA-S9-A6TS TCGA-S9-A6TW TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IZ TCGA-S9-A7J0 
       62.17        41.10         7.92        26.93        19.99        20.02 
TCGA-S9-A7R1 TCGA-S9-A7R3 TCGA-S9-A7R8 TCGA-TM-A7CF TCGA-TM-A84H TCGA-TM-A84J 
      169.84        99.06        31.59        65.39        30.44        24.16 
TCGA-TQ-A7RH TCGA-TQ-A7RP TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8CB TCGA-VM-A8CD 
       15.98        30.05        26.99        31.36         0.10         7.89 
TCGA-VM-A8CF TCGA-W9-A837 TCGA-06-0209 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 
       20.02        51.06         7.63        82.59        20.61        87.06 
TCGA-02-0027 TCGA-02-0048 TCGA-02-0054 TCGA-02-0057 TCGA-02-0058 TCGA-02-0064 
       12.16         3.22         6.54        19.86         8.35        19.73 
TCGA-02-0086 TCGA-02-0099 TCGA-02-0104 TCGA-02-0106 TCGA-02-0107 TCGA-02-0114 
        8.81         3.48        65.00        11.67        17.65        99.98 
TCGA-02-0115 TCGA-02-0258 TCGA-02-0269 TCGA-02-0285 TCGA-02-0290 TCGA-02-0330 
       15.65        16.54        10.75        13.87        15.95        15.91 
TCGA-02-0333 TCGA-02-0339 TCGA-02-0432 TCGA-02-2466 TCGA-06-0119 TCGA-06-0122 
        4.37        12.39        47.11        16.80         2.70         6.15 
TCGA-06-0124 TCGA-06-0128 TCGA-06-0132 TCGA-06-0141 TCGA-06-0145 TCGA-06-0150 
       20.38        22.72        25.35        10.29         2.33        19.46 
TCGA-06-0154 TCGA-06-0158 TCGA-06-0162 TCGA-06-0164 TCGA-06-0166 TCGA-06-0171 
       13.94        10.82         3.42        56.91         5.85        13.12 
TCGA-06-0173 TCGA-06-0175 TCGA-06-0177 TCGA-06-0185 TCGA-06-0188 TCGA-06-0208 
        4.47         4.04         4.18        73.84        44.58         8.42 
TCGA-06-0210 TCGA-06-0211 TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 TCGA-06-0394 
        7.40        11.84         0.72        19.82        13.64        10.82 
TCGA-06-0409 TCGA-06-0412 TCGA-06-0649 TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 
       72.36         9.57         2.10        26.40        46.88         7.86 
TCGA-06-0747 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 
        2.70         0.92        43.46        46.19         7.17        40.41 
TCGA-06-0882 TCGA-06-1084 TCGA-06-1086 TCGA-06-1800 TCGA-06-1802 TCGA-06-2557 
       20.78        23.93         6.84        26.79        15.32         1.08 
TCGA-06-2561 TCGA-06-2562 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-6389 
       17.65        12.56        16.64         5.98         4.37         7.79 
TCGA-06-6693 TCGA-06-6694 TCGA-08-0246 TCGA-08-0348 TCGA-08-0353 TCGA-08-0355 
      120.56         7.36         4.18        12.16         8.42        24.56 
TCGA-08-0358 TCGA-08-0375 TCGA-08-0390 TCGA-08-0510 TCGA-08-0514 TCGA-08-0516 
       22.29        12.23        13.97         4.27        11.08        19.59 
TCGA-08-0517 TCGA-08-0525 TCGA-12-0654 TCGA-12-0656 TCGA-12-0670 TCGA-12-0707 
       58.68        15.98         7.59        94.78        25.97        28.41 
TCGA-12-0778 TCGA-12-0818 TCGA-12-0821 TCGA-12-0826 TCGA-12-0827 TCGA-12-1088 
       14.93        91.76        10.62        27.78        38.76       127.59 
TCGA-12-1093 TCGA-12-1095 TCGA-12-1097 TCGA-14-0787 TCGA-14-0813 TCGA-14-1037 
       15.98        15.85        14.53         2.24         1.35        19.30 
TCGA-15-1444 TCGA-15-1447 TCGA-16-0846 TCGA-19-0955 TCGA-19-1388 TCGA-26-1442 
       50.53        53.19         3.91        11.77        12.95        31.33 
TCGA-26-6174 TCGA-28-2513 TCGA-28-5208 TCGA-28-5209 TCGA-28-5213 TCGA-28-5220 
        2.33         7.30        17.88        14.53        31.27        12.76 
TCGA-76-6660 
        3.75 

$`9P LOSS WILD-TYPE`
TCGA-06-6391 TCGA-CS-6665 TCGA-DH-5141 TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O 
        1.48        51.55        31.82        42.05        62.01        17.16 
TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 TCGA-FG-A87N TCGA-HT-A619 TCGA-IK-8125 
       20.09        17.82        20.45        18.64        21.40        42.77 
TCGA-R8-A73M TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5413 TCGA-06-5414 
       59.38        11.74         3.55         8.35         8.81         8.98 
TCGA-06-5416 TCGA-06-5858 TCGA-06-6388 TCGA-06-6698 TCGA-06-6700 TCGA-06-6701 
        6.71         6.15         5.23         4.77         4.77         4.96 
TCGA-06-A5U1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-1598 TCGA-12-1600 TCGA-12-3644 
        1.87        14.60        17.72        15.65        14.73        59.77 
TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 TCGA-12-5295 TCGA-12-5299 
       44.02        26.93        15.22        10.95        14.93         3.22 
TCGA-12-5301 TCGA-14-0781 TCGA-14-0790 TCGA-14-0812 TCGA-14-0865 TCGA-14-0866 
        2.04         0.95        13.78         3.25        16.50        26.33 
TCGA-14-1034 TCGA-14-1401 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1454 
       15.95         3.75        58.78        23.11         7.10        30.18 
TCGA-14-1455 TCGA-14-1456 TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 
        0.92        40.96        12.43         0.99         1.97        17.79 
TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 
       17.85         7.63         5.88         7.17        17.49         7.96 
TCGA-14-3477 TCGA-14-4157 TCGA-16-0848 TCGA-16-1055 TCGA-16-1060 TCGA-16-1062 
        3.78         3.42        17.59        10.29         9.14        21.24 
TCGA-16-1460 TCGA-19-0964 TCGA-19-1390 TCGA-19-1392 TCGA-19-1787 TCGA-19-1789 
        6.41         3.39        25.38         3.65        12.66         3.25 
TCGA-19-1791 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2631 TCGA-19-4065 
        0.13         1.08         7.53         0.16         7.00         7.04 
TCGA-19-5951 TCGA-19-5953 TCGA-19-5954 TCGA-19-5956 TCGA-19-5960 TCGA-19-A60I 
        8.02         4.73        12.10        22.49        14.96        17.79 
TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 
       28.54        10.03         9.73         7.13         9.37         9.40 
TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 
        8.88        18.97        19.33         5.06        16.60         9.86 
TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 
       40.54        21.30        30.05        14.04        11.51        24.76 
TCGA-27-2519 TCGA-27-2523 TCGA-27-2524 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 
       18.08        16.08         7.59        14.40        15.78         0.20 
TCGA-28-1747 TCGA-28-1749 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 
        2.53         9.21         7.63         8.48         1.22         1.55 
TCGA-28-2509 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 
        4.77         0.10        15.85        19.50         1.18         4.67 
TCGA-32-1986 TCGA-32-1987 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 
       12.69        14.86        12.23        20.78        15.02        15.95 
TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 TCGA-32-4210 TCGA-32-5222 TCGA-41-2571 
        8.84        22.78        25.18         3.72        19.23         0.85 
TCGA-41-2575 TCGA-41-3915 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9S TCGA-4W-AA9T 
        9.53        11.84        15.12        12.46         1.45        25.58 
TCGA-74-6573 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-76-4925 TCGA-76-4926 
        3.45         4.34        14.33         8.22         4.80         4.54 
TCGA-76-4929 TCGA-76-4934 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6285 
        3.65         2.53        16.70         3.29         2.70         8.35 
TCGA-76-6286 TCGA-76-6656 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-RR-A6KA 
       20.98         4.83        23.90        34.45        18.64         6.28 
TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4944 TCGA-CS-5394 
       20.55       117.50         7.69        43.89        60.10         0.26 
TCGA-CS-5396 TCGA-CS-6186 TCGA-CS-6290 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 
       53.62        17.69        37.38        48.30        49.94        49.12 
TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5278 
      122.73        81.96        75.25        47.93        72.92        91.13 
TCGA-DB-5280 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XG 
       36.56        46.42        18.84        39.78        37.45        72.95 
TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U 
       25.48        30.12         5.98        31.40        27.45        27.81 
TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75M TCGA-DB-A75O TCGA-DH-5140 
       14.40        18.51        12.10        17.88        30.74        19.96 
TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F 
       63.88        46.06        24.59        30.21        27.81        17.19 
TCGA-DH-A66G TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5849 
       17.19        23.21        17.46        13.71        18.61        14.56 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
        6.74        13.38         8.45       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6396 TCGA-DU-6400 
       15.16       211.17        52.11        22.42        75.16         1.22 
TCGA-DU-6401 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 
       87.45       133.74        19.89        16.83        94.52       114.08 
TCGA-DU-6410 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 
        7.96       156.23       154.36        14.99       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7018 TCGA-DU-7290 TCGA-DU-7294 TCGA-DU-7299 TCGA-DU-7302 
        8.84        30.67        10.36        94.32        44.02        60.30 
TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 
        2.76         5.10        23.74        20.68        21.40        19.13 
TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT 
       16.96        15.48        33.27        29.85        31.69        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A76K 
       26.17        24.99        25.55        21.57        95.11        11.41 
TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T8 TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TG 
       26.76        21.30       139.04        51.52        37.38        44.42 
TCGA-DU-A7TI TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5305 TCGA-E1-5311 TCGA-E1-5318 
       38.89        50.14        67.46        79.99       134.27        78.21 
TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YH TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YO 
       95.57       130.78        93.21        12.43        16.18        75.02 
TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z4 
        0.76        32.45        36.82       146.14        13.08       145.05 
TCGA-E1-A7Z6 TCGA-F6-A8O3 TCGA-FG-5962 TCGA-FG-5964 TCGA-FG-6688 TCGA-FG-6689 
       32.35         0.23        47.77        52.21        18.77        14.93 
TCGA-FG-6691 TCGA-FG-7634 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 
       41.33        15.35        22.55        20.61        20.09        28.34 
TCGA-FG-8182 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT 
       13.68        16.01        14.96        22.52        32.61        38.27 
TCGA-FG-A4MU TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 
       10.72        23.70        14.76        21.53        15.02        16.44 
TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FN-7833 TCGA-HT-7467 
       22.26        28.54        10.78        36.66        27.52         0.10 
TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
        6.67        11.54        40.11         0.03        16.54         3.75 
TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 
       17.42         6.54        24.26         6.38        40.34        75.19 
TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 
       95.93       106.95       172.77         4.01         5.03        29.85 
TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
       23.18       122.47         4.57         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7688 TCGA-HT-7690 
        0.76        44.68         6.05        42.74        31.69         0.10 
TCGA-HT-7691 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 
        0.10        17.52         6.90        14.53        39.48        19.23 
TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 
       39.09         0.23        50.63         0.49        23.61        37.15 
TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 
        0.33         0.13         3.68         5.33        35.47         3.72 
TCGA-HT-7884 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 
       11.28         1.64        16.24         9.40        63.55         0.10 
TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8109 
       37.87        33.01         6.25         0.10         0.46         5.56 
TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 
       13.78         0.23        29.59        34.19        28.27        15.72 
TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RC 
        0.23        26.04         0.13        20.22         0.07         5.33 
TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C 
       16.93         1.81        16.14        16.83        17.52        17.65 
TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
        2.43        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 
       45.44        41.49        68.32        69.27        35.44        39.75 
TCGA-HW-8321 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-KT-A74X TCGA-KT-A7W1 
       42.54        31.63        12.76        28.87        14.40        14.40 
TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 
        6.71         7.99         2.37         2.30         9.44         5.88 
TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 
        0.23        10.42        13.25        10.95         9.01        13.61 
TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A781 
        9.60         7.56        12.23        19.20         3.45         4.41 
TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS 
       15.16         2.53        12.62        15.85        14.04        19.33 
TCGA-QH-A6CU TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6X3 TCGA-QH-A6X4 
       14.83        13.61        12.23        13.41        10.29        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       16.34        16.73         1.91        16.50        16.70        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y 
       12.99        88.83        94.03        32.65        30.87         5.46 
TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TU TCGA-S9-A6TV 
       28.08         2.07        19.59        30.67        87.12        18.77 
TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 
       40.93        35.38        36.82        24.39        25.81        29.85 
TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB 
       32.61        35.15        98.24        95.93         5.85       123.65 
TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL 
       75.25       135.22        85.55        38.56        84.99        31.10 
TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ 
       19.86        26.47        18.61        18.64        14.07        36.13 
TCGA-S9-A7IY TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX 
       23.51         8.19         2.04        20.68        15.06        18.54 
TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R2 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A89V 
       28.37        27.16        10.39        30.05        98.63        18.71 
TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A84B 
       20.48        54.77        48.33        49.32        34.78        24.92 
TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84I TCGA-TM-A84L TCGA-TM-A84M 
       16.18        59.05        40.64        28.08        40.83        24.79 
TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF 
       33.24        25.38        18.61        14.93        23.80        21.37 
TCGA-TQ-A7RG TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN 
       19.69         2.04        40.41        44.09        36.69        33.73 
TCGA-TQ-A7RO TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-VM-A8C8 
       31.20        26.14        25.87        33.93        61.41        45.93 
TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CE TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M 
       43.20        13.51        39.16        23.47        37.05        16.01 
TCGA-VW-A7QS TCGA-VW-A8FI TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A 
       23.21         8.05        13.32        43.96        39.88        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-02-0001 TCGA-02-0003 
       45.80        46.88        37.71        20.81        11.77         4.73 
TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 TCGA-02-0021 
       18.35        23.18        10.59        35.41        20.71        77.65 
TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 TCGA-02-0028 TCGA-02-0033 
       20.12        53.10        42.74        24.59        90.58         2.83 
TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 
       14.14         3.62        10.72        10.52        18.31         6.87 
TCGA-02-0047 TCGA-02-0051 TCGA-02-0052 TCGA-02-0055 TCGA-02-0059 TCGA-02-0060 
       14.73        15.09        12.59         2.50         9.57         6.02 
TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 
       26.43        28.70        25.05         5.49        10.19        20.84 
TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0087 
       27.25        89.72        22.72        12.62        51.32        57.76 
TCGA-02-0089 TCGA-02-0102 TCGA-02-0111 TCGA-02-0113 TCGA-02-0116 TCGA-02-0260 
       16.96        27.02        23.18        92.65        48.95        16.93 
TCGA-02-0266 TCGA-02-0271 TCGA-02-0281 TCGA-02-0289 TCGA-02-0317 TCGA-02-0321 
       17.72        14.47         3.98        14.20        12.23         9.90 
TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 TCGA-02-0332 TCGA-02-0337 TCGA-02-0338 
        7.73        10.62         7.33        25.71        25.12        10.59 
TCGA-02-0422 TCGA-02-0430 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 
       14.50        10.55        11.34         9.27        16.21         3.35 
TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0125 TCGA-06-0126 
       12.92        15.32        15.45        20.32        47.61         6.94 
TCGA-06-0127 TCGA-06-0129 TCGA-06-0130 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 
        3.98        33.67        12.95        14.30        26.70        24.23 
TCGA-06-0139 TCGA-06-0140 TCGA-06-0142 TCGA-06-0143 TCGA-06-0146 TCGA-06-0147 
       11.90         0.20         2.20        11.74        20.09        17.79 
TCGA-06-0148 TCGA-06-0149 TCGA-06-0151 TCGA-06-0152 TCGA-06-0155 TCGA-06-0157 
       10.09         8.61        46.59        12.33        10.45         3.19 
TCGA-06-0159 TCGA-06-0160 TCGA-06-0165 TCGA-06-0168 TCGA-06-0169 TCGA-06-0174 
        9.44        11.80        10.65        19.66         3.29         3.22 
TCGA-06-0176 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 TCGA-06-0187 
       91.00        88.14        20.25         3.65        69.90        27.22 
TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 
       15.42        10.42        38.96         4.67         7.40         5.56 
TCGA-06-0201 TCGA-06-0206 TCGA-06-0213 TCGA-06-0214 TCGA-06-0216 TCGA-06-0238 
        0.39         7.66         0.53        15.02        24.16        13.32 
TCGA-06-0240 TCGA-06-0241 TCGA-06-0397 TCGA-06-0402 TCGA-06-0410 TCGA-06-0413 
       20.42        48.69         9.01         0.26         4.70         3.16 
TCGA-06-0414 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0650 
       35.11        12.62         5.75         5.75         9.80        23.57 
TCGA-06-0686 TCGA-06-0749 TCGA-06-0881 TCGA-06-0939 TCGA-06-1087 TCGA-06-1801 
       14.20         2.70        16.57        26.76         4.04        11.84 
TCGA-06-1804 TCGA-06-1805 TCGA-06-2558 TCGA-06-2559 TCGA-06-2563 TCGA-06-2564 
       13.61        33.90        12.49         4.93        30.64         5.95 
TCGA-06-2569 TCGA-06-2570 TCGA-06-6390 TCGA-08-0244 TCGA-08-0245 TCGA-08-0344 
        0.43        31.50         5.39        22.68        37.84       115.86 
TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 
        1.74         8.42        25.71         9.80        29.23        65.33 
TCGA-08-0352 TCGA-08-0354 TCGA-08-0356 TCGA-08-0357 TCGA-08-0359 TCGA-08-0380 
        1.28        17.95        31.10        37.58         3.39        14.93 
TCGA-08-0386 TCGA-08-0389 TCGA-08-0392 TCGA-08-0509 TCGA-08-0512 TCGA-08-0518 
       18.02        15.35         0.72        12.56        42.15        19.33 
TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 
       10.75         4.80         7.27        18.41         7.56        14.73 
TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0657 TCGA-12-0662 TCGA-12-0688 
       12.99        34.92        10.45         0.10        38.17        26.66 
TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 
       12.13         3.65        20.38        15.06        53.85        43.23 
TCGA-12-0775 TCGA-12-0776 TCGA-12-0780 TCGA-12-0819 TCGA-12-0820 TCGA-12-0822 
        7.63         9.73        14.86        24.79        18.48        23.51 
TCGA-12-0828 TCGA-12-0829 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1094 
        8.94        20.58         5.82         7.59        33.21        12.23 
TCGA-12-1096 TCGA-12-1098 TCGA-12-1099 TCGA-14-0789 TCGA-14-0817 TCGA-14-0867 
        9.11         3.98         4.14        11.24         5.39         2.04 
TCGA-14-0871 TCGA-14-1043 TCGA-15-0742 TCGA-15-1446 TCGA-15-1449 TCGA-16-0849 
       28.93         0.79        13.78        19.10        13.28        26.07 
TCGA-16-0850 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 
       16.37        21.90         0.66        10.75         9.07         5.95 
TCGA-19-1389 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-28-2514 
        4.64        14.86         5.49         1.58         7.92         5.26 
TCGA-28-5204 TCGA-28-5207 TCGA-28-5211 TCGA-28-5214 TCGA-28-5215 TCGA-28-5216 
       14.93        11.28        11.77        23.44        11.01        13.64 
TCGA-28-5218 TCGA-28-5219 TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 
        5.16        22.68         5.42         7.36        11.38         5.42 
TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        1.61        17.72        26.30 

  9P LOSS MUTATED 9P LOSS WILD-TYPE 
             0.10              0.03 
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
           169.84            211.17 
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
            15.32             16.37 
[1] "0.1 - 169.8 (15.3)" "0.0 - 211.2 (16.4)"
[1] "hr=" "1.5"
D58V2, continuous
D58V3, binary
                   cls
clus                  0   1
  9P LOSS MUTATED   200 116
  9P LOSS WILD-TYPE 373 396
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9P LOSS MUTATED    200  116
  9P LOSS WILD-TYPE  373  396
                        clus
vv                       9P LOSS MUTATED 9P LOSS WILD-TYPE
  BRAIN                              200               373
  CENTRAL NERVOUS SYSTEM             116               396
[1] 2 2
[1] FALSE
D58V4, binary
                   cls
clus                  0   1
  9P LOSS MUTATED   132 184
  9P LOSS WILD-TYPE 321 448
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9P LOSS MUTATED    132  184
  9P LOSS WILD-TYPE  321  448
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  FEMALE             132               321
  MALE               184               448
[1] 2 2
[1] FALSE
D58V5, binary
                   cls
clus                  0   1
  9P LOSS MUTATED    52 243
  9P LOSS WILD-TYPE 206 527
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9P LOSS MUTATED     52  243
  9P LOSS WILD-TYPE  206  527
     clus
vv    9P LOSS MUTATED 9P LOSS WILD-TYPE
  NO               52               206
  YES             243               527
[1] 2 2
[1] FALSE
D58V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  9P LOSS MUTATED            55                            12               23
  9P LOSS WILD-TYPE         139                            18              106
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  9P LOSS MUTATED                  38                   6
  9P LOSS WILD-TYPE               151                  12
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  9P LOSS MUTATED                               182
  9P LOSS WILD-TYPE                             343
D58V7, multiclass
                                 clus
vv                                9P LOSS MUTATED 9P LOSS WILD-TYPE
  ASTROCYTOMA                                  55               139
  GLIOBLASTOMA MULTIFORME (GBM)                12                18
  OLIGOASTROCYTOMA                             23               106
  OLIGODENDROGLIOMA                            38               151
  TREATED PRIMARY GBM                           6                12
  UNTREATED PRIMARY (DE NOVO) GBM             182               343
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  9P LOSS MUTATED                                  0     8
  9P LOSS WILD-TYPE                                1    13
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  9P LOSS MUTATED                          28   271
  9P LOSS WILD-TYPE                        43   688
D58V8, multiclass
                                  clus
vv                                 9P LOSS MUTATED 9P LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          8                13
  BLACK OR AFRICAN AMERICAN                     28                43
  WHITE                                        271               688
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D58V9, binary
                   cls
clus                  0   1
  9P LOSS MUTATED     7 273
  9P LOSS WILD-TYPE  37 648
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9P LOSS MUTATED      7  273
  9P LOSS WILD-TYPE   37  648
                        clus
vv                       9P LOSS MUTATED 9P LOSS WILD-TYPE
  HISPANIC OR LATINO                   7                37
  NOT HISPANIC OR LATINO             273               648
[1] 2 2
[1] FALSE

Clustering(59) Variable = 9Q LOSS MUTATION ANALYSIS
D59V1, survival
                   sevent
clus2                 0   1
  9Q LOSS MUTATED    44  96
  9Q LOSS WILD-TYPE 436 502
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
              140               938 
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
               96               502 
$`9Q LOSS MUTATED`
TCGA-19-A6J4 TCGA-E1-A7YN TCGA-06-1806 TCGA-06-5412 TCGA-06-5418 TCGA-06-5859 
        3.98        23.90        15.32         4.54         2.73         4.57 
TCGA-06-A6S1 TCGA-12-0615 TCGA-12-1602 TCGA-12-3652 TCGA-12-3653 TCGA-14-0736 
        2.56        15.35         6.77        34.92        14.53        15.12 
TCGA-14-0740 TCGA-14-1395 TCGA-14-1396 TCGA-14-1453 TCGA-16-1045 TCGA-16-1047 
       11.97         1.38         1.12         1.15        29.03         4.57 
TCGA-19-0963 TCGA-19-1786 TCGA-19-2619 TCGA-19-2620 TCGA-19-5950 TCGA-19-5958 
       14.27         7.17         9.67         4.87        17.19        14.07 
TCGA-19-5959 TCGA-26-1439 TCGA-27-2521 TCGA-28-1750 TCGA-28-1757 TCGA-28-2506 
       16.80        13.87        16.77         8.35         0.13         6.74 
TCGA-32-1970 TCGA-32-4208 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-41-2572 
       15.39        21.14        12.59        19.86        10.85        13.35 
TCGA-4W-AA9R TCGA-74-6584 TCGA-76-6282 TCGA-OX-A56R TCGA-CS-5397 TCGA-CS-6188 
        4.08         7.50        17.06         5.92         6.38        26.76 
TCGA-CS-6666 TCGA-DB-5277 TCGA-DB-5279 TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A75P 
       46.95        50.86        44.52        31.63        24.20        16.18 
TCGA-DU-6397 TCGA-DU-7007 TCGA-DU-7014 TCGA-DU-7304 TCGA-DU-8162 TCGA-DU-8168 
       46.06        62.96       117.40        23.31        14.60        14.17 
TCGA-DU-A5TY TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A7T6 TCGA-DU-A7TA TCGA-DU-A7TD 
       33.96        20.98        22.29        17.98        84.33         7.50 
TCGA-DU-A7TJ TCGA-E1-5304 TCGA-E1-5307 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YQ 
        0.56        41.13        57.93        14.30        29.13        51.88 
TCGA-E1-A7YS TCGA-EZ-7264 TCGA-F6-A8O4 TCGA-FG-A87Q TCGA-HT-7471 TCGA-HT-7477 
       15.32        39.48         0.20         5.72         0.13        24.26 
TCGA-HT-7687 TCGA-HT-7689 TCGA-HT-7692 TCGA-HT-A5RB TCGA-HT-A614 TCGA-IK-7675 
        0.10        14.96         2.96         0.10         2.70        19.00 
TCGA-P5-A5F6 TCGA-P5-A72Z TCGA-P5-A733 TCGA-QH-A6CV TCGA-QH-A6CZ TCGA-S9-A6U9 
        1.28        11.64        13.61        14.53         9.17        95.93 
TCGA-S9-A7IS TCGA-S9-A7R1 TCGA-TM-A84H TCGA-TM-A84J TCGA-TM-A84T TCGA-TQ-A7RP 
        7.92       169.84        30.44        24.16        23.80        30.05 
TCGA-06-0209 TCGA-02-0016 TCGA-02-0021 TCGA-02-0057 TCGA-02-0064 TCGA-02-0104 
        7.63        87.06        77.65        19.86        19.73        65.00 
TCGA-02-0107 TCGA-02-0269 TCGA-02-0285 TCGA-02-0330 TCGA-02-2466 TCGA-02-2470 
       17.65        10.75        13.87        15.91        16.80        12.92 
TCGA-06-0128 TCGA-06-0132 TCGA-06-0141 TCGA-06-0158 TCGA-06-0162 TCGA-06-0173 
       22.72        25.35        10.29        10.82         3.42         4.47 
TCGA-06-0177 TCGA-06-0188 TCGA-06-0210 TCGA-06-0237 TCGA-06-0409 TCGA-06-0412 
        4.18        44.58         7.40        13.64        72.36         9.57 
TCGA-06-0743 TCGA-06-0745 TCGA-06-0876 TCGA-06-0878 TCGA-06-1086 TCGA-06-2557 
       26.40         7.86        46.19         7.17         6.84         1.08 
TCGA-06-2561 TCGA-06-6694 TCGA-08-0246 TCGA-08-0355 TCGA-08-0358 TCGA-08-0510 
       17.65         7.36         4.18        24.56        22.29         4.27 
TCGA-08-0516 TCGA-08-0517 TCGA-12-0654 TCGA-12-0707 TCGA-12-0821 TCGA-12-0826 
       19.59        58.68         7.59        28.41        10.62        27.78 
TCGA-12-1091 TCGA-12-1093 TCGA-15-1444 TCGA-15-1447 TCGA-16-0846 TCGA-19-1388 
       33.21        15.98        50.53        53.19         3.91        12.95 
TCGA-28-2513 TCGA-28-5220 
        7.30        12.76 

$`9Q LOSS WILD-TYPE`
TCGA-06-6391 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        1.48        51.55        46.88        46.72        31.82        42.05 
TCGA-DU-7300 TCGA-DU-A76O TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 TCGA-FG-A87N 
       62.01        17.16        20.09        17.82        20.45        18.64 
TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-5408 TCGA-06-5410 
       21.40        45.60        42.77        59.38        11.74         3.55 
TCGA-06-5411 TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 TCGA-06-5416 TCGA-06-5856 
        8.35         8.81         8.98         8.55         6.71         3.75 
TCGA-06-5858 TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 
        6.15         5.23         8.32        12.85         4.77         1.55 
TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A7TK 
        4.77         4.96        26.79         1.87         3.12        14.60 
TCGA-06-A7TL TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 TCGA-12-3644 
       17.72        21.73        15.65        25.68        14.73        59.77 
TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-5295 
       44.02        26.93        15.22        10.95        12.69        14.93 
TCGA-12-5299 TCGA-12-5301 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 
        3.22         2.04         0.95         6.21        23.05        13.78 
TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1401 
        3.25         2.89        16.50        26.33        15.95         3.75 
TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1454 TCGA-14-1455 
       32.05        58.78        23.11         7.10        30.18         0.92 
TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 
       40.96         6.67        12.43         0.99         1.97        17.79 
TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 
       17.85         7.63         5.88         7.17        17.49         7.96 
TCGA-14-3477 TCGA-14-4157 TCGA-16-0848 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 
        3.78         3.42        17.59        10.29        14.01         9.14 
TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0964 TCGA-19-1390 
       21.24        13.97         6.41         8.61         3.39        25.38 
TCGA-19-1392 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 TCGA-19-2621 TCGA-19-2623 
        3.65        12.66         3.25         0.13         1.08         7.53 
TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 
        0.16         4.08        24.23         7.00         7.04         6.64 
TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 
        8.02        18.90         4.73        12.10         1.78        22.49 
TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1440 TCGA-26-1443 
       14.96        17.79        28.54        10.03         9.73         7.13 
TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 
        9.37         9.40         8.88        18.97        19.33         5.06 
TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 
       16.60         9.86        24.23        40.54        21.30        30.05 
TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2523 TCGA-27-2524 
       14.04        11.51        24.76        18.08        16.08         7.59 
TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 
        2.86        14.40        15.78         0.20         2.53         9.21 
TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 TCGA-28-2502 
        7.63         8.48         1.22         1.55         2.83         0.66 
TCGA-28-2509 TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 
        4.77        21.07         0.49         0.10        15.85        19.50 
TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 
        1.18         4.67        12.69        14.86        16.93        12.23 
TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 
       20.78        15.02        15.95         8.84        22.78        25.18 
TCGA-32-4210 TCGA-32-5222 TCGA-41-2571 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 
        3.72        19.23         0.85         8.94         9.53         0.99 
TCGA-41-3393 TCGA-41-3915 TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9S 
        4.44        11.84         0.20        15.12        12.46         1.45 
TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 
       25.58         3.45        20.91         4.34        14.33         8.22 
TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4934 
        4.80         4.54         3.09         3.65         9.17         2.53 
TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6285 TCGA-76-6286 
       36.85        16.70         3.29         2.70         8.35        20.98 
TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 
        4.83         5.03        23.90        34.45        18.64        36.20 
TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 
        6.28        20.55       117.50         7.69        43.89        36.36 
TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-6186 
       60.10        40.18         0.26        21.01        53.62        17.69 
TCGA-CS-6290 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 
       37.38        48.30        49.94        49.12       122.73        81.96 
TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5278 TCGA-DB-5280 TCGA-DB-5281 
       75.25        47.93        72.92        91.13        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       46.42        18.84        30.21        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S 
       72.95        25.48        30.12         5.98        31.40        27.45 
TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L 
       27.81        29.23        14.40        18.51        12.10        11.24 
TCGA-DB-A75M TCGA-DB-A75O TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 
       17.88        30.74        19.96        63.88        46.06        24.59 
TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       30.21        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 
       17.49        15.16       211.17        52.11        22.42        49.02 
TCGA-DU-6396 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       75.16        65.75         1.22        87.45         7.04        11.64 
TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 
      133.74        19.89        16.83        94.52       114.08         7.96 
TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 
        2.40        11.47       156.23       154.36        14.99       105.21 
TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        6.54         8.84        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 
        7.96        94.32        18.94        44.02        25.91        60.30 
TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8163 TCGA-DU-8164 
       41.98         2.76         5.10        23.74        20.68        21.40 
TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS 
       19.13        16.96        15.48        33.27        29.85        31.69 
TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       24.43        26.17        24.99        25.55        21.57        95.11 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T8 TCGA-DU-A7TB TCGA-DU-A7TC 
       11.41        26.76        21.30       139.04        51.52        37.38 
TCGA-DU-A7TG TCGA-DU-A7TI TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5305 TCGA-E1-5311 
       44.42        38.89        50.14        67.46        79.99       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ 
       78.21        95.57       130.78        93.21         3.65        19.46 
TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YU TCGA-E1-A7YV 
       12.43        16.18        21.30        75.02         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       36.82       146.14        13.08        73.48       145.05        32.35 
TCGA-F6-A8O3 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 
        0.23        47.77        25.48        52.21        36.82        18.77 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 
       14.93        42.54        41.33        18.44        15.35        17.88 
TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 
       22.55        20.61        20.09        28.34        13.68        14.24 
TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU 
       16.01        14.96        22.52        32.61        38.27        10.72 
TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ 
       18.38        18.71        23.70        14.76        21.53        15.02 
TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 
       16.44        22.26        28.54        10.78        36.66        48.69 
TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7472 
       27.52         0.10         6.67        11.54        40.11         0.03 
TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7478 TCGA-HT-7479 
       16.54         3.75        17.42         6.54         6.38        40.34 
TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 
       75.19        95.93       106.95       172.77         4.01         5.03 
TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 
       29.85        23.18       122.47         4.57        17.29         3.16 
TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 
       22.06        45.99        56.09        57.60         0.23        14.27 
TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 
        0.16        16.24         0.76        44.68         6.05        42.74 
TCGA-HT-7688 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
       31.69         0.10         0.10        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 
       39.48        19.23        39.09         0.23        50.63         0.49 
TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
       23.61        37.15         0.33         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 
       35.47         3.72        11.28        31.43         1.64        16.24 
TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 
        9.40        63.55         0.10        37.87        33.01        12.23 
TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 
        6.25         0.10         0.46         2.50         5.56        13.78 
TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS 
        0.23        29.59        34.19        28.27        15.72         0.23 
TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RC 
       26.04         0.13        20.22         0.07        27.35         5.33 
TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C 
       16.93         1.81        16.14        16.83        17.52        17.65 
TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
        2.43        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 
       45.44        41.49        68.32        69.27        35.44        39.75 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL 
       40.01        42.54        24.92        31.63        12.76        28.87 
TCGA-HW-A5KM TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX 
       20.71        14.40        14.40         0.23         6.71         7.99 
TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 
        2.37         2.30         9.44         5.88         7.96         7.59 
TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A735 
        0.23        10.42        13.25        10.95         9.01         9.60 
TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 
        7.56        12.23        19.20         3.45         2.37         4.41 
TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS 
       15.16         2.53        12.62        15.85        14.04        19.33 
TCGA-QH-A6CU TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6X3 TCGA-QH-A6X4 
       14.83        13.61        12.23        13.41        10.29        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       16.34        16.73         1.91        16.50        16.70        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y 
       12.99        88.83        94.03        32.65        30.87         5.46 
TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS 
        9.90        28.08         2.07        19.59        30.67        62.17 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ 
       87.12        18.77        41.10        40.93        35.38        36.82 
TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       24.39        25.81        29.85        32.61        35.15        98.24 
TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH 
        5.85       123.65        75.25       135.22        85.55        38.56 
TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP 
       84.99        31.10        19.86        26.47        18.61        18.64 
TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 
       14.07        36.13        26.93        23.51        19.99        20.02 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY 
        8.19         2.04        20.68        15.06        18.54        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 
       27.16        10.39        99.06        30.05        98.63        31.59 
TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA 
       18.71        20.48        54.77        48.33        49.32        34.78 
TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84I 
       65.39        24.92        16.18        59.05        40.64        28.08 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU 
       36.69        33.73        31.20        26.14        25.87        33.93 
TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA 
       61.41        26.99        31.36        45.93        43.20        13.51 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 
        0.10         7.89        39.16        20.02        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       16.01        23.21         8.05        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 
TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 
       11.77         4.73        18.35        23.18        10.59        35.41 
TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 
       20.71        82.59        20.61        20.12        53.10        42.74 
TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 
       24.59        12.16        90.58         2.83        14.14         3.62 
TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 
       10.72        10.52        18.31         6.87        14.73         3.22 
TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0055 TCGA-02-0058 TCGA-02-0059 
       15.09        12.59         6.54         2.50         8.35         9.57 
TCGA-02-0060 TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 
        6.02        26.43        28.70        25.05         5.49        10.19 
TCGA-02-0075 TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 
       20.84        27.25        89.72        22.72        12.62        51.32 
TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0106 
        8.81        57.76        16.96         3.48        27.02        11.67 
TCGA-02-0111 TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 
       23.18        92.65        99.98        15.65        48.95        16.54 
TCGA-02-0260 TCGA-02-0266 TCGA-02-0271 TCGA-02-0281 TCGA-02-0289 TCGA-02-0290 
       16.93        17.72        14.47         3.98        14.20        15.95 
TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 TCGA-02-0332 
       12.23         9.90         7.73        10.62         7.33        25.71 
TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 
        4.37        25.12        10.59        12.39        14.50        10.55 
TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2483 
       47.11        11.34         9.27        16.21         3.35        15.32 
TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 
       15.45        20.32         2.70         6.15        20.38        47.61 
TCGA-06-0126 TCGA-06-0127 TCGA-06-0129 TCGA-06-0130 TCGA-06-0133 TCGA-06-0137 
        6.94         3.98        33.67        12.95        14.30        26.70 
TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 
       24.23        11.90         0.20         2.20        11.74         2.33 
TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 
       20.09        17.79        10.09         8.61        19.46        46.59 
TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0159 TCGA-06-0160 
       12.33        13.94        10.45         3.19         9.44        11.80 
TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 
       56.91        10.65         5.85        19.66         3.29        13.12 
TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 
        3.22         4.04        91.00        88.14        20.25         3.65 
TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 
       69.90        73.84        27.22        15.42        10.42        38.96 
TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 
        4.67         7.40         5.56         0.39         7.66         8.42 
TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 
       11.84         0.53        15.02        24.16         0.72        19.82 
TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 
       13.32        20.42        48.69        10.82         9.01         0.26 
TCGA-06-0410 TCGA-06-0413 TCGA-06-0414 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 
        4.70         3.16        35.11        12.62         5.75         5.75 
TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 TCGA-06-0744 TCGA-06-0747 
        9.80         2.10        23.57        14.20        46.88         2.70 
TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 
        2.70         0.92        43.46        40.41        16.57        20.78 
TCGA-06-0939 TCGA-06-1084 TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 
       26.76        23.93         4.04        26.79        11.84        15.32 
TCGA-06-1804 TCGA-06-1805 TCGA-06-2558 TCGA-06-2559 TCGA-06-2562 TCGA-06-2563 
       13.61        33.90        12.49         4.93        12.56        30.64 
TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 
        5.95        16.64         5.98         4.37         0.43        31.50 
TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 TCGA-08-0244 TCGA-08-0245 TCGA-08-0344 
        7.79         5.39       120.56        22.68        37.84       115.86 
TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 
        1.74         8.42        25.71        12.16         9.80        29.23 
TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0356 TCGA-08-0357 
       65.33         1.28         8.42        17.95        31.10        37.58 
TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 
        3.39        12.23        14.93        18.02        15.35        13.97 
TCGA-08-0392 TCGA-08-0509 TCGA-08-0512 TCGA-08-0514 TCGA-08-0518 TCGA-08-0520 
        0.72        12.56        42.15        11.08        19.33        10.75 
TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 
        4.80         7.27        15.98        18.41         7.56        14.73 
TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 
       12.99        34.92        10.45        94.78         0.10        38.17 
TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0769 
       25.97        26.66        12.13         3.65        20.38        15.06 
TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 
       53.85        43.23         7.63         9.73        14.93        14.86 
TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0822 TCGA-12-0827 TCGA-12-0828 
       91.76        24.79        18.48        23.51        38.76         8.94 
TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1094 TCGA-12-1095 
       20.58       127.59         5.82         7.59        12.23        15.85 
TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 
        9.11        14.53         3.98         4.14         2.24        11.24 
TCGA-14-0813 TCGA-14-0817 TCGA-14-0867 TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 
        1.35         5.39         2.04        28.93        19.30         0.79 
TCGA-15-0742 TCGA-15-1446 TCGA-15-1449 TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 
       13.78        19.10        13.28        26.07        16.37        11.77 
TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1389 
       21.90         0.66        10.75         9.07         5.95         4.64 
TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 
       31.33        14.86         5.49         1.58         7.92         2.33 
TCGA-28-2514 TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 
        5.26        14.93        11.28        17.88        14.53        11.77 
TCGA-28-5213 TCGA-28-5214 TCGA-28-5215 TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 
       31.27        23.44        11.01        13.64         5.16        22.68 
TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 
        5.42         7.36        11.38         5.42         3.75         1.61 
TCGA-81-5911 TCGA-87-5896 
       17.72        26.30 

  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
             0.10              0.03 
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
           169.84            211.17 
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
           14.565            16.240 
[1] "0.1 - 169.8 (14.6)" "0.0 - 211.2 (16.2)"
[1] "hr=" "1.4"
D59V2, continuous
D59V3, binary
                   cls
clus                  0   1
  9Q LOSS MUTATED    90  51
  9Q LOSS WILD-TYPE 483 461
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9Q LOSS MUTATED     90   51
  9Q LOSS WILD-TYPE  483  461
                        clus
vv                       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  BRAIN                               90               483
  CENTRAL NERVOUS SYSTEM              51               461
[1] 2 2
[1] FALSE
D59V4, binary
                   cls
clus                  0   1
  9Q LOSS MUTATED    60  81
  9Q LOSS WILD-TYPE 393 551
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9Q LOSS MUTATED     60   81
  9Q LOSS WILD-TYPE  393  551
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  FEMALE              60               393
  MALE                81               551
[1] 2 2
[1] FALSE
D59V5, binary
                   cls
clus                  0   1
  9Q LOSS MUTATED    17 109
  9Q LOSS WILD-TYPE 241 661
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9Q LOSS MUTATED     17  109
  9Q LOSS WILD-TYPE  241  661
     clus
vv    9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  NO               17               241
  YES             109               661
[1] 2 2
[1] FALSE
D59V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  9Q LOSS MUTATED            21                             7               11
  9Q LOSS WILD-TYPE         173                            23              118
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  9Q LOSS MUTATED                  19                   4
  9Q LOSS WILD-TYPE               170                  14
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  9Q LOSS MUTATED                                79
  9Q LOSS WILD-TYPE                             446
D59V7, multiclass
                                 clus
vv                                9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  ASTROCYTOMA                                  21               173
  GLIOBLASTOMA MULTIFORME (GBM)                 7                23
  OLIGOASTROCYTOMA                             11               118
  OLIGODENDROGLIOMA                            19               170
  TREATED PRIMARY GBM                           4                14
  UNTREATED PRIMARY (DE NOVO) GBM              79               446
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  9Q LOSS MUTATED                                  0     3
  9Q LOSS WILD-TYPE                                1    18
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  9Q LOSS MUTATED                          16   118
  9Q LOSS WILD-TYPE                        55   841
D59V8, multiclass
                                  clus
vv                                 9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          3                18
  BLACK OR AFRICAN AMERICAN                     16                55
  WHITE                                        118               841
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D59V9, binary
                   cls
clus                  0   1
  9Q LOSS MUTATED     3 127
  9Q LOSS WILD-TYPE  41 794
[1] "tbl2"
                   cls
clus                [,1] [,2]
  9Q LOSS MUTATED      3  127
  9Q LOSS WILD-TYPE   41  794
                        clus
vv                       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  HISPANIC OR LATINO                   3                41
  NOT HISPANIC OR LATINO             127               794
[1] 2 2
[1] FALSE

Clustering(60) Variable = 10P LOSS MUTATION ANALYSIS
D60V1, survival
                    sevent
clus2                  0   1
  10P LOSS MUTATED   107 450
  10P LOSS WILD-TYPE 373 148
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
               557                521 
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
               450                148 
$`10P LOSS MUTATED`
TCGA-19-A6J4 TCGA-E1-A7YN TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 
        3.98        23.90        11.74         3.55         8.35         4.54 
TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 TCGA-06-5418 TCGA-06-5856 TCGA-06-5859 
        8.81         8.98         8.55         2.73         3.75         4.57 
TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 
        5.23         8.32        12.85         4.77         1.55         4.77 
TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S1 TCGA-06-A7TK TCGA-12-0615 TCGA-12-1598 
       26.79         1.87         2.56        14.60        15.35        15.65 
TCGA-12-1599 TCGA-12-1600 TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 
       25.68        14.73         6.77        59.77        44.02        26.93 
TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 
       15.22        10.95        12.69        34.92        14.53        14.93 
TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 
        3.22         2.04        15.12        11.97         0.95         6.21 
TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 
       23.05        13.78         3.25         2.89        16.50        26.33 
TCGA-14-1034 TCGA-14-1395 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 
       15.95         1.38         3.75        32.05        58.78        23.11 
TCGA-14-1452 TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 TCGA-14-1794 TCGA-14-1795 
        7.10         1.15        30.18         0.92         0.99         1.97 
TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 
       17.85         7.63         5.88         7.17        17.49         7.96 
TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 
       17.59        29.03         4.57        10.29        14.01         9.14 
TCGA-16-1062 TCGA-16-1063 TCGA-19-0963 TCGA-19-0964 TCGA-19-1392 TCGA-19-1786 
       21.24        13.97        14.27         3.39         3.65         7.17 
TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 
        3.25         0.13         9.67         4.87         1.08         7.53 
TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 
        0.16         4.08        24.23         7.00         7.04         6.64 
TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 
       17.19         8.02        18.90         4.73        12.10         1.78 
TCGA-19-5956 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 
       22.49        16.80        14.96        17.79        28.54        10.03 
TCGA-26-1439 TCGA-26-1440 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 
       13.87         9.73         9.37         9.40         8.88        18.97 
TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 
       19.33         5.06        16.60         9.86        24.23        40.54 
TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 
       21.30        30.05        14.04        11.51        24.76        18.08 
TCGA-27-2521 TCGA-27-2523 TCGA-27-2524 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 
       16.77        16.08         7.59        14.40        15.78         0.20 
TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 
        2.53         9.21         8.35         7.63         8.48         1.22 
TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 TCGA-32-1970 TCGA-32-1976 
        0.13         0.66         6.74         4.77        15.39         0.49 
TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 
        0.10        15.85        19.50         1.18         4.67        12.69 
TCGA-32-1987 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 TCGA-32-2634 
       14.86        12.23        20.78        15.02        15.95        22.78 
TCGA-32-2638 TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 
       25.18         3.72        12.59        19.86        10.85        19.23 
TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 
        0.85        13.35         8.94         9.53         0.99         4.44 
TCGA-41-3915 TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S 
       11.84         0.20        15.12        12.46         4.08         1.45 
TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 
       25.58         3.45        20.91         4.34        14.33         8.22 
TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 
        7.50         4.80         4.54         3.09         3.65         9.17 
TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 
        2.53        36.85        16.70         3.29         2.70        17.06 
TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 
        8.35        20.98         4.83         5.03        23.90        34.45 
TCGA-76-6663 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4941 TCGA-CS-5395 
       18.64         5.92         6.28        20.55         7.69        21.01 
TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-DB-5279 TCGA-DB-A64L TCGA-DB-A64O 
        6.38        17.69        26.76        44.52        24.20        25.48 
TCGA-DH-5140 TCGA-DH-A669 TCGA-DU-5847 TCGA-DU-5852 TCGA-DU-5854 TCGA-DU-6402 
       19.96        30.21        18.02         6.74         8.45         7.04 
TCGA-DU-6403 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-7006 TCGA-DU-7012 TCGA-DU-7013 
       11.64        19.89        16.83        11.47         6.54         8.84 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7298 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8165 
       10.36         7.96        18.94         5.10        23.74        19.13 
TCGA-DU-8167 TCGA-DU-A5TY TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7TD 
       15.48        33.96        11.41        26.76        21.30         7.50 
TCGA-DU-A7TJ TCGA-E1-5311 TCGA-E1-A7YD TCGA-E1-A7YJ TCGA-E1-A7YL TCGA-E1-A7YM 
        0.56       134.27        14.30        19.46        16.18        21.30 
TCGA-E1-A7YQ TCGA-E1-A7Z2 TCGA-FG-6688 TCGA-FG-6692 TCGA-FG-7643 TCGA-FG-A4MU 
       51.88        13.08        18.77        18.44        20.09        10.72 
TCGA-FG-A4MW TCGA-FG-A70Z TCGA-FG-A87Q TCGA-HT-7471 TCGA-HT-7857 TCGA-HT-7860 
       18.38        10.78         5.72         0.13         0.23         0.49 
TCGA-HT-7882 TCGA-HT-8011 TCGA-HT-8104 TCGA-HT-8110 TCGA-HT-8564 TCGA-HT-A4DS 
        3.72        16.24        12.23        13.78        15.72         0.23 
TCGA-HT-A5RA TCGA-HT-A5RC TCGA-HT-A617 TCGA-HT-A61C TCGA-HT-A74H TCGA-HW-A5KK 
       27.35         5.33        16.14        17.65         2.43        12.76 
TCGA-KT-A7W1 TCGA-P5-A72U TCGA-QH-A6CS TCGA-QH-A6CV TCGA-QH-A6XC TCGA-S9-A6TS 
       14.40         0.23        19.33        14.53        16.70        62.17 
TCGA-S9-A6U0 TCGA-S9-A6UA TCGA-S9-A6WM TCGA-S9-A7IX TCGA-S9-A7R2 TCGA-S9-A89V 
       24.39         5.85        19.86        26.93        10.39        18.71 
TCGA-TM-A7C3 TCGA-TM-A84B TCGA-TM-A84I TCGA-TM-A84J TCGA-TQ-A7RM TCGA-TQ-A7RP 
       54.77        24.92        28.08        24.16        36.69        30.05 
TCGA-VM-A8CD TCGA-VW-A8FI TCGA-06-0209 TCGA-02-0003 TCGA-02-0006 TCGA-02-0009 
        7.89         8.05         7.63         4.73        18.35        10.59 
TCGA-02-0014 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0027 TCGA-02-0033 
       82.59        87.06        77.65        20.12        12.16         2.83 
TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 
       14.14         3.62        10.72        10.52        18.31         6.87 
TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0055 TCGA-02-0057 
        3.22        15.09        12.59         6.54         2.50        19.86 
TCGA-02-0059 TCGA-02-0064 TCGA-02-0068 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 
        9.57        19.73        26.43        25.05         5.49        10.19 
TCGA-02-0075 TCGA-02-0079 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 TCGA-02-0089 
       20.84        27.25        12.62        51.32         8.81        16.96 
TCGA-02-0099 TCGA-02-0102 TCGA-02-0106 TCGA-02-0107 TCGA-02-0113 TCGA-02-0115 
        3.48        27.02        11.67        17.65        92.65        15.65 
TCGA-02-0116 TCGA-02-0260 TCGA-02-0269 TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 
       48.95        16.93        10.75         3.98        13.87        14.20 
TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 TCGA-02-0330 
       15.95        12.23         9.90         7.73        10.62        15.91 
TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0422 TCGA-02-0430 TCGA-02-0440 
       25.71         4.37        25.12        14.50        10.55        11.34 
TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 TCGA-02-2483 TCGA-02-2485 
        9.27        16.21         3.35        16.80        15.32        15.45 
TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 
       20.32         2.70         6.15        20.38        47.61         6.94 
TCGA-06-0127 TCGA-06-0128 TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 
        3.98        22.72        12.95        25.35        14.30        26.70 
TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0143 TCGA-06-0145 
       24.23        11.90         0.20        10.29        11.74         2.33 
TCGA-06-0147 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 
       17.79         8.61        19.46        46.59        12.33        13.94 
TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0162 TCGA-06-0164 
       10.45         3.19        10.82         9.44         3.42        56.91 
TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 
        5.85        19.66         3.29        13.12         4.47         3.22 
TCGA-06-0175 TCGA-06-0177 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 
        4.04         4.18        20.25         3.65        69.90        73.84 
TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 
       27.22        44.58        15.42        10.42        38.96         4.67 
TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 
        7.40         5.56         0.39         7.66         8.42         7.40 
TCGA-06-0211 TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 
       11.84        15.02        24.16         0.72        19.82        13.64 
TCGA-06-0238 TCGA-06-0241 TCGA-06-0394 TCGA-06-0402 TCGA-06-0409 TCGA-06-0410 
       13.32        48.69        10.82         0.26        72.36         4.70 
TCGA-06-0412 TCGA-06-0414 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 
        9.57        35.11        12.62         5.75         5.75         9.80 
TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 
        2.10        23.57        14.20        26.40        46.88         7.86 
TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 
        2.70         2.70         0.92        43.46        46.19         7.17 
TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1087 
       40.41        16.57        20.78        26.76        23.93         4.04 
TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-2557 TCGA-06-2558 
       26.79        11.84        15.32        13.61         1.08        12.49 
TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 
       17.65        12.56        30.64         5.95        16.64         5.98 
TCGA-06-2567 TCGA-06-6390 TCGA-06-6693 TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 
        4.37         5.39       120.56        22.68        37.84         4.18 
TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0352 
        1.74         8.42        25.71        12.16         9.80         1.28 
TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 
        8.42        17.95        24.56        31.10        37.58        22.29 
TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 
        3.39        12.23        14.93        18.02        15.35        13.97 
TCGA-08-0392 TCGA-08-0509 TCGA-08-0510 TCGA-08-0512 TCGA-08-0514 TCGA-08-0518 
        0.72        12.56         4.27        42.15        11.08        19.33 
TCGA-08-0520 TCGA-08-0521 TCGA-08-0529 TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 
       10.75         4.80        18.41        14.73        12.99        34.92 
TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 
       10.45         7.59        94.78         0.10        38.17        25.97 
TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 
       26.66        12.13         3.65        20.38        28.41        15.06 
TCGA-12-0772 TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 TCGA-12-0819 
       53.85         7.63         9.73        14.93        14.86        24.79 
TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0826 TCGA-12-0827 TCGA-12-0828 
       18.48        10.62        23.51        27.78        38.76         8.94 
TCGA-12-0829 TCGA-12-1088 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 
       20.58       127.59        33.21        15.98        12.23        15.85 
TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 
        9.11        14.53         3.98         2.24        11.24         1.35 
TCGA-14-0817 TCGA-14-0867 TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 
        5.39         2.04        28.93        19.30         0.79        13.78 
TCGA-15-1444 TCGA-15-1446 TCGA-15-1449 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 
       50.53        19.10        13.28        11.77        21.90         0.66 
TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1388 TCGA-19-1389 TCGA-26-5133 
       10.75         9.07         5.95        12.95         4.64        14.86 
TCGA-26-5134 TCGA-26-5139 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 
        5.49         1.58         2.33         7.30         5.26        14.93 
TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 
       11.28        17.88        14.53        11.77        31.27        23.44 
TCGA-28-5215 TCGA-28-5216 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-76-6280 
       11.01        13.64        22.68        12.76         5.42        11.38 
TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        5.42         3.75         1.61        17.72        26.30 

$`10P LOSS WILD-TYPE`
TCGA-06-6391 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        1.48        51.55        46.88        46.72        31.82        42.05 
TCGA-DU-7300 TCGA-DU-A76O TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 TCGA-FG-A87N 
       62.01        17.16        20.09        17.82        20.45        18.64 
TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 TCGA-06-5416 
       21.40        45.60        42.77        59.38        15.32         6.71 
TCGA-06-5858 TCGA-06-6701 TCGA-06-A6S0 TCGA-06-A7TL TCGA-12-1092 TCGA-14-1396 
        6.15         4.96         3.12        17.72        21.73         1.12 
TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1821 TCGA-14-3477 TCGA-14-4157 
       40.96         6.67        12.43        17.79         3.78         3.42 
TCGA-16-1460 TCGA-19-0960 TCGA-19-1390 TCGA-19-1787 TCGA-19-5958 TCGA-26-1443 
        6.41         8.61        25.38        12.66        14.07         7.13 
TCGA-27-2526 TCGA-28-1755 TCGA-28-1756 TCGA-32-1973 TCGA-32-1991 TCGA-32-2632 
        2.86         1.55         2.83        21.07        16.93         8.84 
TCGA-32-4208 TCGA-76-6664 TCGA-CS-4938 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 
       21.14        36.20       117.50        43.89        36.36        60.10 
TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5396 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 
       40.18         0.26        53.62        37.38        46.95        48.30 
TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.94        49.12       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       72.92        50.86        91.13        36.56        78.28        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG 
       18.84        30.21        39.78        37.45        33.57        72.95 
TCGA-DB-A4XH TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U 
       31.63        30.12         5.98        31.40        27.45        27.81 
TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M 
       29.23        14.40        18.51        12.10        11.24        17.88 
TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A66D 
       30.74        16.18        63.88        46.06        24.59        27.81 
TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU 
       17.19        17.19        54.25        23.21        17.46        13.71 
TCGA-DH-A7UV TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5853 TCGA-DU-5855 TCGA-DU-5870 
       18.61        14.56        17.46        13.38         6.81       182.33 
TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 
       18.94        17.49        15.16       211.17        52.11        22.42 
TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 
       49.02        75.16        46.06        65.75         1.22        87.45 
TCGA-DU-6404 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7007 
      133.74        94.52       114.08         7.96         2.40        62.96 
TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7014 TCGA-DU-7015 
      156.23       154.36        14.99       105.21       117.40        90.77 
TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7294 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 
       30.67        26.30        94.32        44.02        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 
       23.31        41.98         2.76        14.60        20.68        21.40 
TCGA-DU-8166 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT 
       16.96        14.17        33.27        29.85        31.69        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 
       26.17        24.99        25.55        21.57        95.11        20.98 
TCGA-DU-A6S8 TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC 
       22.29        17.98       139.04        84.33        51.52        37.38 
TCGA-DU-A7TG TCGA-DU-A7TI TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
       44.42        38.89        50.14        67.46        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YE TCGA-E1-A7YH 
       57.93        78.21        95.57       130.78        29.13        93.21 
TCGA-E1-A7YI TCGA-E1-A7YK TCGA-E1-A7YO TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV 
        3.65        12.43        75.02        15.32         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 
       36.82       146.14        73.48       145.05        32.35        39.48 
TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 
        0.23         0.20        47.77        25.48        52.21        36.82 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 
       14.93        42.54        41.33        15.35        17.88        22.55 
TCGA-FG-7641 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 
       20.61        28.34        13.68        14.24        16.01        14.96 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J 
       22.52        32.61        38.27        18.71        23.70        14.76 
TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A710 
       21.53        15.02        16.44        22.26        28.54        36.66 
TCGA-FG-A711 TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 
       48.69        27.52         0.10         6.67        11.54        40.11 
TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 
        0.03        16.54         3.75        17.42         6.54        24.26 
TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 
        6.38        40.34        75.19        95.93       106.95       172.77 
TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 
        4.01         5.03        29.85        23.18       122.47         4.57 
TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 
       17.29         3.16        22.06        45.99        56.09        57.60 
TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
        0.23        14.27         0.16        16.24         0.76        44.68 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 
        6.05        42.74         0.10        31.69        14.96         0.10 
TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 
        0.10         2.96        17.52         6.90        14.53        39.48 
TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7858 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 
       19.23        39.09        50.63        23.61        37.15         0.33 
TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7884 TCGA-HT-7902 
        0.13         3.68         5.33        35.47        11.28        31.43 
TCGA-HT-8010 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
        1.64         9.40        63.55         0.10        37.87        33.01 
TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8111 
        6.25         0.10         0.46         2.50         5.56         0.23 
TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 
       29.59        34.19        28.27        26.04         0.13        20.22 
TCGA-HT-A5R9 TCGA-HT-A5RB TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A618 
        0.07         0.10         2.70        16.93         1.81        16.83 
TCGA-HT-A61B TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
       17.52        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 
       45.44        41.49        68.32        69.27        35.44        39.75 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KL TCGA-HW-A5KM 
       40.01        42.54        24.92        31.63        28.87        20.71 
TCGA-IK-7675 TCGA-KT-A74X TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY 
       19.00        14.40         0.23         6.71         7.99         2.37 
TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 
        2.30         9.44         5.88         7.96         7.59         1.28 
TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 
       10.42        13.25        11.64        10.95         9.01        13.61 
TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 
        9.60         7.56        12.23        19.20         3.45         2.37 
TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z 
        4.41        15.16         2.53        12.62        15.85        14.04 
TCGA-QH-A6CU TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 
       14.83        13.61        12.23        13.41         9.17        10.29 
TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A86X 
       14.53        16.34        16.73         1.91        16.50        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y 
       12.99        88.83        94.03        32.65        30.87         5.46 
TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TU 
        9.90        28.08         2.07        19.59        30.67        87.12 
TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U1 
       18.77        41.10        40.93        35.38        36.82        25.81 
TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UB 
       29.85        32.61        35.15        98.24        95.93       123.65 
TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL 
       75.25       135.22        85.55        38.56        84.99        31.10 
TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS 
       26.47        18.61        18.64        14.07        36.13         7.92 
TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       23.51        19.99        20.02         8.19         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R3 
       15.06        18.54        28.37        27.16       169.84        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89Z TCGA-TM-A7C4 TCGA-TM-A7C5 
       30.05        98.63        31.59        20.48        48.33        49.32 
TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H 
       34.78        65.39        16.18        59.05        40.64        30.44 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ 
       23.80        21.37        19.69        15.98         2.04        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU 
       44.09        33.73        31.20        26.14        25.87        33.93 
TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA 
       61.41        26.99        31.36        45.93        43.20        13.51 
TCGA-VM-A8CB TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M 
        0.10        39.16        20.02        23.47        37.05        16.01 
TCGA-VW-A7QS TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A 
       23.21        51.06        13.32        43.96        39.88        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-02-0001 TCGA-02-0007 
       45.80        46.88        37.71        20.81        11.77        23.18 
TCGA-02-0010 TCGA-02-0011 TCGA-02-0015 TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 
       35.41        20.71        20.61        53.10        42.74        24.59 
TCGA-02-0028 TCGA-02-0047 TCGA-02-0058 TCGA-02-0060 TCGA-02-0069 TCGA-02-0080 
       90.58        14.73         8.35         6.02        28.70        89.72 
TCGA-02-0083 TCGA-02-0087 TCGA-02-0104 TCGA-02-0111 TCGA-02-0114 TCGA-02-0258 
       22.72        57.76        65.00        23.18        99.98        16.54 
TCGA-02-0266 TCGA-02-0271 TCGA-02-0326 TCGA-02-0338 TCGA-02-0339 TCGA-02-0432 
       17.72        14.47         7.33        10.59        12.39        47.11 
TCGA-02-2470 TCGA-06-0129 TCGA-06-0142 TCGA-06-0146 TCGA-06-0148 TCGA-06-0160 
       12.92        33.67         2.20        20.09        10.09        11.80 
TCGA-06-0165 TCGA-06-0176 TCGA-06-0178 TCGA-06-0213 TCGA-06-0240 TCGA-06-0397 
       10.65        91.00        88.14         0.53        20.42         9.01 
TCGA-06-0413 TCGA-06-1086 TCGA-06-1805 TCGA-06-2559 TCGA-06-2569 TCGA-06-2570 
        3.16         6.84        33.90         4.93         0.43        31.50 
TCGA-06-6389 TCGA-06-6694 TCGA-08-0344 TCGA-08-0350 TCGA-08-0351 TCGA-08-0516 
        7.79         7.36       115.86        29.23        65.33        19.59 
TCGA-08-0517 TCGA-08-0524 TCGA-08-0525 TCGA-08-0531 TCGA-12-0773 TCGA-12-0818 
       58.68         7.27        15.98         7.56        43.23        91.76 
TCGA-12-1089 TCGA-12-1090 TCGA-12-1099 TCGA-15-1447 TCGA-16-0846 TCGA-16-0849 
        5.82         7.59         4.14        53.19         3.91        26.07 
TCGA-16-0850 TCGA-26-1442 TCGA-26-6173 TCGA-28-5218 TCGA-32-2616 
       16.37        31.33         7.92         5.16         7.36 

  10P LOSS MUTATED 10P LOSS WILD-TYPE 
              0.10               0.03 
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
            134.27             211.17 
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
             12.56              22.72 
[1] "0.1 - 134.3 (12.6)" "0.0 - 211.2 (22.7)"
[1] "hr=" "6.2"
D60V2, continuous
D60V3, binary
                    cls
clus                   0   1
  10P LOSS MUTATED   476  83
  10P LOSS WILD-TYPE  97 429
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10P LOSS MUTATED    476   83
  10P LOSS WILD-TYPE   97  429
                        clus
vv                       10P LOSS MUTATED 10P LOSS WILD-TYPE
  BRAIN                               476                 97
  CENTRAL NERVOUS SYSTEM               83                429
[1] 2 2
[1] FALSE
D60V4, binary
                    cls
clus                   0   1
  10P LOSS MUTATED   219 340
  10P LOSS WILD-TYPE 234 292
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10P LOSS MUTATED    219  340
  10P LOSS WILD-TYPE  234  292
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  FEMALE              219                234
  MALE                340                292
[1] 2 2
[1] FALSE
D60V5, binary
                    cls
clus                   0   1
  10P LOSS MUTATED    78 453
  10P LOSS WILD-TYPE 180 317
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10P LOSS MUTATED     78  453
  10P LOSS WILD-TYPE  180  317
     clus
vv    10P LOSS MUTATED 10P LOSS WILD-TYPE
  NO                78                180
  YES              453                317
[1] 2 2
[1] FALSE
D60V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  10P LOSS MUTATED            49                            23               16
  10P LOSS WILD-TYPE         145                             7              113
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  10P LOSS MUTATED                  18                  10
  10P LOSS WILD-TYPE               171                   8
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  10P LOSS MUTATED                               443
  10P LOSS WILD-TYPE                              82
D60V7, multiclass
                                 clus
vv                                10P LOSS MUTATED 10P LOSS WILD-TYPE
  ASTROCYTOMA                                   49                145
  GLIOBLASTOMA MULTIFORME (GBM)                 23                  7
  OLIGOASTROCYTOMA                              16                113
  OLIGODENDROGLIOMA                             18                171
  TREATED PRIMARY GBM                           10                  8
  UNTREATED PRIMARY (DE NOVO) GBM              443                 82
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  10P LOSS MUTATED                                  1     9
  10P LOSS WILD-TYPE                                0    12
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  10P LOSS MUTATED                          50   478
  10P LOSS WILD-TYPE                        21   481
D60V8, multiclass
                                  clus
vv                                 10P LOSS MUTATED 10P LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                1                  0
  ASIAN                                           9                 12
  BLACK OR AFRICAN AMERICAN                      50                 21
  WHITE                                         478                481
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D60V9, binary
                    cls
clus                   0   1
  10P LOSS MUTATED    12 467
  10P LOSS WILD-TYPE  32 454
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10P LOSS MUTATED     12  467
  10P LOSS WILD-TYPE   32  454
                        clus
vv                       10P LOSS MUTATED 10P LOSS WILD-TYPE
  HISPANIC OR LATINO                   12                 32
  NOT HISPANIC OR LATINO              467                454
[1] 2 2
[1] FALSE

Clustering(61) Variable = 10Q LOSS MUTATION ANALYSIS
D61V1, survival
                    sevent
clus2                  0   1
  10Q LOSS MUTATED   120 465
  10Q LOSS WILD-TYPE 360 133
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
               585                493 
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
               465                133 
$`10Q LOSS MUTATED`
TCGA-19-A6J4 TCGA-CS-6665 TCGA-E1-A7YN TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 
        3.98        51.55        23.90        11.74         3.55         8.35 
TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 TCGA-06-5418 TCGA-06-5856 
        4.54         8.81         8.98         8.55         2.73         3.75 
TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 
        4.57         5.23         8.32        12.85         4.77         1.55 
TCGA-06-6700 TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK 
        4.77        26.79         1.87         3.12         2.56        14.60 
TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 
       17.72        15.35        21.73        15.65        25.68        14.73 
TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 
        6.77        59.77        44.02        26.93        15.22        10.95 
TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 
       12.69        34.92        14.53        14.93         3.22         2.04 
TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 
       15.12        11.97         0.95         6.21        23.05        13.78 
TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 
        3.25         2.89        16.50        26.33        15.95         1.38 
TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 
        3.75        32.05        58.78        23.11         7.10         1.15 
TCGA-14-1454 TCGA-14-1455 TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 TCGA-14-1823 
       30.18         0.92        12.43         0.99         1.97        17.85 
TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-3477 
        7.63         5.88         7.17        17.49         7.96         3.78 
TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 
       17.59        29.03         4.57        10.29        14.01         9.14 
TCGA-16-1062 TCGA-16-1063 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1392 
       21.24        13.97         8.61        14.27         3.39         3.65 
TCGA-19-1786 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 
        7.17         3.25         0.13         9.67         4.87         1.08 
TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 
        7.53         0.16         4.08        24.23         7.00         7.04 
TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 
        6.64        17.19         8.02        18.90         4.73        12.10 
TCGA-19-5955 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-26-1438 TCGA-26-1439 
        1.78        16.80        14.96        17.79        10.03        13.87 
TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 
        9.73         7.13         9.37         9.40         8.88        18.97 
TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 
       19.33         5.06        16.60         9.86        24.23        40.54 
TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 
       21.30        30.05        14.04        11.51        24.76        18.08 
TCGA-27-2521 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 
       16.77         7.59         2.86        14.40        15.78         0.20 
TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 
        2.53         9.21         8.35         7.63         8.48         1.22 
TCGA-28-1755 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 TCGA-32-1970 
        1.55         0.13         0.66         6.74         4.77        15.39 
TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 
        0.49         0.10        15.85        19.50         1.18         4.67 
TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 
       12.69        14.86        16.93        12.23        20.78        15.02 
TCGA-32-2615 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 
       15.95        22.78        25.18        21.14         3.72        12.59 
TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 
       19.86        10.85        19.23         0.85        13.35         8.94 
TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 TCGA-41-4097 TCGA-41-5651 
        9.53         0.99         4.44        11.84         0.20        15.12 
TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 
       12.46         4.08         1.45        25.58         3.45        20.91 
TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 
        4.34        14.33         8.22         7.50         4.80         4.54 
TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 
        3.09         3.65         9.17         2.53        36.85        16.70 
TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 
        3.29         2.70        17.06         8.35        20.98         4.83 
TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-OX-A56R TCGA-RR-A6KC 
        5.03        23.90        34.45        18.64         5.92        20.55 
TCGA-CS-4941 TCGA-CS-5395 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-DB-5279 
        7.69        21.01         6.38        17.69        26.76        44.52 
TCGA-DB-A64L TCGA-DB-A64O TCGA-DH-5140 TCGA-DH-A669 TCGA-DH-A7UU TCGA-DU-5847 
       24.20        25.48        19.96        30.21        13.71        18.02 
TCGA-DU-5852 TCGA-DU-5854 TCGA-DU-6396 TCGA-DU-6399 TCGA-DU-6402 TCGA-DU-6403 
        6.74         8.45        75.16        65.75         7.04        11.64 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-7006 TCGA-DU-7008 TCGA-DU-7010 TCGA-DU-7012 
       19.89        16.83        11.47       156.23        14.99         6.54 
TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7298 TCGA-DU-8158 
        8.84       117.40        10.36         7.96        18.94         5.10 
TCGA-DU-8161 TCGA-DU-8165 TCGA-DU-8167 TCGA-DU-A5TY TCGA-DU-A76K TCGA-DU-A76L 
       23.74        19.13        15.48        33.96        11.41        26.76 
TCGA-DU-A76R TCGA-DU-A7TD TCGA-DU-A7TJ TCGA-E1-5311 TCGA-E1-A7YD TCGA-E1-A7YJ 
       21.30         7.50         0.56       134.27        14.30        19.46 
TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YQ TCGA-E1-A7YV TCGA-E1-A7Z2 TCGA-FG-6688 
       16.18        21.30        51.88        32.45        13.08        18.77 
TCGA-FG-6692 TCGA-FG-7643 TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A6J3 TCGA-FG-A70Z 
       18.44        20.09        10.72        18.38        22.26        10.78 
TCGA-FG-A87Q TCGA-HT-7471 TCGA-HT-7483 TCGA-HT-7857 TCGA-HT-7860 TCGA-HT-7882 
        5.72         0.13       172.77         0.23         0.49         3.72 
TCGA-HT-8011 TCGA-HT-8104 TCGA-HT-8110 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A5R7 
       16.24        12.23        13.78        15.72         0.23        20.22 
TCGA-HT-A5RA TCGA-HT-A5RC TCGA-HT-A617 TCGA-HT-A61C TCGA-HT-A74H TCGA-HW-8321 
       27.35         5.33        16.14        17.65         2.43        42.54 
TCGA-HW-A5KK TCGA-KT-A7W1 TCGA-P5-A5EZ TCGA-P5-A72U TCGA-QH-A6CS TCGA-QH-A6CV 
       12.76        14.40         2.30         0.23        19.33        14.53 
TCGA-QH-A6CX TCGA-QH-A6XC TCGA-S9-A6TS TCGA-S9-A6U0 TCGA-S9-A6UA TCGA-S9-A6WM 
       12.23        16.70        62.17        24.39         5.85        19.86 
TCGA-S9-A7IX TCGA-S9-A7R2 TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A84B TCGA-TM-A84I 
       26.93        10.39        20.48        54.77        24.92        28.08 
TCGA-TM-A84J TCGA-TQ-A7RM TCGA-TQ-A7RP TCGA-VM-A8CD TCGA-VW-A8FI TCGA-06-0209 
       24.16        36.69        30.05         7.89         8.05         7.63 
TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 TCGA-02-0014 
        4.73        18.35        23.18        10.59        35.41        82.59 
TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0026 TCGA-02-0027 TCGA-02-0033 
       87.06        77.65        20.12        24.59        12.16         2.83 
TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 
       14.14         3.62        10.72        10.52        18.31         6.87 
TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0055 TCGA-02-0057 
        3.22        15.09        12.59         6.54         2.50        19.86 
TCGA-02-0059 TCGA-02-0064 TCGA-02-0068 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 
        9.57        19.73        26.43        25.05         5.49        10.19 
TCGA-02-0075 TCGA-02-0079 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 
       20.84        27.25        22.72        12.62        51.32         8.81 
TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0106 TCGA-02-0107 TCGA-02-0113 
       16.96         3.48        27.02        11.67        17.65        92.65 
TCGA-02-0115 TCGA-02-0116 TCGA-02-0260 TCGA-02-0269 TCGA-02-0281 TCGA-02-0285 
       15.65        48.95        16.93        10.75         3.98        13.87 
TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 
       14.20        15.95        12.23         9.90         7.73        10.62 
TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0422 TCGA-02-0430 
       15.91        25.71         4.37        25.12        14.50        10.55 
TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 TCGA-02-2483 
       11.34         9.27        16.21         3.35        16.80        15.32 
TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 
       15.45        20.32         2.70         6.15        20.38        47.61 
TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 TCGA-06-0132 
        6.94         3.98        22.72        33.67        12.95        25.35 
TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 
       14.30        26.70        24.23        11.90         0.20        10.29 
TCGA-06-0143 TCGA-06-0145 TCGA-06-0147 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 
       11.74         2.33        17.79         8.61        19.46        46.59 
TCGA-06-0152 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0162 
       12.33        10.45         3.19        10.82         9.44         3.42 
TCGA-06-0164 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 
       56.91         5.85        19.66         3.29        13.12         4.47 
TCGA-06-0174 TCGA-06-0175 TCGA-06-0177 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 
        3.22         4.04         4.18        20.25         3.65        69.90 
TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 
       73.84        27.22        44.58        15.42        10.42        38.96 
TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 
        4.67         7.40         5.56         0.39         7.66         8.42 
TCGA-06-0210 TCGA-06-0211 TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 
        7.40        11.84        15.02        24.16         0.72        19.82 
TCGA-06-0237 TCGA-06-0238 TCGA-06-0241 TCGA-06-0394 TCGA-06-0402 TCGA-06-0409 
       13.64        13.32        48.69        10.82         0.26        72.36 
TCGA-06-0410 TCGA-06-0412 TCGA-06-0414 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 
        4.70         9.57        35.11        12.62         5.75         5.75 
TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 
        9.80         2.10        23.57        14.20        26.40        46.88 
TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 
        7.86         2.70         2.70         0.92        43.46        46.19 
TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 
        7.17        40.41        16.57        20.78        26.76        23.93 
TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 
        4.04        26.79        11.84        15.32        13.61        33.90 
TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 
        1.08        12.49         4.93        17.65        12.56        30.64 
TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-6390 TCGA-06-6693 
        5.95        16.64         5.98         4.37         5.39       120.56 
TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 
       22.68        37.84         4.18         1.74         8.42        25.71 
TCGA-08-0348 TCGA-08-0349 TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 
       12.16         9.80         1.28         8.42        17.95        24.56 
TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 
       31.10        37.58        22.29         3.39        12.23        14.93 
TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 TCGA-08-0510 
       18.02        15.35        13.97         0.72        12.56         4.27 
TCGA-08-0512 TCGA-08-0514 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0525 
       42.15        11.08        19.33        10.75         4.80        15.98 
TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 
       18.41         7.56        14.73        12.99        34.92        10.45 
TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 
        7.59        94.78         0.10        38.17        25.97        26.66 
TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0775 
        3.65        20.38        28.41        15.06        53.85         7.63 
TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 
        9.73        14.93        14.86        24.79        18.48        10.62 
TCGA-12-0822 TCGA-12-0826 TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 
       23.51        27.78        38.76         8.94        20.58       127.59 
TCGA-12-1089 TCGA-12-1091 TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 
        5.82        33.21        12.23        15.85         9.11        14.53 
TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 TCGA-14-0867 TCGA-14-0871 
        2.24        11.24         1.35         5.39         2.04        28.93 
TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 TCGA-15-1449 
       19.30         0.79        13.78        50.53        19.10        13.28 
TCGA-16-0850 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 
       16.37        21.90         0.66        10.75         9.07         5.95 
TCGA-19-1388 TCGA-19-1389 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 
       12.95         4.64        14.86         5.49         1.58         7.92 
TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 
        2.33         7.30         5.26        14.93        11.28        17.88 
TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5215 TCGA-28-5216 
       14.53        11.77        31.27        23.44        11.01        13.64 
TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 
       22.68        12.76         5.42        11.38         5.42         3.75 
TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        1.61        17.72        26.30 

$`10Q LOSS WILD-TYPE`
TCGA-06-6391 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B TCGA-DU-7300 
        1.48        46.88        46.72        31.82        42.05        62.01 
TCGA-DU-A76O TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 TCGA-FG-A87N TCGA-HT-A619 
       17.16        20.09        17.82        20.45        18.64        21.40 
TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 TCGA-06-5416 TCGA-06-5858 
       45.60        42.77        59.38        15.32         6.71         6.15 
TCGA-06-6701 TCGA-14-1396 TCGA-14-1456 TCGA-14-1458 TCGA-14-1821 TCGA-14-4157 
        4.96         1.12        40.96         6.67        17.79         3.42 
TCGA-16-1460 TCGA-19-1390 TCGA-19-1787 TCGA-19-5956 TCGA-19-5958 TCGA-19-A6J5 
        6.41        25.38        12.66        22.49        14.07        28.54 
TCGA-27-2523 TCGA-28-1756 TCGA-32-1973 TCGA-32-2632 TCGA-76-6664 TCGA-RR-A6KA 
       16.08         2.83        21.07         8.84        36.20         6.28 
TCGA-CS-4938 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 
      117.50        43.89        36.36        60.10        40.18         0.26 
TCGA-CS-5396 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 
       53.62        37.38        46.95        48.30        49.94        49.12 
TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 
      122.73        81.96        75.25        47.93        72.92        50.86 
TCGA-DB-5278 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB 
       91.13        36.56        78.28        46.42        18.84        30.21 
TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64P 
       39.78        37.45        33.57        72.95        31.63        30.12 
TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W 
        5.98        31.40        27.45        27.81        29.23        14.40 
TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G 
       63.88        46.06        24.59        27.81        17.19        17.19 
TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UV TCGA-DU-5849 TCGA-DU-5851 
       54.25        23.21        17.46        18.61        14.56        17.46 
TCGA-DU-5853 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 
       13.38         6.81       182.33        18.94        17.49        15.16 
TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6397 TCGA-DU-6400 
      211.17        52.11        22.42        49.02        46.06         1.22 
TCGA-DU-6401 TCGA-DU-6404 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 
       87.45       133.74        94.52       114.08         7.96         2.40 
TCGA-DU-7007 TCGA-DU-7009 TCGA-DU-7011 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
       62.96       154.36       105.21        90.77        30.67        26.30 
TCGA-DU-7294 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 
       94.32        44.02        25.91        60.30        23.31        41.98 
TCGA-DU-7309 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8166 TCGA-DU-8168 
        2.76        14.60        20.68        21.40        16.96        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       33.27        29.85        31.69        24.43        26.17        24.99 
TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A7T6 
       25.55        21.57        95.11        20.98        22.29        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TG TCGA-DU-A7TI 
      139.04        84.33        51.52        37.38        44.42        38.89 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5318 
       50.14        67.46        41.13        79.99        57.93        78.21 
TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YK 
       95.57       130.78        29.13        93.21         3.65        12.43 
TCGA-E1-A7YO TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z3 
       75.02        15.32         0.76        36.82       146.14        73.48 
TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 
      145.05        32.35        39.48         0.23         0.20        47.77 
TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       25.48        52.21        36.82        14.93        42.54        41.33 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-8181 TCGA-FG-8182 
       15.35        17.88        22.55        20.61        28.34        13.68 
TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT 
       14.24        16.01        14.96        22.52        32.61        38.27 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 
       18.71        23.70        14.76        21.53        15.02        16.44 
TCGA-FG-A70Y TCGA-FG-A710 TCGA-FG-A711 TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 
       28.54        36.66        48.69        27.52         0.10         6.67 
TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       11.54        40.11         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
        6.54        24.26         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      106.95         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
        4.57        17.29         3.16        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       57.60         0.23        14.27         0.16        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 
       44.68         6.05        42.74         0.10        31.69        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
        0.10         0.10         2.96        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7858 TCGA-HT-7873 TCGA-HT-7874 
       39.48        19.23        39.09        50.63        23.61        37.15 
TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7884 
        0.33         0.13         3.68         5.33        35.47        11.28 
TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 
       31.43         1.64         9.40        63.55         0.10        37.87 
TCGA-HT-8019 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 
       33.01         6.25         0.10         0.46         2.50         5.56 
TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-A4DV TCGA-HT-A5R5 
        0.23        29.59        34.19        28.27        26.04         0.13 
TCGA-HT-A5R9 TCGA-HT-A5RB TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A618 
        0.07         0.10         2.70        16.93         1.81        16.83 
TCGA-HT-A61B TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
       17.52        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 
       45.44        41.49        68.32        69.27        35.44        39.75 
TCGA-HW-8320 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 
       40.01        24.92        31.63        28.87        20.71        19.00 
TCGA-KT-A74X TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5F0 
       14.40         0.23         6.71         7.99         2.37         9.44 
TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72W TCGA-P5-A72X 
        5.88         7.96         7.59         1.28        10.42        13.25 
TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 
       11.64        10.95         9.01        13.61         9.60         7.56 
TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R 
       12.23        19.20         3.45         2.37         4.41        15.16 
TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CU TCGA-QH-A6CW 
        2.53        12.62        15.85        14.04        14.83        13.61 
TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
       13.41         9.17        10.29        14.53        16.34        16.73 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML 
        1.91        16.50        11.08        12.99        88.83        94.03 
TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 
       32.65        30.87         5.46         9.90        28.08         2.07 
TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX 
       19.59        30.67        87.12        18.77        41.10        40.93 
TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       35.38        36.82        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       98.24        95.93       123.65        75.25       135.22        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP 
       38.56        84.99        31.10        26.47        18.61        18.64 
TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 
       14.07        36.13         7.92        23.51        19.99        20.02 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY 
        8.19         2.04        20.68        15.06        18.54        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 
       27.16       169.84        99.06        30.05        98.63        31.59 
TCGA-S9-A89V TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84C 
       18.71        48.33        49.32        34.78        65.39        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O 
       59.05        40.64        30.44        40.83        24.79        33.24 
TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG 
       25.38        18.61        14.93        23.80        21.37        19.69 
TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RN TCGA-TQ-A7RO 
       15.98         2.04        40.41        44.09        33.73        31.20 
TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE 
       26.14        25.87        33.93        61.41        26.99        31.36 
TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CE TCGA-VM-A8CF 
       45.93        43.20        13.51         0.10        39.16        20.02 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-W9-A837 TCGA-WH-A86K 
       23.47        37.05        16.01        23.21        51.06        13.32 
TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D 
       43.96        39.88        43.40        45.80        46.88        37.71 
TCGA-WY-A85E TCGA-02-0001 TCGA-02-0011 TCGA-02-0015 TCGA-02-0024 TCGA-02-0025 
       20.81        11.77        20.71        20.61        53.10        42.74 
TCGA-02-0028 TCGA-02-0047 TCGA-02-0058 TCGA-02-0060 TCGA-02-0069 TCGA-02-0080 
       90.58        14.73         8.35         6.02        28.70        89.72 
TCGA-02-0087 TCGA-02-0104 TCGA-02-0111 TCGA-02-0114 TCGA-02-0258 TCGA-02-0266 
       57.76        65.00        23.18        99.98        16.54        17.72 
TCGA-02-0271 TCGA-02-0326 TCGA-02-0338 TCGA-02-0339 TCGA-02-0432 TCGA-02-2470 
       14.47         7.33        10.59        12.39        47.11        12.92 
TCGA-06-0142 TCGA-06-0146 TCGA-06-0148 TCGA-06-0154 TCGA-06-0160 TCGA-06-0165 
        2.20        20.09        10.09        13.94        11.80        10.65 
TCGA-06-0176 TCGA-06-0178 TCGA-06-0213 TCGA-06-0240 TCGA-06-0397 TCGA-06-0413 
       91.00        88.14         0.53        20.42         9.01         3.16 
TCGA-06-1086 TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 TCGA-06-6694 TCGA-08-0344 
        6.84         0.43        31.50         7.79         7.36       115.86 
TCGA-08-0350 TCGA-08-0351 TCGA-08-0516 TCGA-08-0517 TCGA-08-0524 TCGA-12-0691 
       29.23        65.33        19.59        58.68         7.27        12.13 
TCGA-12-0773 TCGA-12-0818 TCGA-12-1090 TCGA-12-1093 TCGA-12-1098 TCGA-12-1099 
       43.23        91.76         7.59        15.98         3.98         4.14 
TCGA-15-1447 TCGA-16-0846 TCGA-16-0849 TCGA-19-0955 TCGA-26-1442 TCGA-28-5218 
       53.19         3.91        26.07        11.77        31.33         5.16 
TCGA-32-2616 
        7.36 

  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
              0.10               0.03 
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
            172.77             211.17 
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
             12.62              23.18 
[1] "0.1 - 172.8 (12.6)" "0.0 - 211.2 (23.2)"
[1] "hr=" "5.7"
D61V2, continuous
D61V3, binary
                    cls
clus                   0   1
  10Q LOSS MUTATED   490  97
  10Q LOSS WILD-TYPE  83 415
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10Q LOSS MUTATED    490   97
  10Q LOSS WILD-TYPE   83  415
                        clus
vv                       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  BRAIN                               490                 83
  CENTRAL NERVOUS SYSTEM               97                415
[1] 2 2
[1] FALSE
D61V4, binary
                    cls
clus                   0   1
  10Q LOSS MUTATED   234 353
  10Q LOSS WILD-TYPE 219 279
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10Q LOSS MUTATED    234  353
  10Q LOSS WILD-TYPE  219  279
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  FEMALE              234                219
  MALE                353                279
[1] 2 2
[1] FALSE
D61V5, binary
                    cls
clus                   0   1
  10Q LOSS MUTATED    79 479
  10Q LOSS WILD-TYPE 179 291
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10Q LOSS MUTATED     79  479
  10Q LOSS WILD-TYPE  179  291
     clus
vv    10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  NO                79                179
  YES              479                291
[1] 2 2
[1] FALSE
D61V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  10Q LOSS MUTATED            57                            23               19
  10Q LOSS WILD-TYPE         137                             7              110
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  10Q LOSS MUTATED                  21                  13
  10Q LOSS WILD-TYPE               168                   5
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  10Q LOSS MUTATED                               454
  10Q LOSS WILD-TYPE                              71
D61V7, multiclass
                                 clus
vv                                10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  ASTROCYTOMA                                   57                137
  GLIOBLASTOMA MULTIFORME (GBM)                 23                  7
  OLIGOASTROCYTOMA                              19                110
  OLIGODENDROGLIOMA                             21                168
  TREATED PRIMARY GBM                           13                  5
  UNTREATED PRIMARY (DE NOVO) GBM              454                 71
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  10Q LOSS MUTATED                                  1     9
  10Q LOSS WILD-TYPE                                0    12
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  10Q LOSS MUTATED                          51   504
  10Q LOSS WILD-TYPE                        20   455
D61V8, multiclass
                                  clus
vv                                 10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                1                  0
  ASIAN                                           9                 12
  BLACK OR AFRICAN AMERICAN                      51                 20
  WHITE                                         504                455
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D61V9, binary
                    cls
clus                   0   1
  10Q LOSS MUTATED    12 494
  10Q LOSS WILD-TYPE  32 427
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  10Q LOSS MUTATED     12  494
  10Q LOSS WILD-TYPE   32  427
                        clus
vv                       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  HISPANIC OR LATINO                   12                 32
  NOT HISPANIC OR LATINO              494                427
[1] 2 2
[1] FALSE

Clustering(62) Variable = 11P LOSS MUTATION ANALYSIS
D62V1, survival
                    sevent
clus2                  0   1
  11P LOSS MUTATED    57 105
  11P LOSS WILD-TYPE 423 493
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
               162                916 
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
               105                493 
$`11P LOSS MUTATED`
TCGA-CS-6665 TCGA-06-1806 TCGA-06-5856 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-1602 
       51.55        15.32         3.75        14.60        17.72         6.77 
TCGA-12-3646 TCGA-12-3653 TCGA-14-0740 TCGA-14-0783 TCGA-14-0865 TCGA-14-1454 
       44.02        14.53        11.97         6.21        16.50        30.18 
TCGA-14-1459 TCGA-14-1794 TCGA-14-1821 TCGA-14-1823 TCGA-14-3477 TCGA-16-1045 
       12.43         0.99        17.79        17.85         3.78        29.03 
TCGA-19-1390 TCGA-19-1392 TCGA-19-2623 TCGA-19-5959 TCGA-19-5960 TCGA-26-1439 
       25.38         3.65         7.53        16.80        14.96        13.87 
TCGA-27-1830 TCGA-28-1756 TCGA-28-2509 TCGA-32-1976 TCGA-32-2615 TCGA-32-2632 
        5.06         2.83         4.77         0.49        15.95         8.84 
TCGA-32-4210 TCGA-32-4719 TCGA-41-3915 TCGA-74-6584 TCGA-76-4934 TCGA-DB-5277 
        3.72        10.85        11.84         7.50         2.53        50.86 
TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-A66G TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DU-6396 
       19.96        63.88        17.19        17.46        13.71        75.16 
TCGA-DU-6408 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7010 TCGA-DU-7014 
      114.08        11.47        62.96       156.23        14.99       117.40 
TCGA-DU-7015 TCGA-DU-8158 TCGA-DU-8165 TCGA-DU-A5TR TCGA-DU-A5TS TCGA-E1-5302 
       90.77         5.10        19.13        29.85        31.69        50.14 
TCGA-E1-5304 TCGA-E1-A7YE TCGA-E1-A7YI TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YV 
       41.13        29.13         3.65        12.43        16.18        32.45 
TCGA-FG-6689 TCGA-FG-A4MW TCGA-FG-A60L TCGA-HT-7470 TCGA-HT-7477 TCGA-HT-7478 
       14.93        18.38        21.53        40.11        24.26         6.38 
TCGA-HT-7601 TCGA-HT-7686 TCGA-HT-7693 TCGA-HT-7873 TCGA-HT-7902 TCGA-HT-8013 
        5.03        42.74        17.52        23.61        31.43        63.55 
TCGA-HT-8018 TCGA-HT-8111 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A5R7 TCGA-HT-A614 
       37.87         0.23        28.27        15.72        20.22         2.70 
TCGA-HT-A616 TCGA-HT-A618 TCGA-HT-A61B TCGA-HW-8319 TCGA-IK-7675 TCGA-P5-A5F6 
        1.81        16.83        17.52        39.75        19.00         1.28 
TCGA-QH-A65S TCGA-RY-A83Z TCGA-S9-A6TV TCGA-S9-A6WM TCGA-S9-A7R7 TCGA-S9-A89V 
        2.53         9.90        18.77        19.86        98.63        18.71 
TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A84I TCGA-TM-A84J TCGA-TQ-A7RR 
       20.48        54.77        48.33        28.08        24.16        25.87 
TCGA-VM-A8CF TCGA-WY-A859 TCGA-02-0001 TCGA-02-0010 TCGA-02-0024 TCGA-02-0033 
       20.02        39.88        11.77        35.41        53.10         2.83 
TCGA-02-0047 TCGA-02-0048 TCGA-02-0052 TCGA-02-0055 TCGA-02-0059 TCGA-02-0069 
       14.73         3.22        12.59         2.50         9.57        28.70 
TCGA-02-0074 TCGA-02-0075 TCGA-02-0084 TCGA-02-0086 TCGA-02-0087 TCGA-02-0113 
       10.19        20.84        12.62         8.81        57.76        92.65 
TCGA-02-0114 TCGA-02-0281 TCGA-02-0332 TCGA-02-0456 TCGA-02-2466 TCGA-06-0128 
       99.98         3.98        25.71         3.35        16.80        22.72 
TCGA-06-0159 TCGA-06-0166 TCGA-06-0174 TCGA-06-0177 TCGA-06-0184 TCGA-06-0192 
        9.44         5.85         3.22         4.18        69.90        38.96 
TCGA-06-0197 TCGA-06-0216 TCGA-06-0238 TCGA-06-0409 TCGA-06-0410 TCGA-06-0414 
        5.56        24.16        13.32        72.36         4.70        35.11 
TCGA-06-0649 TCGA-06-0686 TCGA-06-0876 TCGA-06-1086 TCGA-06-1800 TCGA-06-1805 
        2.10        14.20        46.19         6.84        26.79        33.90 
TCGA-06-2558 TCGA-06-2570 TCGA-06-6389 TCGA-06-6694 TCGA-08-0245 TCGA-08-0510 
       12.49        31.50         7.79         7.36        37.84         4.27 
TCGA-08-0520 TCGA-12-0616 TCGA-12-0619 TCGA-12-0772 TCGA-12-0819 TCGA-12-0822 
       10.75        14.73        34.92        53.85        24.79        23.51 
TCGA-12-0827 TCGA-12-1099 TCGA-14-0817 TCGA-14-0867 TCGA-14-0871 TCGA-15-1447 
       38.76         4.14         5.39         2.04        28.93        53.19 
TCGA-15-1449 TCGA-16-0846 TCGA-16-0850 TCGA-19-1387 TCGA-26-5133 TCGA-28-5216 
       13.28         3.91        16.37         5.95        14.86        13.64 

$`11P LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        1.48         3.98        46.88        46.72        31.82        42.05 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       62.01        17.16        23.90        20.09        17.82        20.45 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-5408 
       18.64        21.40        45.60        42.77        59.38        11.74 
TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 
        3.55         8.35         4.54         8.81         8.98         8.55 
TCGA-06-5416 TCGA-06-5418 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 
        6.71         2.73         6.15         4.57         5.23         8.32 
TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 
       12.85         4.77         1.55         4.77         4.96        26.79 
TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 
        1.87         3.12         2.56        15.35        21.73        15.65 
TCGA-12-1599 TCGA-12-1600 TCGA-12-3644 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 
       25.68        14.73        59.77        26.93        15.22        10.95 
TCGA-12-3651 TCGA-12-3652 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 
       12.69        34.92        14.93         3.22         2.04        15.12 
TCGA-14-0781 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 TCGA-14-0866 
        0.95        23.05        13.78         3.25         2.89        26.33 
TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 
       15.95         1.38         1.12         3.75        32.05        58.78 
TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 
       23.11         7.10         1.15         0.92        40.96         6.67 
TCGA-14-1795 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 
        1.97         7.63         5.88         7.17        17.49         7.96 
TCGA-14-4157 TCGA-16-0848 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 
        3.42        17.59         4.57        10.29        14.01         9.14 
TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 
       21.24        13.97         6.41         8.61        14.27         3.39 
TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 
        7.17        12.66         3.25         0.13         9.67         4.87 
TCGA-19-2621 TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 
        1.08         0.16         4.08        24.23         7.00         7.04 
TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 
        6.64        17.19         8.02        18.90         4.73        12.10 
TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 
        1.78        22.49        14.07        17.79        28.54        10.03 
TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 
        9.73         7.13         9.37         9.40         8.88        18.97 
TCGA-26-A7UX TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 
       19.33        16.60         9.86        24.23        40.54        21.30 
TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 
       30.05        14.04        11.51        24.76        18.08        16.77 
TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 
       16.08         7.59         2.86        14.40        15.78         0.20 
TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 
        2.53         9.21         8.35         7.63         8.48         1.22 
TCGA-28-1755 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-32-1970 TCGA-32-1973 
        1.55         0.13         0.66         6.74        15.39        21.07 
TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 
        0.10        15.85        19.50         1.18         4.67        12.69 
TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 TCGA-32-2634 
       14.86        16.93        12.23        20.78        15.02        22.78 
TCGA-32-2638 TCGA-32-4208 TCGA-32-4211 TCGA-32-4213 TCGA-32-5222 TCGA-41-2571 
       25.18        21.14        12.59        19.86        19.23         0.85 
TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 TCGA-41-4097 
       13.35         8.94         9.53         0.99         4.44         0.20 
TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 
       15.12        12.46         4.08         1.45        25.58         3.45 
TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-76-4925 TCGA-76-4926 
       20.91         4.34        14.33         8.22         4.80         4.54 
TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 
        3.09         3.65         9.17        36.85        16.70         3.29 
TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 
        2.70        17.06         8.35        20.98         4.83         5.03 
TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA 
       23.90        34.45        18.64        36.20         5.92         6.28 
TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 
       20.55       117.50         7.69        43.89        36.36        60.10 
TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.26        21.01        53.62         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 
       26.76        37.38        46.95        48.30        49.94        49.12 
TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5278 
      122.73        81.96        75.25        47.93        72.92        91.13 
TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB 
       44.52        36.56        78.28        46.42        18.84        30.21 
TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L 
       39.78        37.45        33.57        72.95        31.63        24.20 
TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U 
       25.48        30.12         5.98        31.40        27.45        27.81 
TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M 
       29.23        14.40        18.51        12.10        11.24        17.88 
TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D 
       30.74        16.18        46.06        24.59        30.21        27.81 
TCGA-DH-A66F TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 
       17.19        54.25        23.21        18.61        18.02        14.56 
TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 
       17.46         6.74        13.38         8.45         6.81       182.33 
TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 
       18.94        17.49        15.16       211.17        52.11        22.42 
TCGA-DU-6395 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 
       49.02        46.06        65.75         1.22        87.45         7.04 
TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6410 
       11.64       133.74        19.89        16.83        94.52         7.96 
TCGA-DU-6542 TCGA-DU-7009 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7018 
        2.40       154.36       105.21         6.54         8.84        30.67 
TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 
       26.30        10.36         7.96        94.32        18.94        44.02 
TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8161 
       25.91        60.30        23.31        41.98         2.76        23.74 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       14.60        20.68        21.40        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 
       33.27        24.43        26.17        24.99        33.96        25.55 
TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L 
       21.57        95.11        20.98        22.29        11.41        26.76 
TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC 
       21.30        17.98       139.04        84.33        51.52        37.38 
TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5303 TCGA-E1-5305 
        7.50        44.42        38.89         0.56        67.46        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       57.93       134.27        78.21        95.57       130.78        14.30 
TCGA-E1-A7YH TCGA-E1-A7YJ TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS 
       93.21        19.46        21.30        75.02        51.88        15.32 
TCGA-E1-A7YU TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
        0.76        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       52.21        36.82        18.77        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 
       15.35        17.88        22.55        20.61        20.09        28.34 
TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 
       13.68        14.24        16.01        14.96        22.52        32.61 
TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A6IZ 
       38.27        10.72        18.71        23.70        14.76        15.02 
TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 
       16.44        22.26        28.54        10.78        36.66        48.69 
TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7471 
        5.72        27.52         0.10         6.67        11.54         0.13 
TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7479 
        0.03        16.54         3.75        17.42         6.54        40.34 
TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7602 
       75.19        95.93       106.95       172.77         4.01        29.85 
TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 
       23.18       122.47         4.57        17.29         3.16        22.06 
TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 
       45.99        56.09        57.60         0.23        14.27         0.16 
TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7687 TCGA-HT-7688 
       16.24         0.76        44.68         6.05         0.10        31.69 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7694 TCGA-HT-7695 
       14.96         0.10         0.10         2.96         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 
       39.48        19.23        39.09         0.23        50.63         0.49 
TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
       37.15         0.33         0.13         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8015 
        3.72        11.28         1.64        16.24         9.40         0.10 
TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 
       33.01        12.23         6.25         0.10         0.46         2.50 
TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-A4DS TCGA-HT-A4DV 
        5.56        13.78        29.59        34.19         0.23        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A615 
        0.13         0.07        27.35         0.10         5.33        16.93 
TCGA-HT-A617 TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L 
       16.14        17.65         2.43        10.52        15.35        11.05 
TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 
        0.10        56.58        45.44        41.49        68.32        69.27 
TCGA-HW-7495 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK 
       35.44        40.01        42.54        24.92        31.63        12.76 
TCGA-HW-A5KL TCGA-HW-A5KM TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW 
       28.87        20.71        14.40        14.40         0.23         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        7.99         2.37         2.30         9.44         5.88         7.96 
TCGA-P5-A5F4 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 
        7.59         0.23        10.42        13.25        11.64        10.95 
TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W 
        9.01        13.61         9.60         7.56        12.23        19.20 
TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65V TCGA-QH-A65X 
        3.45         2.37         4.41        15.16        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX 
       14.04        19.33        14.83        14.53        13.61        12.23 
TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
       13.41         9.17        10.29        14.53        16.34        16.73 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
        1.91        16.50        16.70        11.08        12.99        88.83 
TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A840 TCGA-RY-A843 
       94.03        32.65        30.87         5.46        28.08         2.07 
TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TW TCGA-S9-A6TX 
       19.59        30.67        62.17        87.12        41.10        40.93 
TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 
       35.38        36.82        24.39        25.81        29.85        32.61 
TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD 
       35.15        98.24        95.93         5.85       123.65        75.25 
TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WN 
      135.22        85.55        38.56        84.99        31.10        26.47 
TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX 
       18.61        18.64        14.07        36.13         7.92        26.93 
TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       23.51        19.99        20.02         8.19         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 
       15.06        18.54        28.37        27.16       169.84        10.39 
TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R8 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF 
       99.06        30.05        31.59        49.32        34.78        65.39 
TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84L 
       24.92        16.18        59.05        40.64        30.44        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RU 
       36.69        33.73        31.20        30.05        26.14        33.93 
TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA 
       61.41        26.99        31.36        45.93        43.20        13.51 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M 
        0.10         7.89        39.16        23.47        37.05        16.01 
TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A85A 
       23.21         8.05        51.06        13.32        43.96        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 TCGA-02-0003 
       45.80        46.88        37.71        20.81         7.63         4.73 
TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 
       18.35        23.18        10.59        20.71        82.59        20.61 
TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 
       87.06        77.65        20.12        42.74        24.59        12.16 
TCGA-02-0028 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 
       90.58        14.14         3.62        10.72        10.52        18.31 
TCGA-02-0046 TCGA-02-0051 TCGA-02-0054 TCGA-02-0057 TCGA-02-0058 TCGA-02-0060 
        6.87        15.09         6.54        19.86         8.35         6.02 
TCGA-02-0064 TCGA-02-0068 TCGA-02-0070 TCGA-02-0071 TCGA-02-0079 TCGA-02-0080 
       19.73        26.43        25.05         5.49        27.25        89.72 
TCGA-02-0083 TCGA-02-0085 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 
       22.72        51.32        16.96         3.48        27.02        65.00 
TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 
       11.67        17.65        23.18        15.65        48.95        16.54 
TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 TCGA-02-0285 TCGA-02-0289 
       16.93        17.72        10.75        14.47        13.87        14.20 
TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 
       15.95        12.23         9.90         7.73        10.62         7.33 
TCGA-02-0330 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 
       15.91         4.37        25.12        10.59        12.39        14.50 
TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-2470 
       10.55        47.11        11.34         9.27        16.21        12.92 
TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 
       15.32        15.45        20.32         2.70         6.15        20.38 
TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0129 TCGA-06-0130 TCGA-06-0132 
       47.61         6.94         3.98        33.67        12.95        25.35 
TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 
       14.30        26.70        24.23        11.90         0.20        10.29 
TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 
        2.20        11.74         2.33        20.09        17.79        10.09 
TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 
        8.61        19.46        46.59        12.33        13.94        10.45 
TCGA-06-0157 TCGA-06-0158 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 
        3.19        10.82        11.80         3.42        56.91        10.65 
TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0175 TCGA-06-0176 
       19.66         3.29        13.12         4.47         4.04        91.00 
TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 
       88.14        20.25         3.65        73.84        27.22        44.58 
TCGA-06-0189 TCGA-06-0190 TCGA-06-0194 TCGA-06-0195 TCGA-06-0201 TCGA-06-0206 
       15.42        10.42         4.67         7.40         0.39         7.66 
TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 TCGA-06-0219 
        8.42         7.40        11.84         0.53        15.02         0.72 
TCGA-06-0221 TCGA-06-0237 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 
       19.82        13.64        20.42        48.69        10.82         9.01 
TCGA-06-0402 TCGA-06-0412 TCGA-06-0413 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 
        0.26         9.57         3.16        12.62         5.75         5.75 
TCGA-06-0648 TCGA-06-0650 TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 
        9.80        23.57        26.40        46.88         7.86         2.70 
TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 
        2.70         0.92        43.46         7.17        40.41        16.57 
TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1087 TCGA-06-1801 TCGA-06-1802 
       20.78        26.76        23.93         4.04        11.84        15.32 
TCGA-06-1804 TCGA-06-2557 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 
       13.61         1.08         4.93        17.65        12.56        30.64 
TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 TCGA-06-6390 
        5.95        16.64         5.98         4.37         0.43         5.39 
TCGA-06-6693 TCGA-08-0244 TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 
      120.56        22.68         4.18       115.86         1.74         8.42 
TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 
       25.71        12.16         9.80        29.23        65.33         1.28 
TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 
        8.42        17.95        24.56        31.10        37.58        22.29 
TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 
        3.39        12.23        14.93        18.02        15.35        13.97 
TCGA-08-0392 TCGA-08-0509 TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 
        0.72        12.56        42.15        11.08        19.59        58.68 
TCGA-08-0518 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 
       19.33         4.80         7.27        15.98        18.41         7.56 
TCGA-12-0618 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 
       12.99        10.45         7.59        94.78         0.10        38.17 
TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 
       25.97        26.66        12.13         3.65        20.38        28.41 
TCGA-12-0769 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 
       15.06        43.23         7.63         9.73        14.93        14.86 
TCGA-12-0818 TCGA-12-0820 TCGA-12-0821 TCGA-12-0826 TCGA-12-0828 TCGA-12-0829 
       91.76        18.48        10.62        27.78         8.94        20.58 
TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 
      127.59         5.82         7.59        33.21        15.98        12.23 
TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-14-0787 TCGA-14-0789 
       15.85         9.11        14.53         3.98         2.24        11.24 
TCGA-14-0813 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 
        1.35        19.30         0.79        13.78        50.53        19.10 
TCGA-16-0849 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 
       26.07        11.77        21.90         0.66        10.75         9.07 
TCGA-19-1388 TCGA-19-1389 TCGA-26-1442 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 
       12.95         4.64        31.33         5.49         1.58         7.92 
TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 
        2.33         7.30         5.26        14.93        11.28        17.88 
TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5215 TCGA-28-5218 
       14.53        11.77        31.27        23.44        11.01         5.16 
TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 
       22.68        12.76         5.42         7.36        11.38         5.42 
TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        3.75         1.61        17.72        26.30 

  11P LOSS MUTATED 11P LOSS WILD-TYPE 
              0.23               0.03 
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
            156.23             211.17 
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
             16.80              15.93 
[1] "0.2 - 156.2 (16.8)" "0.0 - 211.2 (15.9)"
[1] "hr=" "1.2"
D62V2, continuous
D62V3, binary
                    cls
clus                   0   1
  11P LOSS MUTATED    98  64
  11P LOSS WILD-TYPE 475 448
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11P LOSS MUTATED     98   64
  11P LOSS WILD-TYPE  475  448
                        clus
vv                       11P LOSS MUTATED 11P LOSS WILD-TYPE
  BRAIN                                98                475
  CENTRAL NERVOUS SYSTEM               64                448
[1] 2 2
[1] FALSE
D62V4, binary
                    cls
clus                   0   1
  11P LOSS MUTATED    81  81
  11P LOSS WILD-TYPE 372 551
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11P LOSS MUTATED     81   81
  11P LOSS WILD-TYPE  372  551
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  FEMALE               81                372
  MALE                 81                551
[1] 2 2
[1] FALSE
D62V5, binary
                    cls
clus                   0   1
  11P LOSS MUTATED    26 128
  11P LOSS WILD-TYPE 232 642
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11P LOSS MUTATED     26  128
  11P LOSS WILD-TYPE  232  642
     clus
vv    11P LOSS MUTATED 11P LOSS WILD-TYPE
  NO                26                232
  YES              128                642
[1] 2 2
[1] FALSE
D62V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  11P LOSS MUTATED            38                             4               14
  11P LOSS WILD-TYPE         156                            26              115
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  11P LOSS MUTATED                  12                   5
  11P LOSS WILD-TYPE               177                  13
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  11P LOSS MUTATED                                89
  11P LOSS WILD-TYPE                             436
D62V7, multiclass
                                 clus
vv                                11P LOSS MUTATED 11P LOSS WILD-TYPE
  ASTROCYTOMA                                   38                156
  GLIOBLASTOMA MULTIFORME (GBM)                  4                 26
  OLIGOASTROCYTOMA                              14                115
  OLIGODENDROGLIOMA                             12                177
  TREATED PRIMARY GBM                            5                 13
  UNTREATED PRIMARY (DE NOVO) GBM               89                436
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  11P LOSS MUTATED                                  0     1
  11P LOSS WILD-TYPE                                1    20
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  11P LOSS MUTATED                          11   147
  11P LOSS WILD-TYPE                        60   812
D62V8, multiclass
                                  clus
vv                                 11P LOSS MUTATED 11P LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           1                 20
  BLACK OR AFRICAN AMERICAN                      11                 60
  WHITE                                         147                812
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D62V9, binary
                    cls
clus                   0   1
  11P LOSS MUTATED     4 138
  11P LOSS WILD-TYPE  40 783
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11P LOSS MUTATED      4  138
  11P LOSS WILD-TYPE   40  783
                        clus
vv                       11P LOSS MUTATED 11P LOSS WILD-TYPE
  HISPANIC OR LATINO                    4                 40
  NOT HISPANIC OR LATINO              138                783
[1] 2 2
[1] FALSE

Clustering(63) Variable = 11Q LOSS MUTATION ANALYSIS
D63V1, survival
                    sevent
clus2                  0   1
  11Q LOSS MUTATED    23  89
  11Q LOSS WILD-TYPE 457 509
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
               112                966 
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                89                509 
$`11Q LOSS MUTATED`
TCGA-06-1806 TCGA-06-5856 TCGA-06-A7TK TCGA-12-1598 TCGA-12-1602 TCGA-12-3646 
       15.32         3.75        14.60        15.65         6.77        44.02 
TCGA-12-3651 TCGA-12-3653 TCGA-14-0783 TCGA-14-0865 TCGA-14-1454 TCGA-14-1459 
       12.69        14.53         6.21        16.50        30.18        12.43 
TCGA-14-1794 TCGA-14-1823 TCGA-14-3477 TCGA-16-1045 TCGA-19-1390 TCGA-19-1392 
        0.99        17.85         3.78        29.03        25.38         3.65 
TCGA-19-2623 TCGA-19-5959 TCGA-19-5960 TCGA-26-1439 TCGA-27-1830 TCGA-28-2509 
        7.53        16.80        14.96        13.87         5.06         4.77 
TCGA-32-1976 TCGA-32-1986 TCGA-32-2615 TCGA-32-2632 TCGA-32-4210 TCGA-32-4719 
        0.49        12.69        15.95         8.84         3.72        10.85 
TCGA-41-3915 TCGA-74-6584 TCGA-76-4934 TCGA-DH-5140 TCGA-DU-7006 TCGA-DU-7010 
       11.84         7.50         2.53        19.96        11.47        14.99 
TCGA-DU-8158 TCGA-DU-8165 TCGA-E1-5304 TCGA-E1-A7YL TCGA-FG-A4MW TCGA-HT-7477 
        5.10        19.13        41.13        16.18        18.38        24.26 
TCGA-HT-8018 TCGA-HT-8111 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A5R7 TCGA-HT-A614 
       37.87         0.23        28.27        15.72        20.22         2.70 
TCGA-HT-A61B TCGA-P5-A5F6 TCGA-S9-A6TV TCGA-S9-A6WM TCGA-S9-A89V TCGA-TM-A7C3 
       17.52         1.28        18.77        19.86        18.71        54.77 
TCGA-TM-A84I TCGA-02-0001 TCGA-02-0010 TCGA-02-0024 TCGA-02-0033 TCGA-02-0048 
       28.08        11.77        35.41        53.10         2.83         3.22 
TCGA-02-0052 TCGA-02-0055 TCGA-02-0059 TCGA-02-0069 TCGA-02-0074 TCGA-02-0075 
       12.59         2.50         9.57        28.70        10.19        20.84 
TCGA-02-0086 TCGA-02-0111 TCGA-02-0113 TCGA-02-0281 TCGA-02-0332 TCGA-02-0339 
        8.81        23.18        92.65         3.98        25.71        12.39 
TCGA-02-0456 TCGA-06-0130 TCGA-06-0159 TCGA-06-0166 TCGA-06-0174 TCGA-06-0177 
        3.35        12.95         9.44         5.85         3.22         4.18 
TCGA-06-0184 TCGA-06-0188 TCGA-06-0190 TCGA-06-0192 TCGA-06-0195 TCGA-06-0197 
       69.90        44.58        10.42        38.96         7.40         5.56 
TCGA-06-0216 TCGA-06-0238 TCGA-06-0409 TCGA-06-0410 TCGA-06-0414 TCGA-06-0649 
       24.16        13.32        72.36         4.70        35.11         2.10 
TCGA-06-0686 TCGA-06-0876 TCGA-06-1800 TCGA-06-6389 TCGA-08-0245 TCGA-08-0510 
       14.20        46.19        26.79         7.79        37.84         4.27 
TCGA-08-0520 TCGA-12-0616 TCGA-12-0619 TCGA-12-0772 TCGA-12-0819 TCGA-12-0822 
       10.75        14.73        34.92        53.85        24.79        23.51 
TCGA-12-1099 TCGA-14-0817 TCGA-14-0867 TCGA-14-0871 TCGA-15-1449 TCGA-16-0846 
        4.14         5.39         2.04        28.93        13.28         3.91 
TCGA-16-0850 TCGA-19-1387 TCGA-28-5216 TCGA-81-5910 
       16.37         5.95        13.64         1.61 

$`11Q LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K 
       42.05        62.01        17.16        23.90        20.09        17.82 
TCGA-FG-A713 TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M 
       20.45        18.64        21.40        45.60        42.77        59.38 
TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 
       11.74         3.55         8.35         4.54         8.81         8.98 
TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 
        8.55         6.71         2.73         6.15         4.57         5.23 
TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 
        8.32        12.85         4.77         1.55         4.77         4.96 
TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TL TCGA-12-0615 
       26.79         1.87         3.12         2.56        17.72        15.35 
TCGA-12-1092 TCGA-12-1599 TCGA-12-1600 TCGA-12-3644 TCGA-12-3648 TCGA-12-3649 
       21.73        25.68        14.73        59.77        26.93        15.22 
TCGA-12-3650 TCGA-12-3652 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 
       10.95        34.92        14.93         3.22         2.04        15.12 
TCGA-14-0740 TCGA-14-0781 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 
       11.97         0.95        23.05        13.78         3.25         2.89 
TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 
       26.33        15.95         1.38         1.12         3.75        32.05 
TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 TCGA-14-1455 TCGA-14-1456 
       58.78        23.11         7.10         1.15         0.92        40.96 
TCGA-14-1458 TCGA-14-1795 TCGA-14-1821 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 
        6.67         1.97        17.79         7.63         5.88         7.17 
TCGA-14-2554 TCGA-14-2555 TCGA-14-4157 TCGA-16-0848 TCGA-16-1047 TCGA-16-1055 
       17.49         7.96         3.42        17.59         4.57        10.29 
TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 
       14.01         9.14        21.24        13.97         6.41         8.61 
TCGA-19-0963 TCGA-19-0964 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 
       14.27         3.39         7.17        12.66         3.25         0.13 
TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 
        9.67         4.87         1.08         0.16         4.08        24.23 
TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 
        7.00         7.04         6.64        17.19         8.02        18.90 
TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-A60I 
        4.73        12.10         1.78        22.49        14.07        17.79 
TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 
       28.54        10.03         9.73         7.13         9.37         9.40 
TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 
        8.88        18.97        19.33        16.60         9.86        24.23 
TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 
       40.54        21.30        30.05        14.04        11.51        24.76 
TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 
       18.08        16.77        16.08         7.59         2.86        14.40 
TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 
       15.78         0.20         2.53         9.21         8.35         7.63 
TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 
        8.48         1.22         1.55         2.83         0.13         0.66 
TCGA-28-2506 TCGA-32-1970 TCGA-32-1973 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 
        6.74        15.39        21.07         0.10        15.85        19.50 
TCGA-32-1980 TCGA-32-1982 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 
        1.18         4.67        14.86        16.93        12.23        20.78 
TCGA-32-2495 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 TCGA-32-4211 TCGA-32-4213 
       15.02        22.78        25.18        21.14        12.59        19.86 
TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 
       19.23         0.85        13.35         8.94         9.53         0.99 
TCGA-41-3393 TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S 
        4.44         0.20        15.12        12.46         4.08         1.45 
TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 
       25.58         3.45        20.91         4.34        14.33         8.22 
TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4935 
        4.80         4.54         3.09         3.65         9.17        36.85 
TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 
       16.70         3.29         2.70        17.06         8.35        20.98 
TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 
        4.83         5.03        23.90        34.45        18.64        36.20 
TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 
        5.92         6.28        20.55       117.50         7.69        43.89 
TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 
       36.36        60.10        40.18         0.26        21.01        53.62 
TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 
        6.38        17.69        26.76        37.38        46.95        48.30 
TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.94        49.12       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       46.42        18.84        30.21        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5142 
       12.10        11.24        17.88        30.74        16.18        63.88 
TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G 
       46.06        24.59        30.21        27.81        17.19        17.19 
TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 
       54.25        23.21        17.46        13.71        18.61        18.02 
TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 
       14.56        17.46         6.74        13.38         8.45         6.81 
TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 
      182.33        18.94        17.49        15.16       211.17        52.11 
TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 
       22.42        49.02        75.16        46.06        65.75         1.22 
TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 
       87.45         7.04        11.64       133.74        19.89        16.83 
TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7007 TCGA-DU-7008 
       94.52       114.08         7.96         2.40        62.96       156.23 
TCGA-DU-7009 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 
      154.36       105.21         6.54         8.84       117.40        90.77 
TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 
       30.67        26.30        10.36         7.96        94.32        18.94 
TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 
       44.02        25.91        60.30        23.31        41.98         2.76 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8166 TCGA-DU-8167 
       23.74        14.60        20.68        21.40        16.96        15.48 
TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU 
       14.17        33.27        29.85        31.69        24.43        26.17 
TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 
       24.99        33.96        25.55        21.57        95.11        20.98 
TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 
       22.29        11.41        26.76        21.30        17.98       139.04 
TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI 
       84.33        51.52        37.38         7.50        44.42        38.89 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 
        0.56        50.14        67.46        79.99        57.93       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH 
       78.21        95.57       130.78        14.30        29.13        93.21 
TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ 
        3.65        19.46        12.43        21.30        75.02        51.88 
TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 
       15.32         0.76        32.45        36.82       146.14        13.08 
TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 
       73.48       145.05        32.35        39.48         0.23         0.20 
TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 
       47.77        25.48        52.21        36.82        18.77        14.93 
TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 
       42.54        41.33        18.44        15.35        17.88        22.55 
TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 
       20.61        20.09        28.34        13.68        14.24        16.01 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MX 
       14.96        22.52        32.61        38.27        10.72        18.71 
TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 
       23.70        14.76        21.53        15.02        16.44        22.26 
TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 
       28.54        10.78        36.66        48.69         5.72        27.52 
TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 
        0.10         6.67        11.54        40.11         0.13         0.03 
TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7478 TCGA-HT-7479 
       16.54         3.75        17.42         6.54         6.38        40.34 
TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 
       75.19        95.93       106.95       172.77         4.01         5.03 
TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 
       29.85        23.18       122.47         4.57        17.29         3.16 
TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 
       22.06        45.99        56.09        57.60         0.23        14.27 
TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 
        0.16        16.24         0.76        44.68         6.05        42.74 
TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 
        0.10        31.69        14.96         0.10         0.10         2.96 
TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 
       17.52         6.90        14.53        39.48        19.23        39.09 
TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 
        0.23        50.63         0.49        23.61        37.15         0.33 
TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 
        0.13         3.68         5.33        35.47         3.72        11.28 
TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 
       31.43         1.64        16.24         9.40        63.55         0.10 
TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 
       33.01        12.23         6.25         0.10         0.46         2.50 
TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-A4DS TCGA-HT-A4DV 
        5.56        13.78        29.59        34.19         0.23        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A615 
        0.13         0.07        27.35         0.10         5.33        16.93 
TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J 
        1.81        16.14        16.83        17.65         2.43        10.52 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 
       15.35        11.05         0.10        56.58        45.44        41.49 
TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       68.32        69.27        35.44        39.75        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 
       24.92        31.63        12.76        28.87        20.71        19.00 
TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY 
       14.40        14.40         0.23         6.71         7.99         2.37 
TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A72U 
        2.30         9.44         5.88         7.96         7.59         0.23 
TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 
       10.42        13.25        11.64        10.95         9.01        13.61 
TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 
        9.60         7.56        12.23        19.20         3.45         2.37 
TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z 
        4.41        15.16         2.53        12.62        15.85        14.04 
TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY 
       19.33        14.83        14.53        13.61        12.23        13.41 
TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 
        9.17        10.29        14.53        16.34        16.73         1.91 
TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML 
       16.50        16.70        11.08        12.99        88.83        94.03 
TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 
       32.65        30.87         5.46         9.90        28.08         2.07 
TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TW TCGA-S9-A6TX 
       19.59        30.67        62.17        87.12        41.10        40.93 
TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 
       35.38        36.82        24.39        25.81        29.85        32.61 
TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD 
       35.15        98.24        95.93         5.85       123.65        75.25 
TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WN 
      135.22        85.55        38.56        84.99        31.10        26.47 
TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX 
       18.61        18.64        14.07        36.13         7.92        26.93 
TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       23.51        19.99        20.02         8.19         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 
       15.06        18.54        28.37        27.16       169.84        10.39 
TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89Z TCGA-TM-A7C4 
       99.06        30.05        98.63        31.59        20.48        48.33 
TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F 
       49.32        34.78        65.39        24.92        16.18        59.05 
TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O 
       40.64        30.44        24.16        40.83        24.79        33.24 
TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG 
       25.38        18.61        14.93        23.80        21.37        19.69 
TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN 
       15.98         2.04        40.41        44.09        36.69        33.73 
TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV 
       31.20        30.05        26.14        25.87        33.93        61.41 
TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB 
       26.99        31.36        45.93        43.20        13.51         0.10 
TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M 
        7.89        39.16        20.02        23.47        37.05        16.01 
TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 
       23.21         8.05        51.06        13.32        43.96        39.88 
TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 
       43.40        45.80        46.88        37.71        20.81         7.63 
TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0011 TCGA-02-0014 
        4.73        18.35        23.18        10.59        20.71        82.59 
TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0025 TCGA-02-0026 
       20.61        87.06        77.65        20.12        42.74        24.59 
TCGA-02-0027 TCGA-02-0028 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 
       12.16        90.58        14.14         3.62        10.72        10.52 
TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0051 TCGA-02-0054 TCGA-02-0057 
       18.31         6.87        14.73        15.09         6.54        19.86 
TCGA-02-0058 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0070 TCGA-02-0071 
        8.35         6.02        19.73        26.43        25.05         5.49 
TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0087 
       27.25        89.72        22.72        12.62        51.32        57.76 
TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0106 TCGA-02-0107 
       16.96         3.48        27.02        65.00        11.67        17.65 
TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 
       99.98        15.65        48.95        16.54        16.93        17.72 
TCGA-02-0269 TCGA-02-0271 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 
       10.75        14.47        13.87        14.20        15.95        12.23 
TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 TCGA-02-0333 
        9.90         7.73        10.62         7.33        15.91         4.37 
TCGA-02-0337 TCGA-02-0338 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 
       25.12        10.59        14.50        10.55        47.11        11.34 
TCGA-02-0446 TCGA-02-0451 TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 
        9.27        16.21        16.80        12.92        15.32        15.45 
TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 
       20.32         2.70         6.15        20.38        47.61         6.94 
TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 
        3.98        22.72        33.67        25.35        14.30        26.70 
TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 
       24.23        11.90         0.20        10.29         2.20        11.74 
TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 
        2.33        20.09        17.79        10.09         8.61        19.46 
TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 
       46.59        12.33        13.94        10.45         3.19        10.82 
TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 TCGA-06-0168 TCGA-06-0169 
       11.80         3.42        56.91        10.65        19.66         3.29 
TCGA-06-0171 TCGA-06-0173 TCGA-06-0175 TCGA-06-0176 TCGA-06-0178 TCGA-06-0179 
       13.12         4.47         4.04        91.00        88.14        20.25 
TCGA-06-0182 TCGA-06-0185 TCGA-06-0187 TCGA-06-0189 TCGA-06-0194 TCGA-06-0201 
        3.65        73.84        27.22        15.42         4.67         0.39 
TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 
        7.66         8.42         7.40        11.84         0.53        15.02 
TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 
        0.72        19.82        13.64        20.42        48.69        10.82 
TCGA-06-0397 TCGA-06-0402 TCGA-06-0412 TCGA-06-0413 TCGA-06-0644 TCGA-06-0645 
        9.01         0.26         9.57         3.16        12.62         5.75 
TCGA-06-0646 TCGA-06-0648 TCGA-06-0650 TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 
        5.75         9.80        23.57        26.40        46.88         7.86 
TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0878 TCGA-06-0879 
        2.70         2.70         0.92        43.46         7.17        40.41 
TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1087 
       16.57        20.78        26.76        23.93         6.84         4.04 
TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 
       11.84        15.32        13.61        33.90         1.08        12.49 
TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 
        4.93        17.65        12.56        30.64         5.95        16.64 
TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 TCGA-06-6390 TCGA-06-6693 
        5.98         4.37         0.43        31.50         5.39       120.56 
TCGA-06-6694 TCGA-08-0244 TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 
        7.36        22.68         4.18       115.86         1.74         8.42 
TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 
       25.71        12.16         9.80        29.23        65.33         1.28 
TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 
        8.42        17.95        24.56        31.10        37.58        22.29 
TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 
        3.39        12.23        14.93        18.02        15.35        13.97 
TCGA-08-0392 TCGA-08-0509 TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 
        0.72        12.56        42.15        11.08        19.59        58.68 
TCGA-08-0518 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 
       19.33         4.80         7.27        15.98        18.41         7.56 
TCGA-12-0618 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 
       12.99        10.45         7.59        94.78         0.10        38.17 
TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 
       25.97        26.66        12.13         3.65        20.38        28.41 
TCGA-12-0769 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 
       15.06        43.23         7.63         9.73        14.93        14.86 
TCGA-12-0818 TCGA-12-0820 TCGA-12-0821 TCGA-12-0826 TCGA-12-0827 TCGA-12-0828 
       91.76        18.48        10.62        27.78        38.76         8.94 
TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 
       20.58       127.59         5.82         7.59        33.21        15.98 
TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-14-0787 
       12.23        15.85         9.11        14.53         3.98         2.24 
TCGA-14-0789 TCGA-14-0813 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 
       11.24         1.35        19.30         0.79        13.78        50.53 
TCGA-15-1446 TCGA-15-1447 TCGA-16-0849 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 
       19.10        53.19        26.07        11.77        21.90         0.66 
TCGA-19-1385 TCGA-19-1386 TCGA-19-1388 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 
       10.75         9.07        12.95         4.64        31.33        14.86 
TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 
        5.49         1.58         7.92         2.33         7.30         5.26 
TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 
       14.93        11.28        17.88        14.53        11.77        31.27 
TCGA-28-5214 TCGA-28-5215 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 
       23.44        11.01         5.16        22.68        12.76         5.42 
TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5911 TCGA-87-5896 
        7.36        11.38         5.42         3.75        17.72        26.30 

  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
              0.23               0.03 
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
             92.65             211.17 
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
             13.48              16.47 
[1] "0.2 - 92.7 (13.5)"  "0.0 - 211.2 (16.5)"
[1] "hr=" "2"  
D63V2, continuous
D63V3, binary
                    cls
clus                   0   1
  11Q LOSS MUTATED    90  22
  11Q LOSS WILD-TYPE 483 490
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11Q LOSS MUTATED     90   22
  11Q LOSS WILD-TYPE  483  490
                        clus
vv                       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  BRAIN                                90                483
  CENTRAL NERVOUS SYSTEM               22                490
[1] 2 2
[1] FALSE
D63V4, binary
                    cls
clus                   0   1
  11Q LOSS MUTATED    49  63
  11Q LOSS WILD-TYPE 404 569
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11Q LOSS MUTATED     49   63
  11Q LOSS WILD-TYPE  404  569
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  FEMALE               49                404
  MALE                 63                569
[1] 2 2
[1] FALSE
D63V5, binary
                    cls
clus                   0   1
  11Q LOSS MUTATED    17  90
  11Q LOSS WILD-TYPE 241 680
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11Q LOSS MUTATED     17   90
  11Q LOSS WILD-TYPE  241  680
     clus
vv    11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  NO                17                241
  YES               90                680
[1] 2 2
[1] FALSE
D63V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  11Q LOSS MUTATED            14                             3                6
  11Q LOSS WILD-TYPE         180                            27              123
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  11Q LOSS MUTATED                   2                   3
  11Q LOSS WILD-TYPE               187                  15
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  11Q LOSS MUTATED                                84
  11Q LOSS WILD-TYPE                             441
D63V7, multiclass
                                 clus
vv                                11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  ASTROCYTOMA                                   14                180
  GLIOBLASTOMA MULTIFORME (GBM)                  3                 27
  OLIGOASTROCYTOMA                               6                123
  OLIGODENDROGLIOMA                              2                187
  TREATED PRIMARY GBM                            3                 15
  UNTREATED PRIMARY (DE NOVO) GBM               84                441
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  11Q LOSS MUTATED                                  0     2
  11Q LOSS WILD-TYPE                                1    19
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  11Q LOSS MUTATED                           7   100
  11Q LOSS WILD-TYPE                        64   859
D63V8, multiclass
                                  clus
vv                                 11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           2                 19
  BLACK OR AFRICAN AMERICAN                       7                 64
  WHITE                                         100                859
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D63V9, binary
                    cls
clus                   0   1
  11Q LOSS MUTATED     1  95
  11Q LOSS WILD-TYPE  43 826
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  11Q LOSS MUTATED      1   95
  11Q LOSS WILD-TYPE   43  826
                        clus
vv                       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  HISPANIC OR LATINO                    1                 43
  NOT HISPANIC OR LATINO               95                826
[1] 2 2
[1] FALSE

Clustering(64) Variable = 12P LOSS MUTATION ANALYSIS
D64V1, survival
                    sevent
clus2                  0   1
  12P LOSS MUTATED    26  57
  12P LOSS WILD-TYPE 454 541
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                83                995 
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                57                541 
$`12P LOSS MUTATED`
TCGA-CS-6665 TCGA-06-5856 TCGA-12-1600 TCGA-12-1602 TCGA-12-3646 TCGA-14-0783 
       51.55         3.75        14.73         6.77        44.02         6.21 
TCGA-14-1451 TCGA-14-1794 TCGA-14-3477 TCGA-16-1055 TCGA-16-1056 TCGA-19-0960 
       23.11         0.99         3.78        10.29        14.01         8.61 
TCGA-19-1390 TCGA-19-2623 TCGA-19-2624 TCGA-19-4065 TCGA-19-5960 TCGA-26-5132 
       25.38         7.53         0.16         7.04        14.96         9.40 
TCGA-26-5136 TCGA-27-1836 TCGA-32-1978 TCGA-32-2494 TCGA-32-4210 TCGA-76-6193 
       18.97        30.05        15.85        20.78         3.72         2.70 
TCGA-DB-5279 TCGA-DB-A4XH TCGA-DU-5871 TCGA-DU-7010 TCGA-DU-A6S6 TCGA-DU-A76R 
       44.52        31.63        18.94        14.99        95.11        21.30 
TCGA-E1-5302 TCGA-E1-A7YH TCGA-E1-A7YS TCGA-E1-A7YV TCGA-FG-6690 TCGA-FG-A6J3 
       50.14        93.21        15.32        32.45        42.54        22.26 
TCGA-HT-7470 TCGA-HT-7478 TCGA-HT-7686 TCGA-HT-8106 TCGA-HT-8108 TCGA-HT-A5R7 
       40.11         6.38        42.74         0.10         2.50        20.22 
TCGA-P5-A5EW TCGA-P5-A5F4 TCGA-P5-A72X TCGA-S9-A6U1 TCGA-S9-A7R4 TCGA-S9-A89V 
        6.71         7.59        13.25        25.81        30.05        18.71 
TCGA-TQ-A7RR TCGA-02-0026 TCGA-02-0034 TCGA-02-0055 TCGA-02-0075 TCGA-02-0104 
       25.87        24.59        14.14         2.50        20.84        65.00 
TCGA-02-0113 TCGA-06-0147 TCGA-06-0149 TCGA-06-0159 TCGA-06-0174 TCGA-06-0177 
       92.65        17.79         8.61         9.44         3.22         4.18 
TCGA-06-0182 TCGA-06-0190 TCGA-06-0195 TCGA-06-0197 TCGA-06-0221 TCGA-06-0237 
        3.65        10.42         7.40         5.56        19.82        13.64 
TCGA-06-0414 TCGA-06-0686 TCGA-06-6390 TCGA-08-0349 TCGA-08-0386 TCGA-08-0510 
       35.11        14.20         5.39         9.80        18.02         4.27 
TCGA-08-0514 TCGA-12-0619 TCGA-12-0670 TCGA-14-0817 TCGA-14-0867 TCGA-14-0871 
       11.08        34.92        25.97         5.39         2.04        28.93 
TCGA-16-0849 TCGA-16-0850 TCGA-19-1385 TCGA-19-1388 TCGA-28-5204 
       26.07        16.37        10.75        12.95        14.93 

$`12P LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        1.48         3.98        46.88        46.72        31.82        42.05 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       62.01        17.16        23.90        20.09        17.82        20.45 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 
       18.64        21.40        45.60        42.77        59.38        15.32 
TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 
       11.74         3.55         8.35         4.54         8.81         8.98 
TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 
        8.55         6.71         2.73         6.15         4.57         5.23 
TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 
        8.32        12.85         4.77         1.55         4.77         4.96 
TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL 
       26.79         1.87         3.12         2.56        14.60        17.72 
TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 TCGA-12-3644 TCGA-12-3648 
       15.35        21.73        15.65        25.68        59.77        26.93 
TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 
       15.22        10.95        12.69        34.92        14.53        14.93 
TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0786 
        3.22         2.04        15.12        11.97         0.95        23.05 
TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 
       13.78         3.25         2.89        16.50        26.33        15.95 
TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1452 
        1.38         1.12         3.75        32.05        58.78         7.10 
TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 
        1.15        30.18         0.92        40.96         6.67        12.43 
TCGA-14-1795 TCGA-14-1821 TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 
        1.97        17.79        17.85         7.63         5.88         7.17 
TCGA-14-2554 TCGA-14-2555 TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 
       17.49         7.96         3.42        17.59        29.03         4.57 
TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0963 TCGA-19-0964 
        9.14        21.24        13.97         6.41        14.27         3.39 
TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 
        3.65         7.17        12.66         3.25         0.13         9.67 
TCGA-19-2620 TCGA-19-2621 TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 TCGA-19-5947 
        4.87         1.08         4.08        24.23         7.00         6.64 
TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 
       17.19         8.02        18.90         4.73        12.10         1.78 
TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 
       22.49        14.07        16.80        17.79        28.54        10.03 
TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5135 TCGA-26-A7UX 
       13.87         9.73         7.13         9.37         8.88        19.33 
TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 
        5.06        16.60         9.86        24.23        40.54        21.30 
TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 
       14.04        11.51        24.76        18.08        16.77        16.08 
TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 
        7.59         2.86        14.40        15.78         0.20         2.53 
TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 
        9.21         8.35         7.63         8.48         1.22         1.55 
TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 TCGA-32-1970 
        2.83         0.13         0.66         6.74         4.77        15.39 
TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 
       21.07         0.49         0.10        19.50         1.18         4.67 
TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2495 TCGA-32-2615 
       12.69        14.86        16.93        12.23        15.02        15.95 
TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 TCGA-32-4211 TCGA-32-4213 
        8.84        22.78        25.18        21.14        12.59        19.86 
TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 
       10.85        19.23         0.85        13.35         8.94         9.53 
TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 
        0.99         4.44        11.84         0.20        15.12        12.46 
TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 
        4.08         1.45        25.58         3.45        20.91         4.34 
TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 
       14.33         8.22         7.50         4.80         4.54         3.09 
TCGA-76-4929 TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 
        3.65         9.17         2.53        36.85        16.70         3.29 
TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 
       17.06         8.35        20.98         4.83         5.03        23.90 
TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC 
       34.45        18.64        36.20         5.92         6.28        20.55 
TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 
      117.50         7.69        43.89        36.36        60.10        40.18 
TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 
        0.26        21.01        53.62         6.38        17.69        26.76 
TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 
       37.38        46.95        48.30        49.94        49.12       122.73 
TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 
       81.96        75.25        47.93        72.92        50.86        91.13 
TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD 
       36.56        78.28        46.42        18.84        30.21        39.78 
TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       37.45        33.57        72.95        24.20        25.48        30.12 
TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W 
        5.98        31.40        27.45        27.81        29.23        14.40 
TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D 
       19.96        63.88        46.06        24.59        30.21        27.81 
TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU 
       17.19        17.19        54.25        23.21        17.46        13.71 
TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 
       18.61        18.02        14.56        17.46         6.74        13.38 
TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 
        8.45         6.81       182.33        17.49        15.16       211.17 
TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
       52.11        22.42        49.02        75.16        46.06        65.75 
TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
        1.22        87.45         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 
       16.83        94.52       114.08         7.96         2.40        11.47 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 
       62.96       156.23       154.36       105.21         6.54         8.84 
TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 
      117.40        90.77        30.67        26.30        10.36         7.96 
TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 
       94.32        18.94        44.02        25.91        60.30        23.31 
TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 
       41.98         2.76         5.10        23.74        14.60        20.68 
TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP 
       21.40        19.13        16.96        15.48        14.17        33.27 
TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY 
       29.85        31.69        24.43        26.17        24.99        33.96 
TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L 
       25.55        21.57        20.98        22.29        11.41        26.76 
TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       17.98       139.04        84.33        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
       44.42        38.89         0.56        67.46        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       57.93       134.27        78.21        95.57       130.78        14.30 
TCGA-E1-A7YE TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       29.13         3.65        19.46        12.43        16.18        21.30 
TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YU TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 
       75.02        51.88         0.76        36.82       146.14        13.08 
TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 
       73.48       145.05        32.35        39.48         0.23         0.20 
TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 
       47.77        25.48        52.21        36.82        18.77        14.93 
TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 
       41.33        18.44        15.35        17.88        22.55        20.61 
TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 
       20.09        28.34        13.68        14.24        16.01        14.96 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX 
       22.52        32.61        38.27        10.72        18.38        18.71 
TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A70Y 
       23.70        14.76        21.53        15.02        16.44        28.54 
TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 
       10.78        36.66        48.69         5.72        27.52         0.10 
TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
        6.67        11.54         0.13         0.03        16.54         3.75 
TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
       17.42         6.54        24.26        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 
        0.76        44.68         6.05         0.10        31.69        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
        0.10         0.10         2.96        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 
       39.48        19.23        39.09         0.23        50.63         0.49 
TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
       23.61        37.15         0.33         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 
       35.47         3.72        11.28        31.43         1.64        16.24 
TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 
        9.40        63.55         0.10        37.87        33.01        12.23 
TCGA-HT-8105 TCGA-HT-8107 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 
        6.25         0.46         5.56        13.78         0.23        29.59 
TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 
       34.19        28.27        15.72         0.23        26.04         0.13 
TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 
        0.07        27.35         0.10         5.33         2.70        16.93 
TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H 
        1.81        16.14        16.83        17.52        17.65         2.43 
TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 
       10.52        15.35        11.05         0.10        56.58        45.44 
TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 
       41.49        68.32        69.27        35.44        39.75        40.01 
TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       42.54        24.92        31.63        12.76        28.87        20.71 
TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EX TCGA-P5-A5EY 
       19.00        14.40        14.40         0.23         7.99         2.37 
TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F6 TCGA-P5-A72U 
        2.30         9.44         5.88         7.96         1.28         0.23 
TCGA-P5-A72W TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 
       10.42        11.64        10.95         9.01        13.61         9.60 
TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 
        7.56        12.23        19.20         3.45         2.37         4.41 
TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS 
       15.16         2.53        12.62        15.85        14.04        19.33 
TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ 
       14.83        14.53        13.61        12.23        13.41         9.17 
TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA 
       10.29        14.53        16.34        16.73         1.91        16.50 
TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO 
       16.70        11.08        12.99        88.83        94.03        32.65 
TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 
       30.87         5.46         9.90        28.08         2.07        19.59 
TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX 
       30.67        62.17        87.12        18.77        41.10        40.93 
TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       35.38        36.82        24.39        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE 
       98.24        95.93         5.85       123.65        75.25       135.22 
TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN 
       85.55        38.56        84.99        31.10        19.86        26.47 
TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX 
       18.61        18.64        14.07        36.13         7.92        26.93 
TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       23.51        19.99        20.02         8.19         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 
       15.06        18.54        28.37        27.16       169.84        10.39 
TCGA-S9-A7R3 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 
       99.06        98.63        31.59        20.48        54.77        48.33 
TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F 
       49.32        34.78        65.39        24.92        16.18        59.05 
TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M 
       40.64        30.44        28.08        24.16        40.83        24.79 
TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF 
       33.24        25.38        18.61        14.93        23.80        21.37 
TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM 
       19.69        15.98         2.04        40.41        44.09        36.69 
TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RU TCGA-TQ-A7RV 
       33.73        31.20        30.05        26.14        33.93        61.41 
TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB 
       26.99        31.36        45.93        43.20        13.51         0.10 
TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M 
        7.89        39.16        20.02        23.47        37.05        16.01 
TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 
       23.21         8.05        51.06        13.32        43.96        39.88 
TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 
       43.40        45.80        46.88        37.71        20.81         7.63 
TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 
       11.77         4.73        18.35        23.18        10.59        35.41 
TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 
       20.71        82.59        20.61        87.06        77.65        20.12 
TCGA-02-0024 TCGA-02-0025 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 TCGA-02-0037 
       53.10        42.74        12.16        90.58         2.83         3.62 
TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 
       10.72        10.52        18.31         6.87        14.73         3.22 
TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 
       15.09        12.59         6.54        19.86         8.35         9.57 
TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 
        6.02        19.73        26.43        28.70        25.05         5.49 
TCGA-02-0074 TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 
       10.19        27.25        89.72        22.72        12.62        51.32 
TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0106 
        8.81        57.76        16.96         3.48        27.02        11.67 
TCGA-02-0107 TCGA-02-0111 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 
       17.65        23.18        99.98        15.65        48.95        16.54 
TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 TCGA-02-0281 TCGA-02-0285 
       16.93        17.72        10.75        14.47         3.98        13.87 
TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 
       14.20        15.95        12.23         9.90         7.73        10.62 
TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 
        7.33        15.91        25.71         4.37        25.12        10.59 
TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 
       12.39        14.50        10.55        47.11        11.34         9.27 
TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 
       16.21         3.35        16.80        12.92        15.32        15.45 
TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 
       20.32         2.70         6.15        20.38        47.61         6.94 
TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 
        3.98        22.72        33.67        12.95        25.35        14.30 
TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 
       26.70        24.23        11.90         0.20        10.29         2.20 
TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0148 TCGA-06-0150 TCGA-06-0151 
       11.74         2.33        20.09        10.09        19.46        46.59 
TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0160 
       12.33        13.94        10.45         3.19        10.82        11.80 
TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 
        3.42        56.91        10.65         5.85        19.66         3.29 
TCGA-06-0171 TCGA-06-0173 TCGA-06-0175 TCGA-06-0176 TCGA-06-0178 TCGA-06-0179 
       13.12         4.47         4.04        91.00        88.14        20.25 
TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 TCGA-06-0192 
       69.90        73.84        27.22        44.58        15.42        38.96 
TCGA-06-0194 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 
        4.67         0.39         7.66         8.42         7.40        11.84 
TCGA-06-0213 TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 TCGA-06-0238 TCGA-06-0240 
        0.53        15.02        24.16         0.72        13.32        20.42 
TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 TCGA-06-0410 
       48.69        10.82         9.01         0.26        72.36         4.70 
TCGA-06-0412 TCGA-06-0413 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 
        9.57         3.16        12.62         5.75         5.75         9.80 
TCGA-06-0649 TCGA-06-0650 TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 
        2.10        23.57        26.40        46.88         7.86         2.70 
TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 
        2.70         0.92        43.46        46.19         7.17        40.41 
TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1087 
       16.57        20.78        26.76        23.93         6.84         4.04 
TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 
       26.79        11.84        15.32        13.61        33.90         1.08 
TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 
       12.49         4.93        17.65        12.56        30.64         5.95 
TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 
       16.64         5.98         4.37         0.43        31.50         7.79 
TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 TCGA-08-0344 
      120.56         7.36        22.68        37.84         4.18       115.86 
TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0350 TCGA-08-0351 
        1.74         8.42        25.71        12.16        29.23        65.33 
TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 
        1.28         8.42        17.95        24.56        31.10        37.58 
TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0389 TCGA-08-0390 
       22.29         3.39        12.23        14.93        15.35        13.97 
TCGA-08-0392 TCGA-08-0509 TCGA-08-0512 TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 
        0.72        12.56        42.15        19.59        58.68        19.33 
TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 
       10.75         4.80         7.27        15.98        18.41         7.56 
TCGA-12-0616 TCGA-12-0618 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 
       14.73        12.99        10.45         7.59        94.78         0.10 
TCGA-12-0662 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 
       38.17        26.66        12.13         3.65        20.38        28.41 
TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 
       15.06        53.85        43.23         7.63         9.73        14.93 
TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 
       14.86        91.76        24.79        18.48        10.62        23.51 
TCGA-12-0826 TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 
       27.78        38.76         8.94        20.58       127.59         5.82 
TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 
        7.59        33.21        15.98        12.23        15.85         9.11 
TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 
       14.53         3.98         4.14         2.24        11.24         1.35 
TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 TCGA-15-1447 
       19.30         0.79        13.78        50.53        19.10        53.19 
TCGA-15-1449 TCGA-16-0846 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 TCGA-19-1386 
       13.28         3.91        11.77        21.90         0.66         9.07 
TCGA-19-1387 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 
        5.95         4.64        31.33        14.86         5.49         1.58 
TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5207 TCGA-28-5208 
        7.92         2.33         7.30         5.26        11.28        17.88 
TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5215 TCGA-28-5216 
       14.53        11.77        31.27        23.44        11.01        13.64 
TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 
        5.16        22.68        12.76         5.42         7.36        11.38 
TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        5.42         3.75         1.61        17.72        26.30 

  12P LOSS MUTATED 12P LOSS WILD-TYPE 
              0.10               0.03 
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
             95.11             211.17 
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
             14.93              16.14 
[1] "0.1 - 95.1 (14.9)"  "0.0 - 211.2 (16.1)"
[1] "hr=" "1.5"
D64V2, continuous
D64V3, binary
                    cls
clus                   0   1
  12P LOSS MUTATED    57  27
  12P LOSS WILD-TYPE 516 485
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12P LOSS MUTATED     57   27
  12P LOSS WILD-TYPE  516  485
                        clus
vv                       12P LOSS MUTATED 12P LOSS WILD-TYPE
  BRAIN                                57                516
  CENTRAL NERVOUS SYSTEM               27                485
[1] 2 2
[1] FALSE
D64V4, binary
                    cls
clus                   0   1
  12P LOSS MUTATED    33  51
  12P LOSS WILD-TYPE 420 581
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12P LOSS MUTATED     33   51
  12P LOSS WILD-TYPE  420  581
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  FEMALE               33                420
  MALE                 51                581
[1] 2 2
[1] FALSE
D64V5, binary
                    cls
clus                   0   1
  12P LOSS MUTATED    16  64
  12P LOSS WILD-TYPE 242 706
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12P LOSS MUTATED     16   64
  12P LOSS WILD-TYPE  242  706
     clus
vv    12P LOSS MUTATED 12P LOSS WILD-TYPE
  NO                16                242
  YES               64                706
[1] 2 2
[1] FALSE
D64V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  12P LOSS MUTATED            15                             1                5
  12P LOSS WILD-TYPE         179                            29              124
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  12P LOSS MUTATED                   7                   1
  12P LOSS WILD-TYPE               182                  17
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  12P LOSS MUTATED                                55
  12P LOSS WILD-TYPE                             470
D64V7, multiclass
                                 clus
vv                                12P LOSS MUTATED 12P LOSS WILD-TYPE
  ASTROCYTOMA                                   15                179
  GLIOBLASTOMA MULTIFORME (GBM)                  1                 29
  OLIGOASTROCYTOMA                               5                124
  OLIGODENDROGLIOMA                              7                182
  TREATED PRIMARY GBM                            1                 17
  UNTREATED PRIMARY (DE NOVO) GBM               55                470
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  12P LOSS MUTATED                                  0     0
  12P LOSS WILD-TYPE                                1    21
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  12P LOSS MUTATED                           2    78
  12P LOSS WILD-TYPE                        69   881
D64V8, multiclass
                                  clus
vv                                 12P LOSS MUTATED 12P LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           0                 21
  BLACK OR AFRICAN AMERICAN                       2                 69
  WHITE                                          78                881
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D64V9, binary
                    cls
clus                   0   1
  12P LOSS MUTATED     2  73
  12P LOSS WILD-TYPE  42 848
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12P LOSS MUTATED      2   73
  12P LOSS WILD-TYPE   42  848
                        clus
vv                       12P LOSS MUTATED 12P LOSS WILD-TYPE
  HISPANIC OR LATINO                    2                 42
  NOT HISPANIC OR LATINO               73                848
[1] 2 2
[1] FALSE

Clustering(65) Variable = 12Q LOSS MUTATION ANALYSIS
D65V1, survival
                    sevent
clus2                  0   1
  12Q LOSS MUTATED    48  59
  12Q LOSS WILD-TYPE 432 539
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
               107                971 
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                59                539 
$`12Q LOSS MUTATED`
TCGA-CS-6665 TCGA-DH-A66B TCGA-06-5856 TCGA-12-1600 TCGA-12-1602 TCGA-12-3646 
       51.55        42.05         3.75        14.73         6.77        44.02 
TCGA-14-0740 TCGA-14-0783 TCGA-14-1451 TCGA-14-1794 TCGA-14-3477 TCGA-16-1056 
       11.97         6.21        23.11         0.99         3.78        14.01 
TCGA-19-1390 TCGA-19-2623 TCGA-19-2624 TCGA-19-4065 TCGA-19-5960 TCGA-26-5132 
       25.38         7.53         0.16         7.04        14.96         9.40 
TCGA-26-5136 TCGA-32-1978 TCGA-32-4210 TCGA-DB-5275 TCGA-DB-5277 TCGA-DB-5279 
       18.97        15.85         3.72        47.93        50.86        44.52 
TCGA-DB-A4XH TCGA-DU-5871 TCGA-DU-6401 TCGA-DU-7010 TCGA-DU-8167 TCGA-DU-A5TU 
       31.63        18.94        87.45        14.99        15.48        26.17 
TCGA-DU-A6S6 TCGA-DU-A76R TCGA-E1-5302 TCGA-E1-A7YH TCGA-E1-A7YK TCGA-E1-A7YS 
       95.11        21.30        50.14        93.21        12.43        15.32 
TCGA-E1-A7YV TCGA-E1-A7Z4 TCGA-FG-6689 TCGA-FG-6690 TCGA-HT-7470 TCGA-HT-7474 
       32.45       145.05        14.93        42.54        40.11         3.75 
TCGA-HT-7478 TCGA-HT-7686 TCGA-HT-7688 TCGA-HT-7690 TCGA-HT-7884 TCGA-HT-7902 
        6.38        42.74        31.69         0.10        11.28        31.43 
TCGA-HT-8018 TCGA-HT-8106 TCGA-HT-8108 TCGA-HT-A5R7 TCGA-HT-A618 TCGA-HT-A61B 
       37.87         0.10         2.50        20.22        16.83        17.52 
TCGA-P5-A5EW TCGA-P5-A5EZ TCGA-P5-A5F4 TCGA-P5-A72W TCGA-P5-A72X TCGA-S9-A6TV 
        6.71         2.30         7.59        10.42        13.25        18.77 
TCGA-S9-A6U1 TCGA-S9-A6WQ TCGA-S9-A7QX TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A89V 
       25.81        14.07        18.54        30.05        98.63        18.71 
TCGA-TM-A84I TCGA-TQ-A7RR TCGA-VM-A8C8 TCGA-WH-A86K TCGA-WY-A85B TCGA-02-0034 
       28.08        25.87        45.93        13.32        45.80        14.14 
TCGA-02-0055 TCGA-02-0075 TCGA-02-0084 TCGA-02-0113 TCGA-02-2466 TCGA-06-0146 
        2.50        20.84        12.62        92.65        16.80        20.09 
TCGA-06-0147 TCGA-06-0149 TCGA-06-0159 TCGA-06-0174 TCGA-06-0177 TCGA-06-0182 
       17.79         8.61         9.44         3.22         4.18         3.65 
TCGA-06-0184 TCGA-06-0190 TCGA-06-0197 TCGA-06-0221 TCGA-06-0237 TCGA-06-0414 
       69.90        10.42         5.56        19.82        13.64        35.11 
TCGA-06-0686 TCGA-06-6389 TCGA-06-6390 TCGA-08-0349 TCGA-08-0386 TCGA-08-0510 
       14.20         7.79         5.39         9.80        18.02         4.27 
TCGA-08-0514 TCGA-12-0619 TCGA-12-0670 TCGA-14-0813 TCGA-14-0817 TCGA-14-0867 
       11.08        34.92        25.97         1.35         5.39         2.04 
TCGA-14-0871 TCGA-15-1447 TCGA-16-0849 TCGA-16-0850 TCGA-19-1388 
       28.93        53.19        26.07        16.37        12.95 

$`12Q LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DU-7300 
        1.48         3.98        46.88        46.72        31.82        62.01 
TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 TCGA-FG-A87N 
       17.16        23.90        20.09        17.82        20.45        18.64 
TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 TCGA-06-5408 
       21.40        45.60        42.77        59.38        15.32        11.74 
TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 
        3.55         8.35         4.54         8.81         8.98         8.55 
TCGA-06-5416 TCGA-06-5418 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 
        6.71         2.73         6.15         4.57         5.23         8.32 
TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 
       12.85         4.77         1.55         4.77         4.96        26.79 
TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 
        1.87         3.12         2.56        14.60        17.72        15.35 
TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 TCGA-12-3644 TCGA-12-3648 TCGA-12-3649 
       21.73        15.65        25.68        59.77        26.93        15.22 
TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 TCGA-12-5299 
       10.95        12.69        34.92        14.53        14.93         3.22 
TCGA-12-5301 TCGA-14-0736 TCGA-14-0781 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 
        2.04        15.12         0.95        23.05        13.78         3.25 
TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 
        2.89        16.50        26.33        15.95         1.38         1.12 
TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1452 TCGA-14-1453 TCGA-14-1454 
        3.75        32.05        58.78         7.10         1.15        30.18 
TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1795 TCGA-14-1821 
        0.92        40.96         6.67        12.43         1.97        17.79 
TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 
       17.85         7.63         5.88         7.17        17.49         7.96 
TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1060 
        3.42        17.59        29.03         4.57        10.29         9.14 
TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 
       21.24        13.97         6.41         8.61        14.27         3.39 
TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 
        3.65         7.17        12.66         3.25         0.13         9.67 
TCGA-19-2620 TCGA-19-2621 TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 TCGA-19-5947 
        4.87         1.08         4.08        24.23         7.00         6.64 
TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 
       17.19         8.02        18.90         4.73        12.10         1.78 
TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 
       22.49        14.07        16.80        17.79        28.54        10.03 
TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5135 TCGA-26-A7UX 
       13.87         9.73         7.13         9.37         8.88        19.33 
TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 
        5.06        16.60         9.86        24.23        40.54        21.30 
TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 
       30.05        14.04        11.51        24.76        18.08        16.77 
TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 
       16.08         7.59         2.86        14.40        15.78         0.20 
TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 
        2.53         9.21         8.35         7.63         8.48         1.22 
TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 
        1.55         2.83         0.13         0.66         6.74         4.77 
TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 TCGA-32-1979 TCGA-32-1980 
       15.39        21.07         0.49         0.10        19.50         1.18 
TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 
        4.67        12.69        14.86        16.93        12.23        20.78 
TCGA-32-2495 TCGA-32-2615 TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 
       15.02        15.95         8.84        22.78        25.18        21.14 
TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 
       12.59        19.86        10.85        19.23         0.85        13.35 
TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 TCGA-41-4097 
        8.94         9.53         0.99         4.44        11.84         0.20 
TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 
       15.12        12.46         4.08         1.45        25.58         3.45 
TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 
       20.91         4.34        14.33         8.22         7.50         4.80 
TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 
        4.54         3.09         3.65         9.17         2.53        36.85 
TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 
       16.70         3.29         2.70        17.06         8.35        20.98 
TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 
        4.83         5.03        23.90        34.45        18.64        36.20 
TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 
        5.92         6.28        20.55       117.50         7.69        43.89 
TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 
       36.36        60.10        40.18         0.26        21.01        53.62 
TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 
        6.38        17.69        26.76        37.38        46.95        48.30 
TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5276 
       49.94        49.12       122.73        81.96        75.25        72.92 
TCGA-DB-5278 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB 
       91.13        36.56        78.28        46.42        18.84        30.21 
TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A64L TCGA-DB-A64O 
       39.78        37.45        33.57        72.95        24.20        25.48 
TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V 
       30.12         5.98        31.40        27.45        27.81        29.23 
TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O 
       14.40        18.51        12.10        11.24        17.88        30.74 
TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 
       16.18        19.96        63.88        46.06        24.59        30.21 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5872 TCGA-DU-5874 
       13.38         8.45         6.81       182.33        17.49        15.16 
TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 
      211.17        52.11        22.42        49.02        75.16        46.06 
TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
       65.75         1.22         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 
       16.83        94.52       114.08         7.96         2.40        11.47 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 
       62.96       156.23       154.36       105.21         6.54         8.84 
TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 
      117.40        90.77        30.67        26.30        10.36         7.96 
TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 
       94.32        18.94        44.02        25.91        60.30        23.31 
TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 
       41.98         2.76         5.10        23.74        14.60        20.68 
TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR 
       21.40        19.13        16.96        14.17        33.27        29.85 
TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 
       31.69        24.43        24.99        33.96        25.55        21.57 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A7T6 TCGA-DU-A7T8 
       20.98        22.29        11.41        26.76        17.98       139.04 
TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI 
       84.33        51.52        37.38         7.50        44.42        38.89 
TCGA-DU-A7TJ TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 
        0.56        67.46        41.13        79.99        57.93       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YI 
       78.21        95.57       130.78        14.30        29.13         3.65 
TCGA-E1-A7YJ TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YU 
       19.46        16.18        21.30        75.02        51.88         0.76 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z6 TCGA-EZ-7264 
       36.82       146.14        13.08        73.48        32.35        39.48 
TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 
        0.23         0.20        47.77        25.48        52.21        36.82 
TCGA-FG-6688 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 
       18.77        41.33        18.44        15.35        17.88        22.55 
TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 
       20.61        20.09        28.34        13.68        14.24        16.01 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       14.96        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 
       18.71        23.70        14.76        21.53        15.02        16.44 
TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q 
       22.26        28.54        10.78        36.66        48.69         5.72 
TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7471 TCGA-HT-7472 
       27.52         0.10         6.67        11.54         0.13         0.03 
TCGA-HT-7473 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7479 TCGA-HT-7480 
       16.54        17.42         6.54        24.26        40.34        75.19 
TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 
       95.93       106.95       172.77         4.01         5.03        29.85 
TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 
       23.18       122.47         4.57        17.29         3.16        22.06 
TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 
       45.99        56.09        57.60         0.23        14.27         0.16 
TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7687 TCGA-HT-7689 
       16.24         0.76        44.68         6.05         0.10        14.96 
TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 
        0.10         2.96        17.52         6.90        14.53        39.48 
TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 
       19.23        39.09         0.23        50.63         0.49        23.61 
TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
       37.15         0.33         0.13         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 
        3.72         1.64        16.24         9.40        63.55         0.10 
TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8107 TCGA-HT-8109 TCGA-HT-8110 
       33.01        12.23         6.25         0.46         5.56        13.78 
TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS 
        0.23        29.59        34.19        28.27        15.72         0.23 
TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC 
       26.04         0.13         0.07        27.35         0.10         5.33 
TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A61C TCGA-HT-A74H 
        2.70        16.93         1.81        16.14        17.65         2.43 
TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 
       10.52        15.35        11.05         0.10        56.58        45.44 
TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 
       41.49        68.32        69.27        35.44        39.75        40.01 
TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM 
       42.54        24.92        31.63        12.76        28.87        20.71 
TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EX TCGA-P5-A5EY 
       19.00        14.40        14.40         0.23         7.99         2.37 
TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72Z 
        9.44         5.88         7.96         1.28         0.23        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       19.20         3.45         2.37         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV 
       12.62        15.85        14.04        19.33        14.83        14.53 
TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 
       13.61        12.23        13.41         9.17        10.29        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       16.34        16.73         1.91        16.50        16.70        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y 
       12.99        88.83        94.03        32.65        30.87         5.46 
TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS 
        9.90        28.08         2.07        19.59        30.67        62.17 
TCGA-S9-A6TU TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       87.12        41.10        40.93        35.38        36.82        24.39 
TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA 
       29.85        32.61        35.15        98.24        95.93         5.85 
TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI 
      123.65        75.25       135.22        85.55        38.56        84.99 
TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A7IQ 
       31.10        19.86        26.47        18.61        18.64        36.13 
TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 
        7.92        26.93        23.51        19.99        20.02         8.19 
TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 
        2.04        20.68        15.06        28.37        27.16       169.84 
TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R8 TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 
       10.39        99.06        31.59        20.48        54.77        48.33 
TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F 
       49.32        34.78        65.39        24.92        16.18        59.05 
TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O 
       40.64        30.44        24.16        40.83        24.79        33.24 
TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG 
       25.38        18.61        14.93        23.80        21.37        19.69 
TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN 
       15.98         2.04        40.41        44.09        36.69        33.73 
TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW 
       31.20        30.05        26.14        33.93        61.41        26.99 
TCGA-TQ-A8XE TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE 
       31.36        43.20        13.51         0.10         7.89        39.16 
TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI 
       20.02        23.47        37.05        16.01        23.21         8.05 
TCGA-W9-A837 TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85C TCGA-WY-A85D 
       51.06        43.96        39.88        43.40        46.88        37.71 
TCGA-WY-A85E TCGA-06-0209 TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 
       20.81         7.63        11.77         4.73        18.35        23.18 
TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 
       10.59        35.41        20.71        82.59        20.61        87.06 
TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 
       77.65        20.12        53.10        42.74        24.59        12.16 
TCGA-02-0028 TCGA-02-0033 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 
       90.58         2.83         3.62        10.72        10.52        18.31 
TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 
        6.87        14.73         3.22        15.09        12.59         6.54 
TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 
       19.86         8.35         9.57         6.02        19.73        26.43 
TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0079 TCGA-02-0080 
       28.70        25.05         5.49        10.19        27.25        89.72 
TCGA-02-0083 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 
       22.72        51.32         8.81        57.76        16.96         3.48 
TCGA-02-0102 TCGA-02-0104 TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 TCGA-02-0114 
       27.02        65.00        11.67        17.65        23.18        99.98 
TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 
       15.65        48.95        16.54        16.93        17.72        10.75 
TCGA-02-0271 TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 
       14.47         3.98        13.87        14.20        15.95        12.23 
TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 
        9.90         7.73        10.62         7.33        15.91        25.71 
TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 
        4.37        25.12        10.59        12.39        14.50        10.55 
TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2470 
       47.11        11.34         9.27        16.21         3.35        12.92 
TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 
       15.32        15.45        20.32         2.70         6.15        20.38 
TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 
       47.61         6.94         3.98        22.72        33.67        12.95 
TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 
       25.35        14.30        26.70        24.23        11.90         0.20 
TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0148 TCGA-06-0150 
       10.29         2.20        11.74         2.33        10.09        19.46 
TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 
       46.59        12.33        13.94        10.45         3.19        10.82 
TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 
       11.80         3.42        56.91        10.65         5.85        19.66 
TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0175 TCGA-06-0176 TCGA-06-0178 
        3.29        13.12         4.47         4.04        91.00        88.14 
TCGA-06-0179 TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 TCGA-06-0192 
       20.25        73.84        27.22        44.58        15.42        38.96 
TCGA-06-0194 TCGA-06-0195 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 
        4.67         7.40         0.39         7.66         8.42         7.40 
TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 TCGA-06-0238 
       11.84         0.53        15.02        24.16         0.72        13.32 
TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 
       20.42        48.69        10.82         9.01         0.26        72.36 
TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 
        4.70         9.57         3.16        12.62         5.75         5.75 
TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 
        9.80         2.10        23.57        26.40        46.88         7.86 
TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 
        2.70         2.70         0.92        43.46        46.19         7.17 
TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 
       40.41        16.57        20.78        26.76        23.93         6.84 
TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 
        4.04        26.79        11.84        15.32        13.61        33.90 
TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 
        1.08        12.49         4.93        17.65        12.56        30.64 
TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 
        5.95        16.64         5.98         4.37         0.43        31.50 
TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 TCGA-08-0344 
      120.56         7.36        22.68        37.84         4.18       115.86 
TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0350 TCGA-08-0351 
        1.74         8.42        25.71        12.16        29.23        65.33 
TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 
        1.28         8.42        17.95        24.56        31.10        37.58 
TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0389 TCGA-08-0390 
       22.29         3.39        12.23        14.93        15.35        13.97 
TCGA-08-0392 TCGA-08-0509 TCGA-08-0512 TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 
        0.72        12.56        42.15        19.59        58.68        19.33 
TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 
       10.75         4.80         7.27        15.98        18.41         7.56 
TCGA-12-0616 TCGA-12-0618 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 
       14.73        12.99        10.45         7.59        94.78         0.10 
TCGA-12-0662 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 
       38.17        26.66        12.13         3.65        20.38        28.41 
TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 
       15.06        53.85        43.23         7.63         9.73        14.93 
TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 
       14.86        91.76        24.79        18.48        10.62        23.51 
TCGA-12-0826 TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 
       27.78        38.76         8.94        20.58       127.59         5.82 
TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 
        7.59        33.21        15.98        12.23        15.85         9.11 
TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 TCGA-14-1037 
       14.53         3.98         4.14         2.24        11.24        19.30 
TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 TCGA-15-1449 TCGA-16-0846 
        0.79        13.78        50.53        19.10        13.28         3.91 
TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 
       11.77        21.90         0.66        10.75         9.07         5.95 
TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 
        4.64        31.33        14.86         5.49         1.58         7.92 
TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 
        2.33         7.30         5.26        14.93        11.28        17.88 
TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5215 TCGA-28-5216 
       14.53        11.77        31.27        23.44        11.01        13.64 
TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 
        5.16        22.68        12.76         5.42         7.36        11.38 
TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        5.42         3.75         1.61        17.72        26.30 

  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
              0.10               0.03 
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
            145.05             211.17 
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
             15.85              15.98 
[1] "0.1 - 145.1 (15.8)" "0.0 - 211.2 (16.0)"
[1] "hr=" "1"  
D65V2, continuous
D65V3, binary
                    cls
clus                   0   1
  12Q LOSS MUTATED    55  53
  12Q LOSS WILD-TYPE 518 459
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12Q LOSS MUTATED     55   53
  12Q LOSS WILD-TYPE  518  459
                        clus
vv                       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  BRAIN                                55                518
  CENTRAL NERVOUS SYSTEM               53                459
[1] 2 2
[1] FALSE
D65V4, binary
                    cls
clus                   0   1
  12Q LOSS MUTATED    42  66
  12Q LOSS WILD-TYPE 411 566
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12Q LOSS MUTATED     42   66
  12Q LOSS WILD-TYPE  411  566
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  FEMALE               42                411
  MALE                 66                566
[1] 2 2
[1] FALSE
D65V5, binary
                    cls
clus                   0   1
  12Q LOSS MUTATED    24  78
  12Q LOSS WILD-TYPE 234 692
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12Q LOSS MUTATED     24   78
  12Q LOSS WILD-TYPE  234  692
     clus
vv    12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  NO                24                234
  YES               78                692
[1] 2 2
[1] FALSE
D65V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  12Q LOSS MUTATED            30                             1               13
  12Q LOSS WILD-TYPE         164                            29              116
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  12Q LOSS MUTATED                  10                   2
  12Q LOSS WILD-TYPE               179                  16
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  12Q LOSS MUTATED                                52
  12Q LOSS WILD-TYPE                             473
D65V7, multiclass
                                 clus
vv                                12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  ASTROCYTOMA                                   30                164
  GLIOBLASTOMA MULTIFORME (GBM)                  1                 29
  OLIGOASTROCYTOMA                              13                116
  OLIGODENDROGLIOMA                             10                179
  TREATED PRIMARY GBM                            2                 16
  UNTREATED PRIMARY (DE NOVO) GBM               52                473
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  12Q LOSS MUTATED                                  0     0
  12Q LOSS WILD-TYPE                                1    21
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  12Q LOSS MUTATED                           2   103
  12Q LOSS WILD-TYPE                        69   856
D65V8, multiclass
                                  clus
vv                                 12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           0                 21
  BLACK OR AFRICAN AMERICAN                       2                 69
  WHITE                                         103                856
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D65V9, binary
                    cls
clus                   0   1
  12Q LOSS MUTATED     3  93
  12Q LOSS WILD-TYPE  41 828
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  12Q LOSS MUTATED      3   93
  12Q LOSS WILD-TYPE   41  828
                        clus
vv                       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  HISPANIC OR LATINO                    3                 41
  NOT HISPANIC OR LATINO               93                828
[1] 2 2
[1] FALSE

Clustering(66) Variable = 13Q LOSS MUTATION ANALYSIS
D66V1, survival
                    sevent
clus2                  0   1
  13Q LOSS MUTATED   106 192
  13Q LOSS WILD-TYPE 374 406
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
               298                780 
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
               192                406 
$`13Q LOSS MUTATED`
TCGA-CS-6670 TCGA-06-1806 TCGA-06-5408 TCGA-06-5412 TCGA-06-5414 TCGA-06-5416 
       46.88        15.32        11.74         4.54         8.98         6.71 
TCGA-06-5856 TCGA-06-5859 TCGA-06-A7TK TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 
        3.75         4.57        14.60        15.35        21.73        15.65 
TCGA-12-3644 TCGA-12-3646 TCGA-12-3653 TCGA-12-5295 TCGA-14-0736 TCGA-14-0740 
       59.77        44.02        14.53        14.93        15.12        11.97 
TCGA-14-0783 TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 TCGA-14-1034 TCGA-14-1396 
        6.21         3.25         2.89        16.50        15.95         1.12 
TCGA-14-1451 TCGA-14-1453 TCGA-14-1454 TCGA-14-1456 TCGA-14-1458 TCGA-14-1823 
       23.11         1.15        30.18        40.96         6.67        17.85 
TCGA-14-1825 TCGA-14-3477 TCGA-16-1045 TCGA-19-1392 TCGA-19-2621 TCGA-19-2625 
        7.63         3.78        29.03         3.65         1.08         4.08 
TCGA-19-2629 TCGA-19-4065 TCGA-19-5947 TCGA-19-A60I TCGA-26-1439 TCGA-27-1830 
       24.23         7.04         6.64        17.79        13.87         5.06 
TCGA-27-1834 TCGA-27-2519 TCGA-27-2521 TCGA-28-1746 TCGA-28-1750 TCGA-28-1752 
       40.54        18.08        16.77         0.20         8.35         8.48 
TCGA-28-2502 TCGA-28-2509 TCGA-32-1976 TCGA-32-1987 TCGA-32-2634 TCGA-32-4210 
        0.66         4.77         0.49        14.86        22.78         3.72 
TCGA-32-4719 TCGA-41-2573 TCGA-41-3392 TCGA-41-3915 TCGA-41-4097 TCGA-4W-AA9R 
       10.85         8.94         0.99        11.84         0.20         4.08 
TCGA-4W-AA9S TCGA-74-6584 TCGA-76-4929 TCGA-76-4934 TCGA-76-4935 TCGA-76-6193 
        1.45         7.50         3.65         2.53        36.85         2.70 
TCGA-76-6285 TCGA-76-6286 TCGA-76-6661 TCGA-CS-4943 TCGA-CS-6290 TCGA-CS-6666 
        8.35        20.98        23.90        36.36        37.38        46.95 
TCGA-DB-5275 TCGA-DB-5277 TCGA-DB-A4XA TCGA-DB-A4XE TCGA-DB-A64X TCGA-DH-5140 
       47.93        50.86        18.84        37.45        18.51        19.96 
TCGA-DH-5142 TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A7UU TCGA-DU-5847 
       63.88        30.21        27.81        17.19        13.71        18.02 
TCGA-DU-5853 TCGA-DU-6392 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6407 TCGA-DU-6408 
       13.38       211.17        65.75         1.22        94.52       114.08 
TCGA-DU-7006 TCGA-DU-7008 TCGA-DU-7010 TCGA-DU-7290 TCGA-DU-7299 TCGA-DU-7301 
       11.47       156.23        14.99        10.36        44.02        25.91 
TCGA-DU-8158 TCGA-DU-8165 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TS TCGA-DU-A6S3 
        5.10        19.13        15.48        14.17        31.69        21.57 
TCGA-DU-A6S7 TCGA-DU-A76R TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-E1-5302 TCGA-E1-5303 
       20.98        21.30       139.04        84.33        50.14        67.46 
TCGA-E1-5307 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YL 
       57.93       130.78        14.30        29.13        93.21        16.18 
TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YY TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 
       51.88        15.32       146.14        47.77        25.48        52.21 
TCGA-FG-6689 TCGA-FG-6692 TCGA-FG-7641 TCGA-FG-8188 TCGA-FG-A60J TCGA-FG-A60L 
       14.93        18.44        20.61        14.96        14.76        21.53 
TCGA-FG-A6IZ TCGA-FG-A6J3 TCGA-FG-A70Z TCGA-FG-A87Q TCGA-HT-7469 TCGA-HT-7470 
       15.02        22.26        10.78         5.72        11.54        40.11 
TCGA-HT-7471 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7482 TCGA-HT-7604 TCGA-HT-7605 
        0.13         6.54        24.26       106.95       122.47         4.57 
TCGA-HT-7606 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7692 TCGA-HT-7857 
       17.29        31.69        14.96         0.10         2.96         0.23 
TCGA-HT-7902 TCGA-HT-8106 TCGA-HT-8564 TCGA-HT-A617 TCGA-HT-A61B TCGA-HW-7489 
       31.43         0.10        15.72        16.14        17.52        41.49 
TCGA-HW-7491 TCGA-KT-A74X TCGA-P5-A5EZ TCGA-P5-A5F4 TCGA-P5-A72W TCGA-P5-A737 
       68.32        14.40         2.30         7.59        10.42        12.23 
TCGA-QH-A65Z TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CY TCGA-QH-A6X8 TCGA-RY-A83Z 
       14.04        14.53        13.61        13.41        16.73         9.90 
TCGA-RY-A847 TCGA-S9-A6UA TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7J0 TCGA-S9-A7J3 
       30.67         5.85        26.93        23.51        20.02        20.68 
TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A84F TCGA-TM-A84I TCGA-TM-A84R 
       18.71        20.48        54.77        59.05        28.08        18.61 
TCGA-TM-A84S TCGA-TQ-A7RH TCGA-TQ-A7RJ TCGA-TQ-A7RM TCGA-VM-A8CD TCGA-VM-A8CF 
       14.93        15.98        40.41        36.69         7.89        20.02 
TCGA-06-0209 TCGA-02-0006 TCGA-02-0007 TCGA-02-0010 TCGA-02-0011 TCGA-02-0033 
        7.63        18.35        23.18        35.41        20.71         2.83 
TCGA-02-0034 TCGA-02-0039 TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0055 
       14.14        10.52        15.09        12.59         6.54         2.50 
TCGA-02-0059 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 TCGA-02-0075 TCGA-02-0079 
        9.57        19.73        26.43        28.70        20.84        27.25 
TCGA-02-0099 TCGA-02-0106 TCGA-02-0113 TCGA-02-0115 TCGA-02-0325 TCGA-02-0330 
        3.48        11.67        92.65        15.65        10.62        15.91 
TCGA-02-0339 TCGA-02-0440 TCGA-02-0446 TCGA-02-0456 TCGA-02-2483 TCGA-06-0122 
       12.39        11.34         9.27         3.35        15.32         6.15 
TCGA-06-0128 TCGA-06-0130 TCGA-06-0138 TCGA-06-0140 TCGA-06-0147 TCGA-06-0149 
       22.72        12.95        24.23         0.20        17.79         8.61 
TCGA-06-0152 TCGA-06-0158 TCGA-06-0159 TCGA-06-0162 TCGA-06-0164 TCGA-06-0166 
       12.33        10.82         9.44         3.42        56.91         5.85 
TCGA-06-0168 TCGA-06-0177 TCGA-06-0182 TCGA-06-0184 TCGA-06-0188 TCGA-06-0192 
       19.66         4.18         3.65        69.90        44.58        38.96 
TCGA-06-0195 TCGA-06-0197 TCGA-06-0206 TCGA-06-0214 TCGA-06-0219 TCGA-06-0402 
        7.40         5.56         7.66        15.02         0.72         0.26 
TCGA-06-0410 TCGA-06-0414 TCGA-06-0648 TCGA-06-0649 TCGA-06-0745 TCGA-06-0875 
        4.70        35.11         9.80         2.10         7.86        43.46 
TCGA-06-0881 TCGA-06-1087 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 
       16.57         4.04        15.32        13.61        33.90         1.08 
TCGA-06-2558 TCGA-06-2567 TCGA-06-6389 TCGA-06-6694 TCGA-08-0245 TCGA-08-0246 
       12.49         4.37         7.79         7.36        37.84         4.18 
TCGA-08-0347 TCGA-08-0349 TCGA-08-0354 TCGA-08-0359 TCGA-08-0389 TCGA-08-0392 
       25.71         9.80        17.95         3.39        15.35         0.72 
TCGA-08-0510 TCGA-08-0512 TCGA-08-0516 TCGA-08-0517 TCGA-08-0520 TCGA-12-0662 
        4.27        42.15        19.59        58.68        10.75        38.17 
TCGA-12-0691 TCGA-12-0769 TCGA-12-0772 TCGA-12-0776 TCGA-12-0819 TCGA-12-0826 
       12.13        15.06        53.85         9.73        24.79        27.78 
TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 TCGA-12-1091 TCGA-12-1093 
       38.76         8.94        20.58       127.59        33.21        15.98 
TCGA-12-1094 TCGA-12-1096 TCGA-12-1097 TCGA-12-1099 TCGA-14-0787 TCGA-15-0742 
       12.23         9.11        14.53         4.14         2.24        13.78 
TCGA-15-1444 TCGA-15-1447 TCGA-15-1449 TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 
       50.53        53.19        13.28         3.91        26.07        16.37 
TCGA-19-1385 TCGA-19-1387 TCGA-26-5133 TCGA-26-6173 TCGA-28-5215 TCGA-28-5216 
       10.75         5.95        14.86         7.92        11.01        13.64 
TCGA-28-5219 TCGA-32-2616 TCGA-76-6283 TCGA-81-5911 
       22.68         7.36         5.42        17.72 

$`13Q LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        1.48         3.98        51.55        46.72        31.82        42.05 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       62.01        17.16        23.90        20.09        17.82        20.45 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-5410 
       18.64        21.40        45.60        42.77        59.38         3.55 
TCGA-06-5411 TCGA-06-5413 TCGA-06-5415 TCGA-06-5418 TCGA-06-5858 TCGA-06-6388 
        8.35         8.81         8.55         2.73         6.15         5.23 
TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 
        8.32        12.85         4.77         1.55         4.77         4.96 
TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TL TCGA-12-1599 
       26.79         1.87         3.12         2.56        17.72        25.68 
TCGA-12-1600 TCGA-12-1602 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 
       14.73         6.77        26.93        15.22        10.95        12.69 
TCGA-12-3652 TCGA-12-5299 TCGA-12-5301 TCGA-14-0781 TCGA-14-0786 TCGA-14-0790 
       34.92         3.22         2.04         0.95        23.05        13.78 
TCGA-14-0866 TCGA-14-1395 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1452 
       26.33         1.38         3.75        32.05        58.78         7.10 
TCGA-14-1455 TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 TCGA-14-1827 
        0.92        12.43         0.99         1.97        17.79         5.88 
TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-4157 TCGA-16-0848 TCGA-16-1047 
        7.17        17.49         7.96         3.42        17.59         4.57 
TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 
       10.29        14.01         9.14        21.24        13.97         6.41 
TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 TCGA-19-1786 TCGA-19-1787 
        8.61        14.27         3.39        25.38         7.17        12.66 
TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2623 TCGA-19-2624 
        3.25         0.13         9.67         4.87         7.53         0.16 
TCGA-19-2631 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 
        7.00        17.19         8.02        18.90         4.73        12.10 
TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A6J5 
        1.78        22.49        14.07        16.80        14.96        28.54 
TCGA-26-1438 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 
       10.03         9.73         7.13         9.37         9.40         8.88 
TCGA-26-5136 TCGA-26-A7UX TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1835 
       18.97        19.33        16.60         9.86        24.23        21.30 
TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2523 TCGA-27-2524 
       30.05        14.04        11.51        24.76        16.08         7.59 
TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1747 TCGA-28-1749 TCGA-28-1751 
        2.86        14.40        15.78         2.53         9.21         7.63 
TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2506 TCGA-32-1970 
        1.22         1.55         2.83         0.13         6.74        15.39 
TCGA-32-1973 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 
       21.07         0.10        15.85        19.50         1.18         4.67 
TCGA-32-1986 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 
       12.69        16.93        12.23        20.78        15.02        15.95 
TCGA-32-2632 TCGA-32-2638 TCGA-32-4208 TCGA-32-4211 TCGA-32-4213 TCGA-32-5222 
        8.84        25.18        21.14        12.59        19.86        19.23 
TCGA-41-2571 TCGA-41-2572 TCGA-41-2575 TCGA-41-3393 TCGA-41-5651 TCGA-41-6646 
        0.85        13.35         9.53         4.44        15.12        12.46 
TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 
       25.58         3.45        20.91         4.34        14.33         8.22 
TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4931 TCGA-76-6191 TCGA-76-6192 
        4.80         4.54         3.09         9.17        16.70         3.29 
TCGA-76-6282 TCGA-76-6656 TCGA-76-6657 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 
       17.06         4.83         5.03        34.45        18.64        36.20 
TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 
        5.92         6.28        20.55       117.50         7.69        43.89 
TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 
       60.10        40.18         0.26        21.01        53.62         6.38 
TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 
       17.69        26.76        48.30        49.94        49.12       122.73 
TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5276 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 
       81.96        75.25        72.92        91.13        44.52        36.56 
TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XF TCGA-DB-A4XG 
       78.28        46.42        30.21        39.78        33.57        72.95 
TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R 
       31.63        24.20        25.48        30.12         5.98        31.40 
TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A75K TCGA-DB-A75L 
       27.45        27.81        29.23        14.40        12.10        11.24 
TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A66G 
       17.88        30.74        16.18        46.06        24.59        17.19 
TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UV TCGA-DU-5849 TCGA-DU-5851 
       54.25        23.21        17.46        18.61        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
        6.74         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 
       15.16        52.11        22.42        49.02        75.16        46.06 
TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 
       87.45         7.04        11.64       133.74        19.89        16.83 
TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7007 TCGA-DU-7009 TCGA-DU-7011 TCGA-DU-7012 
        7.96         2.40        62.96       154.36       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7292 
        8.84       117.40        90.77        30.67        26.30         7.96 
TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 
       94.32        18.94        60.30        23.31        41.98         2.76 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8166 TCGA-DU-A5TP 
       23.74        14.60        20.68        21.40        16.96        33.27 
TCGA-DU-A5TR TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 
       29.85        24.43        26.17        24.99        33.96        25.55 
TCGA-DU-A6S6 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A7T6 TCGA-DU-A7TB 
       95.11        22.29        11.41        26.76        17.98        51.52 
TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5304 
       37.38         7.50        44.42        38.89         0.56        41.13 
TCGA-E1-5305 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-A7YI TCGA-E1-A7YJ 
       79.99       134.27        78.21        95.57         3.65        19.46 
TCGA-E1-A7YK TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW 
       12.43        21.30        75.02         0.76        32.45        36.82 
TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 
       13.08        73.48       145.05        32.35        39.48         0.23 
TCGA-F6-A8O4 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-7634 
        0.20        36.82        18.77        42.54        41.33        15.35 
TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 
       17.88        22.55        20.09        28.34        13.68        14.24 
TCGA-FG-8186 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       16.01        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A6J1 TCGA-FG-A70Y TCGA-FG-A710 TCGA-FG-A711 
       18.71        23.70        16.44        28.54        36.66        48.69 
TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
       27.52         0.10         6.67         0.03        16.54         3.75 
TCGA-HT-7475 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7483 
       17.42         6.38        40.34        75.19        95.93       172.77 
TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7607 TCGA-HT-7608 
        4.01         5.03        29.85        23.18         3.16        22.06 
TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 
       45.99        56.09        57.60         0.23        14.27         0.16 
TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 
       16.24         0.76        44.68         6.05        42.74         0.10 
TCGA-HT-7691 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 
        0.10        17.52         6.90        14.53        39.48        19.23 
TCGA-HT-7856 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 
       39.09        50.63         0.49        23.61        37.15         0.33 
TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 
        0.13         3.68         5.33        35.47         3.72        11.28 
TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 
        1.64        16.24         9.40        63.55         0.10        37.87 
TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 
       33.01        12.23         6.25         0.46         2.50         5.56 
TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-A4DS 
       13.78         0.23        29.59        34.19        28.27         0.23 
TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB 
       26.04         0.13        20.22         0.07        27.35         0.10 
TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A618 TCGA-HT-A61C 
        5.33         2.70        16.93         1.81        16.83        17.65 
TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
        2.43        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       45.44        69.27        35.44        39.75        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 
       24.92        31.63        12.76        28.87        20.71        19.00 
TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5F0 
       14.40         0.23         6.71         7.99         2.37         9.44 
TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72X TCGA-P5-A72Z 
        5.88         7.96         1.28         0.23        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A77W 
       10.95         9.01        13.61         9.60         7.56        19.20 
TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V 
        3.45         2.37         4.41        15.16         2.53        12.62 
TCGA-QH-A65X TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CX TCGA-QH-A6CZ TCGA-QH-A6X3 
       15.85        19.33        14.83        12.23         9.17        10.29 
TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       14.53        16.34         1.91        16.50        16.70        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y 
       12.99        88.83        94.03        32.65        30.87         5.46 
TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV 
       28.08         2.07        19.59        62.17        87.12        18.77 
TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 
       41.10        40.93        35.38        36.82        24.39        25.81 
TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UB 
       29.85        32.61        35.15        98.24        95.93       123.65 
TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL 
       75.25       135.22        85.55        38.56        84.99        31.10 
TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ 
       19.86        26.47        18.61        18.64        14.07        36.13 
TCGA-S9-A7IS TCGA-S9-A7IZ TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7QW TCGA-S9-A7QX 
        7.92        19.99         8.19         2.04        15.06        18.54 
TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 
       28.37        27.16       169.84        10.39        99.06        30.05 
TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF 
       98.63        31.59        48.33        49.32        34.78        65.39 
TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84J TCGA-TM-A84L 
       24.92        16.18        40.64        30.44        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG 
       24.79        33.24        25.38        23.80        21.37        19.69 
TCGA-TQ-A7RI TCGA-TQ-A7RK TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ 
        2.04        44.09        33.73        31.20        30.05        26.14 
TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 
       25.87        33.93        61.41        26.99        31.36        45.93 
TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CE TCGA-VM-A8CH TCGA-VV-A829 
       43.20        13.51         0.10        39.16        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       16.01        23.21         8.05        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 
TCGA-02-0001 TCGA-02-0003 TCGA-02-0009 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 
       11.77         4.73        10.59        82.59        20.61        87.06 
TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 
       77.65        20.12        53.10        42.74        24.59        12.16 
TCGA-02-0028 TCGA-02-0037 TCGA-02-0038 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 
       90.58         3.62        10.72        18.31         6.87        14.73 
TCGA-02-0048 TCGA-02-0057 TCGA-02-0058 TCGA-02-0060 TCGA-02-0070 TCGA-02-0071 
        3.22        19.86         8.35         6.02        25.05         5.49 
TCGA-02-0074 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 
       10.19        89.72        22.72        12.62        51.32         8.81 
TCGA-02-0087 TCGA-02-0089 TCGA-02-0102 TCGA-02-0104 TCGA-02-0107 TCGA-02-0111 
       57.76        16.96        27.02        65.00        17.65        23.18 
TCGA-02-0114 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 
       99.98        48.95        16.54        16.93        17.72        10.75 
TCGA-02-0271 TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 
       14.47         3.98        13.87        14.20        15.95        12.23 
TCGA-02-0321 TCGA-02-0324 TCGA-02-0326 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 
        9.90         7.73         7.33        25.71         4.37        25.12 
TCGA-02-0338 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0451 TCGA-02-2466 
       10.59        14.50        10.55        47.11        16.21        16.80 
TCGA-02-2470 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0124 TCGA-06-0125 
       12.92        15.45        20.32         2.70        20.38        47.61 
TCGA-06-0126 TCGA-06-0127 TCGA-06-0129 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 
        6.94         3.98        33.67        25.35        14.30        26.70 
TCGA-06-0139 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 
       11.90        10.29         2.20        11.74         2.33        20.09 
TCGA-06-0148 TCGA-06-0150 TCGA-06-0151 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 
       10.09        19.46        46.59        13.94        10.45         3.19 
TCGA-06-0160 TCGA-06-0165 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 
       11.80        10.65         3.29        13.12         4.47         3.22 
TCGA-06-0175 TCGA-06-0176 TCGA-06-0178 TCGA-06-0179 TCGA-06-0185 TCGA-06-0187 
        4.04        91.00        88.14        20.25        73.84        27.22 
TCGA-06-0189 TCGA-06-0190 TCGA-06-0194 TCGA-06-0201 TCGA-06-0208 TCGA-06-0210 
       15.42        10.42         4.67         0.39         8.42         7.40 
TCGA-06-0211 TCGA-06-0213 TCGA-06-0216 TCGA-06-0221 TCGA-06-0237 TCGA-06-0238 
       11.84         0.53        24.16        19.82        13.64        13.32 
TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0409 TCGA-06-0412 
       20.42        48.69        10.82         9.01        72.36         9.57 
TCGA-06-0413 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 TCGA-06-0650 TCGA-06-0686 
        3.16        12.62         5.75         5.75        23.57        14.20 
TCGA-06-0743 TCGA-06-0744 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0876 
       26.40        46.88         2.70         2.70         0.92        46.19 
TCGA-06-0878 TCGA-06-0879 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 
        7.17        40.41        20.78        26.76        23.93         6.84 
TCGA-06-1800 TCGA-06-1801 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 
       26.79        11.84         4.93        17.65        12.56        30.64 
TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2569 TCGA-06-2570 TCGA-06-6390 
        5.95        16.64         5.98         0.43        31.50         5.39 
TCGA-06-6693 TCGA-08-0244 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0348 
      120.56        22.68       115.86         1.74         8.42        12.16 
TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 TCGA-08-0355 TCGA-08-0356 
       29.23        65.33         1.28         8.42        24.56        31.10 
TCGA-08-0357 TCGA-08-0358 TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 TCGA-08-0390 
       37.58        22.29        12.23        14.93        18.02        13.97 
TCGA-08-0509 TCGA-08-0514 TCGA-08-0518 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 
       12.56        11.08        19.33         4.80         7.27        15.98 
TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 
       18.41         7.56        14.73        12.99        34.92        10.45 
TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0670 TCGA-12-0688 TCGA-12-0692 
        7.59        94.78         0.10        25.97        26.66         3.65 
TCGA-12-0703 TCGA-12-0707 TCGA-12-0773 TCGA-12-0775 TCGA-12-0778 TCGA-12-0780 
       20.38        28.41        43.23         7.63        14.93        14.86 
TCGA-12-0818 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-1089 TCGA-12-1090 
       91.76        18.48        10.62        23.51         5.82         7.59 
TCGA-12-1095 TCGA-12-1098 TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 TCGA-14-0867 
       15.85         3.98        11.24         1.35         5.39         2.04 
TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-1446 TCGA-19-0955 TCGA-19-0957 
       28.93        19.30         0.79        19.10        11.77        21.90 
TCGA-19-0962 TCGA-19-1386 TCGA-19-1388 TCGA-19-1389 TCGA-26-1442 TCGA-26-5134 
        0.66         9.07        12.95         4.64        31.33         5.49 
TCGA-26-5139 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 TCGA-28-5207 
        1.58         2.33         7.30         5.26        14.93        11.28 
TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5218 
       17.88        14.53        11.77        31.27        23.44         5.16 
TCGA-28-5220 TCGA-28-6450 TCGA-76-6280 TCGA-76-6660 TCGA-81-5910 TCGA-87-5896 
       12.76         5.42        11.38         3.75         1.61        26.30 

  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
              0.10               0.03 
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
            211.17             182.33 
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
             15.02              16.75 
[1] "0.1 - 211.2 (15.0)" "0.0 - 182.3 (16.8)"
[1] "hr=" "1.3"
D66V2, continuous
D66V3, binary
                    cls
clus                   0   1
  13Q LOSS MUTATED   186 112
  13Q LOSS WILD-TYPE 387 400
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  13Q LOSS MUTATED    186  112
  13Q LOSS WILD-TYPE  387  400
                        clus
vv                       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  BRAIN                               186                387
  CENTRAL NERVOUS SYSTEM              112                400
[1] 2 2
[1] FALSE
D66V4, binary
                    cls
clus                   0   1
  13Q LOSS MUTATED   117 181
  13Q LOSS WILD-TYPE 336 451
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  13Q LOSS MUTATED    117  181
  13Q LOSS WILD-TYPE  336  451
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  FEMALE              117                336
  MALE                181                451
[1] 2 2
[1] FALSE
D66V5, binary
                    cls
clus                   0   1
  13Q LOSS MUTATED    57 230
  13Q LOSS WILD-TYPE 201 540
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  13Q LOSS MUTATED     57  230
  13Q LOSS WILD-TYPE  201  540
     clus
vv    13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  NO                57                201
  YES              230                540
[1] 2 2
[1] FALSE
D66V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  13Q LOSS MUTATED            48                             9               25
  13Q LOSS WILD-TYPE         146                            21              104
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  13Q LOSS MUTATED                  39                   4
  13Q LOSS WILD-TYPE               150                  14
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  13Q LOSS MUTATED                               173
  13Q LOSS WILD-TYPE                             352
D66V7, multiclass
                                 clus
vv                                13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  ASTROCYTOMA                                   48                146
  GLIOBLASTOMA MULTIFORME (GBM)                  9                 21
  OLIGOASTROCYTOMA                              25                104
  OLIGODENDROGLIOMA                             39                150
  TREATED PRIMARY GBM                            4                 14
  UNTREATED PRIMARY (DE NOVO) GBM              173                352
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  13Q LOSS MUTATED                                  1     6
  13Q LOSS WILD-TYPE                                0    15
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  13Q LOSS MUTATED                          19   265
  13Q LOSS WILD-TYPE                        52   694
D66V8, multiclass
                                  clus
vv                                 13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                1                  0
  ASIAN                                           6                 15
  BLACK OR AFRICAN AMERICAN                      19                 52
  WHITE                                         265                694
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D66V9, binary
                    cls
clus                   0   1
  13Q LOSS MUTATED     8 256
  13Q LOSS WILD-TYPE  36 665
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  13Q LOSS MUTATED      8  256
  13Q LOSS WILD-TYPE   36  665
                        clus
vv                       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  HISPANIC OR LATINO                    8                 36
  NOT HISPANIC OR LATINO              256                665
[1] 2 2
[1] FALSE

Clustering(67) Variable = 14Q LOSS MUTATION ANALYSIS
D67V1, survival
                    sevent
clus2                  0   1
  14Q LOSS MUTATED    75 149
  14Q LOSS WILD-TYPE 405 449
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
               224                854 
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
               149                449 
$`14Q LOSS MUTATED`
TCGA-19-A6J4 TCGA-IK-8125 TCGA-06-5411 TCGA-06-5416 TCGA-06-5856 TCGA-06-5859 
        3.98        42.77         8.35         6.71         3.75         4.57 
TCGA-06-6697 TCGA-06-6699 TCGA-06-A5U1 TCGA-06-A6S1 TCGA-06-A7TL TCGA-12-0615 
       12.85         1.55         1.87         2.56        17.72        15.35 
TCGA-12-1092 TCGA-12-1598 TCGA-12-1602 TCGA-12-3653 TCGA-12-5295 TCGA-14-0736 
       21.73        15.65         6.77        14.53        14.93        15.12 
TCGA-14-0783 TCGA-14-0862 TCGA-14-0865 TCGA-14-1396 TCGA-14-1455 TCGA-14-1823 
        6.21         2.89        16.50         1.12         0.92        17.85 
TCGA-14-1829 TCGA-14-3477 TCGA-16-1045 TCGA-19-1390 TCGA-19-1791 TCGA-19-2623 
        7.17         3.78        29.03        25.38         0.13         7.53 
TCGA-19-2629 TCGA-19-5947 TCGA-19-5956 TCGA-19-5960 TCGA-26-1439 TCGA-26-1440 
       24.23         6.64        22.49        14.96        13.87         9.73 
TCGA-27-1832 TCGA-27-1834 TCGA-27-2519 TCGA-27-2527 TCGA-28-1750 TCGA-28-1756 
        9.86        40.54        18.08        14.40         8.35         2.83 
TCGA-28-2506 TCGA-28-2509 TCGA-32-1976 TCGA-32-1980 TCGA-32-2615 TCGA-32-2634 
        6.74         4.77         0.49         1.18        15.95        22.78 
TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 TCGA-41-4097 TCGA-76-4928 TCGA-76-4929 
        8.94         9.53         0.99         0.20         3.09         3.65 
TCGA-76-4934 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-OX-A56R TCGA-CS-4938 
        2.53         2.70        17.06         8.35         5.92       117.50 
TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-6668 TCGA-DB-5279 TCGA-DB-A4XA TCGA-DB-A64L 
        7.69        43.89        49.94        44.52        18.84        24.20 
TCGA-DB-A64O TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DU-5847 TCGA-DU-5852 
       25.48        19.96        63.88        46.06        18.02         6.74 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6542 TCGA-DU-7007 TCGA-DU-7010 TCGA-DU-7012 
       46.06        65.75         2.40        62.96        14.99         6.54 
TCGA-DU-7290 TCGA-DU-7302 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8165 TCGA-DU-A6S7 
       10.36        60.30         5.10        23.74        19.13        20.98 
TCGA-DU-A6S8 TCGA-DU-A76L TCGA-DU-A76R TCGA-E1-5305 TCGA-E1-5322 TCGA-E1-A7YD 
       22.29        26.76        21.30        79.99       130.78        14.30 
TCGA-E1-A7YH TCGA-E1-A7YM TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7Z2 TCGA-EZ-7264 
       93.21        21.30        51.88        15.32        13.08        39.48 
TCGA-FG-7643 TCGA-FG-8191 TCGA-FG-A6J3 TCGA-HT-7616 TCGA-HT-7688 TCGA-HT-7689 
       20.09        32.61        22.26         0.23        31.69        14.96 
TCGA-HT-7902 TCGA-HT-8110 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A617 TCGA-HT-A618 
       31.43        13.78        15.72         0.23        16.14        16.83 
TCGA-HT-A61C TCGA-HW-7489 TCGA-HW-A5KK TCGA-P5-A5EX TCGA-P5-A5EZ TCGA-P5-A77X 
       17.65        41.49        12.76         7.99         2.30         3.45 
TCGA-QH-A6CS TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CZ TCGA-RY-A83Z TCGA-RY-A840 
       19.33        14.53        13.61         9.17         9.90        28.08 
TCGA-S9-A6TS TCGA-S9-A6WM TCGA-S9-A7IX TCGA-S9-A7QZ TCGA-S9-A7R2 TCGA-S9-A7R3 
       62.17        19.86        26.93        27.16        10.39        99.06 
TCGA-S9-A7R8 TCGA-S9-A89V TCGA-TM-A7C3 TCGA-TM-A84I TCGA-TQ-A7RN TCGA-TQ-A7RR 
       31.59        18.71        54.77        28.08        33.73        25.87 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CF TCGA-VV-A829 TCGA-WY-A858 TCGA-WY-A85B 
        0.10         7.89        20.02        37.05        43.96        45.80 
TCGA-02-0007 TCGA-02-0010 TCGA-02-0011 TCGA-02-0016 TCGA-02-0024 TCGA-02-0025 
       23.18        35.41        20.71        87.06        53.10        42.74 
TCGA-02-0034 TCGA-02-0039 TCGA-02-0047 TCGA-02-0048 TCGA-02-0051 TCGA-02-0055 
       14.14        10.52        14.73         3.22        15.09         2.50 
TCGA-02-0060 TCGA-02-0074 TCGA-02-0086 TCGA-02-0099 TCGA-02-0107 TCGA-02-0113 
        6.02        10.19         8.81         3.48        17.65        92.65 
TCGA-02-0281 TCGA-02-0324 TCGA-02-0325 TCGA-02-0330 TCGA-02-0332 TCGA-02-0446 
        3.98         7.73        10.62        15.91        25.71         9.27 
TCGA-02-0456 TCGA-02-2466 TCGA-02-2483 TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 
        3.35        16.80        15.32        22.72        33.67        12.95 
TCGA-06-0138 TCGA-06-0141 TCGA-06-0143 TCGA-06-0146 TCGA-06-0162 TCGA-06-0166 
       24.23        10.29        11.74        20.09         3.42         5.85 
TCGA-06-0171 TCGA-06-0188 TCGA-06-0194 TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 
       13.12        44.58         4.67        24.16         0.72        19.82 
TCGA-06-0241 TCGA-06-0409 TCGA-06-0410 TCGA-06-0644 TCGA-06-0646 TCGA-06-0649 
       48.69        72.36         4.70        12.62         5.75         2.10 
TCGA-06-0745 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 
        7.86         2.70         0.92        43.46        46.19         7.17 
TCGA-06-1084 TCGA-06-2561 TCGA-06-6389 TCGA-06-6390 TCGA-08-0245 TCGA-08-0380 
       23.93        17.65         7.79         5.39        37.84        14.93 
TCGA-08-0390 TCGA-08-0392 TCGA-08-0512 TCGA-08-0520 TCGA-12-0616 TCGA-12-0654 
       13.97         0.72        42.15        10.75        14.73         7.59 
TCGA-12-0662 TCGA-12-0692 TCGA-12-0821 TCGA-12-0827 TCGA-12-1088 TCGA-12-1089 
       38.17         3.65        10.62        38.76       127.59         5.82 
TCGA-12-1091 TCGA-12-1096 TCGA-14-0813 TCGA-14-0817 TCGA-15-1447 TCGA-19-1389 
       33.21         9.11         1.35         5.39        53.19         4.64 
TCGA-26-5133 TCGA-26-5134 TCGA-28-2514 TCGA-28-5207 TCGA-28-5213 TCGA-28-5215 
       14.86         5.49         5.26        11.28        31.27        11.01 
TCGA-28-5216 TCGA-28-5220 
       13.64        12.76 

$`14Q LOSS WILD-TYPE`
TCGA-06-6391 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        1.48        51.55        46.88        46.72        31.82        42.05 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       62.01        17.16        23.90        20.09        17.82        20.45 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-R8-A73M TCGA-06-1806 TCGA-06-5408 
       18.64        21.40        45.60        59.38        15.32        11.74 
TCGA-06-5410 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 TCGA-06-5418 
        3.55         4.54         8.81         8.98         8.55         2.73 
TCGA-06-5858 TCGA-06-6388 TCGA-06-6695 TCGA-06-6698 TCGA-06-6700 TCGA-06-6701 
        6.15         5.23         8.32         4.77         4.77         4.96 
TCGA-06-A5U0 TCGA-06-A6S0 TCGA-06-A7TK TCGA-12-1599 TCGA-12-1600 TCGA-12-3644 
       26.79         3.12        14.60        25.68        14.73        59.77 
TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 
       44.02        26.93        15.22        10.95        12.69        34.92 
TCGA-12-5299 TCGA-12-5301 TCGA-14-0740 TCGA-14-0781 TCGA-14-0786 TCGA-14-0790 
        3.22         2.04        11.97         0.95        23.05        13.78 
TCGA-14-0812 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1401 TCGA-14-1402 
        3.25        26.33        15.95         1.38         3.75        32.05 
TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 TCGA-14-1454 TCGA-14-1456 
       58.78        23.11         7.10         1.15        30.18        40.96 
TCGA-14-1458 TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 TCGA-14-1825 
        6.67        12.43         0.99         1.97        17.79         7.63 
TCGA-14-1827 TCGA-14-2554 TCGA-14-2555 TCGA-14-4157 TCGA-16-0848 TCGA-16-1047 
        5.88        17.49         7.96         3.42        17.59         4.57 
TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 
       10.29        14.01         9.14        21.24        13.97         6.41 
TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 
        8.61        14.27         3.39         3.65         7.17        12.66 
TCGA-19-1789 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2624 TCGA-19-2625 
        3.25         9.67         4.87         1.08         0.16         4.08 
TCGA-19-2631 TCGA-19-4065 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 
        7.00         7.04        17.19         8.02        18.90         4.73 
TCGA-19-5954 TCGA-19-5955 TCGA-19-5958 TCGA-19-5959 TCGA-19-A60I TCGA-19-A6J5 
       12.10         1.78        14.07        16.80        17.79        28.54 
TCGA-26-1438 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 
       10.03         7.13         9.37         9.40         8.88        18.97 
TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1833 TCGA-27-1835 TCGA-27-1836 
       19.33         5.06        16.60        24.23        21.30        30.05 
TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2521 TCGA-27-2523 TCGA-27-2524 
       14.04        11.51        24.76        16.77        16.08         7.59 
TCGA-27-2526 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 TCGA-28-1751 
        2.86        15.78         0.20         2.53         9.21         7.63 
TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 TCGA-28-1757 TCGA-28-2502 TCGA-32-1970 
        8.48         1.22         1.55         0.13         0.66        15.39 
TCGA-32-1973 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1982 TCGA-32-1986 
       21.07         0.10        15.85        19.50         4.67        12.69 
TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 TCGA-32-2632 
       14.86        16.93        12.23        20.78        15.02         8.84 
TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 
       25.18        21.14         3.72        12.59        19.86        10.85 
TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-3393 TCGA-41-3915 TCGA-41-5651 
       19.23         0.85        13.35         4.44        11.84        15.12 
TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 
       12.46         4.08         1.45        25.58         3.45        20.91 
TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 
        4.34        14.33         8.22         7.50         4.80         4.54 
TCGA-76-4931 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6286 TCGA-76-6656 
        9.17        36.85        16.70         3.29        20.98         4.83 
TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-RR-A6KA 
        5.03        23.90        34.45        18.64        36.20         6.28 
TCGA-RR-A6KC TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 
       20.55        36.36        60.10        40.18         0.26        21.01 
TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 
       53.62         6.38        17.69        26.76        37.38        46.95 
TCGA-CS-6667 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       48.30        49.12       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       72.92        50.86        91.13        36.56        78.28        46.42 
TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH 
       30.21        39.78        37.45        33.57        72.95        31.63 
TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V 
       30.12         5.98        31.40        27.45        27.81        29.23 
TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O 
       14.40        18.51        12.10        11.24        17.88        30.74 
TCGA-DB-A75P TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G 
       16.18        24.59        30.21        27.81        17.19        17.19 
TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5849 
       54.25        23.21        17.46        13.71        18.61        14.56 
TCGA-DU-5851 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
       17.46        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 
       17.49        15.16       211.17        52.11        22.42        49.02 
TCGA-DU-6396 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       75.16         1.22        87.45         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-7006 
       19.89        16.83        94.52       114.08         7.96        11.47 
TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7011 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 
      156.23       154.36       105.21         8.84       117.40        90.77 
TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 
       30.67        26.30         7.96        94.32        18.94        44.02 
TCGA-DU-7301 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8162 TCGA-DU-8163 
       25.91        23.31        41.98         2.76        14.60        20.68 
TCGA-DU-8164 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR 
       21.40        16.96        15.48        14.17        33.27        29.85 
TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 
       31.69        24.43        26.17        24.99        33.96        25.55 
TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A76K TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA 
       21.57        95.11        11.41        17.98       139.04        84.33 
TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ 
       51.52        37.38         7.50        44.42        38.89         0.56 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 
       50.14        67.46        41.13        57.93       134.27        78.21 
TCGA-E1-5319 TCGA-E1-A7YE TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL 
       95.57        29.13         3.65        19.46        12.43        16.18 
TCGA-E1-A7YO TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z3 
       75.02         0.76        32.45        36.82       146.14        73.48 
TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
      145.05        32.35         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-8181 
       18.44        15.35        17.88        22.55        20.61        28.34 
TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-A4MT 
       13.68        14.24        16.01        14.96        22.52        38.27 
TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L 
       10.72        18.38        18.71        23.70        14.76        21.53 
TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 
       15.02        16.44        28.54        10.78        36.66        48.69 
TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 
        5.72        27.52         0.10         6.67        11.54        40.11 
TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 
        0.13         0.03        16.54         3.75        17.42         6.54 
TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 
       24.26         6.38        40.34        75.19        95.93       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
        4.57        17.29         3.16        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
       57.60        14.27         0.16        16.24         0.76        44.68 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 
        6.05        42.74         0.10         0.10         0.10         2.96 
TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 
       17.52         6.90        14.53        39.48        19.23        39.09 
TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 
        0.23        50.63         0.49        23.61        37.15         0.33 
TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 
        0.13         3.68         5.33        35.47         3.72        11.28 
TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 
        1.64        16.24         9.40        63.55         0.10        37.87 
TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 
       33.01        12.23         6.25         0.10         0.46         2.50 
TCGA-HT-8109 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-A4DV 
        5.56         0.23        29.59        34.19        28.27        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC 
        0.13        20.22         0.07        27.35         0.10         5.33 
TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A61B TCGA-HT-A74H TCGA-HT-A74J 
        2.70        16.93         1.81        17.52         2.43        10.52 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7491 
       15.35        11.05         0.10        56.58        45.44        68.32 
TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 
       69.27        35.44        39.75        40.01        42.54        24.92 
TCGA-HW-A5KJ TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 
       31.63        28.87        20.71        19.00        14.40        14.40 
TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EY TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        0.23         6.71         2.37         9.44         5.88         7.96 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        7.59         1.28         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77W TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V 
       19.20         2.37         4.41        15.16         2.53        12.62 
TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CU TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6X3 
       15.85        14.04        14.83        12.23        13.41        10.29 
TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC 
       14.53        16.34        16.73         1.91        16.50        16.70 
TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X 
       11.08        12.99        88.83        94.03        32.65        30.87 
TCGA-RY-A83Y TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TU TCGA-S9-A6TV 
        5.46         2.07        19.59        30.67        87.12        18.77 
TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 
       41.10        40.93        35.38        36.82        24.39        25.81 
TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA 
       29.85        32.61        35.15        98.24        95.93         5.85 
TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI 
      123.65        75.25       135.22        85.55        38.56        84.99 
TCGA-S9-A6WL TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ 
       31.10        26.47        18.61        18.64        14.07        36.13 
TCGA-S9-A7IS TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 
        7.92        23.51        19.99        20.02         8.19         2.04 
TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7R1 TCGA-S9-A7R4 
       20.68        15.06        18.54        28.37       169.84        30.05 
TCGA-S9-A7R7 TCGA-S9-A89Z TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF 
       98.63        20.48        48.33        49.32        34.78        65.39 
TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84J 
       24.92        16.18        59.05        40.64        30.44        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ 
       23.80        21.37        19.69        15.98         2.04        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RU 
       44.09        36.69        31.20        30.05        26.14        33.93 
TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA 
       61.41        26.99        31.36        45.93        43.20        13.51 
TCGA-VM-A8CE TCGA-VM-A8CH TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 
       39.16        23.47        16.01        23.21         8.05        51.06 
TCGA-WH-A86K TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       13.32        39.88        43.40        46.88        37.71        20.81 
TCGA-06-0209 TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0009 TCGA-02-0014 
        7.63        11.77         4.73        18.35        10.59        82.59 
TCGA-02-0015 TCGA-02-0021 TCGA-02-0023 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 
       20.61        77.65        20.12        24.59        12.16        90.58 
TCGA-02-0033 TCGA-02-0037 TCGA-02-0038 TCGA-02-0043 TCGA-02-0046 TCGA-02-0052 
        2.83         3.62        10.72        18.31         6.87        12.59 
TCGA-02-0054 TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 TCGA-02-0064 TCGA-02-0068 
        6.54        19.86         8.35         9.57        19.73        26.43 
TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 TCGA-02-0075 TCGA-02-0079 TCGA-02-0080 
       28.70        25.05         5.49        20.84        27.25        89.72 
TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0087 TCGA-02-0089 TCGA-02-0102 
       22.72        12.62        51.32        57.76        16.96        27.02 
TCGA-02-0104 TCGA-02-0106 TCGA-02-0111 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 
       65.00        11.67        23.18        99.98        15.65        48.95 
TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 TCGA-02-0285 
       16.54        16.93        17.72        10.75        14.47        13.87 
TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0326 TCGA-02-0333 
       14.20        15.95        12.23         9.90         7.33         4.37 
TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 
       25.12        10.59        12.39        14.50        10.55        47.11 
TCGA-02-0440 TCGA-02-0451 TCGA-02-2470 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 
       11.34        16.21        12.92        15.45        20.32         2.70 
TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0132 
        6.15        20.38        47.61         6.94         3.98        25.35 
TCGA-06-0133 TCGA-06-0137 TCGA-06-0139 TCGA-06-0140 TCGA-06-0142 TCGA-06-0145 
       14.30        26.70        11.90         0.20         2.20         2.33 
TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 TCGA-06-0152 
       17.79        10.09         8.61        19.46        46.59        12.33 
TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 
       13.94        10.45         3.19        10.82         9.44        11.80 
TCGA-06-0164 TCGA-06-0165 TCGA-06-0168 TCGA-06-0169 TCGA-06-0173 TCGA-06-0174 
       56.91        10.65        19.66         3.29         4.47         3.22 
TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 
        4.04        91.00         4.18        88.14        20.25         3.65 
TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 
       69.90        73.84        27.22        15.42        10.42        38.96 
TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 
        7.40         5.56         0.39         7.66         8.42         7.40 
TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 
       11.84         0.53        15.02        13.64        13.32        20.42 
TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0412 TCGA-06-0413 TCGA-06-0414 
       10.82         9.01         0.26         9.57         3.16        35.11 
TCGA-06-0645 TCGA-06-0648 TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 
        5.75         9.80        23.57        14.20        26.40        46.88 
TCGA-06-0747 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1086 
        2.70        40.41        16.57        20.78        26.76         6.84 
TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 
        4.04        26.79        11.84        15.32        13.61        33.90 
TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 
        1.08        12.49         4.93        12.56        30.64         5.95 
TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 TCGA-06-6693 
       16.64         5.98         4.37         0.43        31.50       120.56 
TCGA-06-6694 TCGA-08-0244 TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 
        7.36        22.68         4.18       115.86         1.74         8.42 
TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 
       25.71        12.16         9.80        29.23        65.33         1.28 
TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 
        8.42        17.95        24.56        31.10        37.58        22.29 
TCGA-08-0359 TCGA-08-0375 TCGA-08-0386 TCGA-08-0389 TCGA-08-0509 TCGA-08-0510 
        3.39        12.23        18.02        15.35        12.56         4.27 
TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 TCGA-08-0521 TCGA-08-0524 
       11.08        19.59        58.68        19.33         4.80         7.27 
TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 
       15.98        18.41         7.56        12.99        34.92        10.45 
TCGA-12-0656 TCGA-12-0657 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0703 
       94.78         0.10        25.97        26.66        12.13        20.38 
TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 
       28.41        15.06        53.85        43.23         7.63         9.73 
TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0822 
       14.93        14.86        91.76        24.79        18.48        23.51 
TCGA-12-0826 TCGA-12-0828 TCGA-12-0829 TCGA-12-1090 TCGA-12-1093 TCGA-12-1094 
       27.78         8.94        20.58         7.59        15.98        12.23 
TCGA-12-1095 TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 
       15.85        14.53         3.98         4.14         2.24        11.24 
TCGA-14-0867 TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 
        2.04        28.93        19.30         0.79        13.78        50.53 
TCGA-15-1446 TCGA-15-1449 TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 
       19.10        13.28         3.91        26.07        16.37        11.77 
TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1388 
       21.90         0.66        10.75         9.07         5.95        12.95 
TCGA-26-1442 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-5204 
       31.33         1.58         7.92         2.33         7.30        14.93 
TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5214 TCGA-28-5218 TCGA-28-5219 
       17.88        14.53        11.77        23.44         5.16        22.68 
TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 
        5.42         7.36        11.38         5.42         3.75         1.61 
TCGA-81-5911 TCGA-87-5896 
       17.72        26.30 

  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
              0.10               0.03 
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
            130.78             211.17 
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
            14.795             16.540 
[1] "0.1 - 130.8 (14.8)" "0.0 - 211.2 (16.5)"
[1] "hr=" "1.5"
D67V2, continuous
D67V3, binary
                    cls
clus                   0   1
  14Q LOSS MUTATED   145  81
  14Q LOSS WILD-TYPE 428 431
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  14Q LOSS MUTATED    145   81
  14Q LOSS WILD-TYPE  428  431
                        clus
vv                       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  BRAIN                               145                428
  CENTRAL NERVOUS SYSTEM               81                431
[1] 2 2
[1] FALSE
D67V4, binary
                    cls
clus                   0   1
  14Q LOSS MUTATED    99 127
  14Q LOSS WILD-TYPE 354 505
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  14Q LOSS MUTATED     99  127
  14Q LOSS WILD-TYPE  354  505
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  FEMALE               99                354
  MALE                127                505
[1] 2 2
[1] FALSE
D67V5, binary
                    cls
clus                   0   1
  14Q LOSS MUTATED    48 168
  14Q LOSS WILD-TYPE 210 602
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  14Q LOSS MUTATED     48  168
  14Q LOSS WILD-TYPE  210  602
     clus
vv    14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  NO                48                210
  YES              168                602
[1] 2 2
[1] FALSE
D67V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  14Q LOSS MUTATED            38                             5               18
  14Q LOSS WILD-TYPE         156                            25              111
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  14Q LOSS MUTATED                  25                   6
  14Q LOSS WILD-TYPE               164                  12
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  14Q LOSS MUTATED                               134
  14Q LOSS WILD-TYPE                             391
D67V7, multiclass
                                 clus
vv                                14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  ASTROCYTOMA                                   38                156
  GLIOBLASTOMA MULTIFORME (GBM)                  5                 25
  OLIGOASTROCYTOMA                              18                111
  OLIGODENDROGLIOMA                             25                164
  TREATED PRIMARY GBM                            6                 12
  UNTREATED PRIMARY (DE NOVO) GBM              134                391
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  14Q LOSS MUTATED                                  1     5
  14Q LOSS WILD-TYPE                                0    16
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  14Q LOSS MUTATED                          21   192
  14Q LOSS WILD-TYPE                        50   767
D67V8, multiclass
                                  clus
vv                                 14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                1                  0
  ASIAN                                           5                 16
  BLACK OR AFRICAN AMERICAN                      21                 50
  WHITE                                         192                767
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D67V9, binary
                    cls
clus                   0   1
  14Q LOSS MUTATED     4 189
  14Q LOSS WILD-TYPE  40 732
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  14Q LOSS MUTATED      4  189
  14Q LOSS WILD-TYPE   40  732
                        clus
vv                       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  HISPANIC OR LATINO                    4                 40
  NOT HISPANIC OR LATINO              189                732
[1] 2 2
[1] FALSE

Clustering(68) Variable = 15Q LOSS MUTATION ANALYSIS
D68V1, survival
                    sevent
clus2                  0   1
  15Q LOSS MUTATED    52 100
  15Q LOSS WILD-TYPE 428 498
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
               152                926 
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
               100                498 
$`15Q LOSS MUTATED`
TCGA-HT-A619 TCGA-06-5416 TCGA-06-5856 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A7TK 
       21.40         6.71         3.75         1.87         3.12        14.60 
TCGA-06-A7TL TCGA-12-1600 TCGA-12-1602 TCGA-12-3646 TCGA-14-0783 TCGA-14-1794 
       17.72        14.73         6.77        44.02         6.21         0.99 
TCGA-16-0848 TCGA-16-1045 TCGA-19-1390 TCGA-19-1392 TCGA-19-2629 TCGA-19-5955 
       17.59        29.03        25.38         3.65        24.23         1.78 
TCGA-19-5956 TCGA-26-1438 TCGA-26-1439 TCGA-27-1830 TCGA-27-1834 TCGA-27-2519 
       22.49        10.03        13.87         5.06        40.54        18.08 
TCGA-27-2524 TCGA-28-1746 TCGA-28-1750 TCGA-28-1756 TCGA-32-1970 TCGA-32-1973 
        7.59         0.20         8.35         2.83        15.39        21.07 
TCGA-32-1976 TCGA-32-2634 TCGA-32-4210 TCGA-32-4211 TCGA-32-4719 TCGA-41-2573 
        0.49        22.78         3.72        12.59        10.85         8.94 
TCGA-41-3915 TCGA-41-5651 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-76-4929 TCGA-76-4935 
       11.84        15.12         4.08         1.45         3.65        36.85 
TCGA-76-6191 TCGA-76-6285 TCGA-76-6286 TCGA-DB-5274 TCGA-DB-5279 TCGA-DB-A4XA 
       16.70         8.35        20.98        75.25        44.52        18.84 
TCGA-DB-A4XH TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-A669 TCGA-DH-A7UT TCGA-DU-6393 
       31.63        19.96        63.88        30.21        17.46        52.11 
TCGA-DU-6400 TCGA-DU-7007 TCGA-DU-8158 TCGA-DU-A6S3 TCGA-DU-A76R TCGA-DU-A7T6 
        1.22        62.96         5.10        21.57        21.30        17.98 
TCGA-E1-5311 TCGA-E1-A7YK TCGA-E1-A7YS TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-A4MW 
      134.27        12.43        15.32        15.35        17.88        18.38 
TCGA-FG-A6J3 TCGA-HT-7468 TCGA-HT-7480 TCGA-HT-7606 TCGA-HT-7609 TCGA-HT-7616 
       22.26         6.67        75.19        17.29        45.99         0.23 
TCGA-HT-8012 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A74K TCGA-P5-A5EZ TCGA-P5-A77W 
        9.40        16.83        17.52        15.35         2.30        19.20 
TCGA-QH-A65S TCGA-QH-A6X8 TCGA-RY-A83X TCGA-S9-A6TS TCGA-S9-A6U2 TCGA-S9-A6WD 
        2.53        16.73        30.87        62.17        29.85        75.25 
TCGA-S9-A6WI TCGA-S9-A7QZ TCGA-S9-A89Z TCGA-TM-A7C5 TCGA-TQ-A7RO TCGA-VM-A8CF 
       84.99        27.16        20.48        49.32        31.20        20.02 
TCGA-VV-A86M TCGA-W9-A837 TCGA-WY-A85D TCGA-06-0209 TCGA-02-0003 TCGA-02-0034 
       16.01        51.06        37.71         7.63         4.73        14.14 
TCGA-02-0047 TCGA-02-0048 TCGA-02-0054 TCGA-02-0074 TCGA-02-0079 TCGA-02-0084 
       14.73         3.22         6.54        10.19        27.25        12.62 
TCGA-02-0087 TCGA-02-0113 TCGA-02-0115 TCGA-02-0258 TCGA-02-0269 TCGA-02-0281 
       57.76        92.65        15.65        16.54        10.75         3.98 
TCGA-02-0324 TCGA-06-0124 TCGA-06-0128 TCGA-06-0129 TCGA-06-0174 TCGA-06-0188 
        7.73        20.38        22.72        33.67         3.22        44.58 
TCGA-06-0192 TCGA-06-0213 TCGA-06-0216 TCGA-06-0237 TCGA-06-0402 TCGA-06-0410 
       38.96         0.53        24.16        13.64         0.26         4.70 
TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 TCGA-06-0875 TCGA-06-1801 
        5.75         5.75         9.80         2.10        43.46        11.84 
TCGA-06-2558 TCGA-06-6694 TCGA-08-0246 TCGA-08-0344 TCGA-08-0348 TCGA-08-0359 
       12.49         7.36         4.18       115.86        12.16         3.39 
TCGA-08-0386 TCGA-08-0510 TCGA-12-0618 TCGA-12-0619 TCGA-12-1088 TCGA-12-1096 
       18.02         4.27        12.99        34.92       127.59         9.11 
TCGA-12-1099 TCGA-14-0817 TCGA-14-0867 TCGA-15-1447 TCGA-15-1449 TCGA-16-0846 
        4.14         5.39         2.04        53.19        13.28         3.91 
TCGA-16-0849 TCGA-16-0850 TCGA-19-1385 TCGA-19-1387 TCGA-26-6174 TCGA-28-5215 
       26.07        16.37        10.75         5.95         2.33        11.01 
TCGA-28-5219 TCGA-32-2616 
       22.68         7.36 

$`15Q LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K 
       42.05        62.01        17.16        23.90        20.09        17.82 
TCGA-FG-A713 TCGA-FG-A87N TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 
       20.45        18.64        45.60        42.77        59.38        15.32 
TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 
       11.74         3.55         8.35         4.54         8.81         8.98 
TCGA-06-5415 TCGA-06-5418 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 
        8.55         2.73         6.15         4.57         5.23         8.32 
TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 
       12.85         4.77         1.55         4.77         4.96        26.79 
TCGA-06-A6S1 TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 TCGA-12-3644 
        2.56        15.35        21.73        15.65        25.68        59.77 
TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 
       26.93        15.22        10.95        12.69        34.92        14.53 
TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 
       14.93         3.22         2.04        15.12        11.97         0.95 
TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 
       23.05        13.78         3.25         2.89        16.50        26.33 
TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 
       15.95         1.38         1.12         3.75        32.05        58.78 
TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 
       23.11         7.10         1.15        30.18         0.92        40.96 
TCGA-14-1458 TCGA-14-1459 TCGA-14-1795 TCGA-14-1821 TCGA-14-1823 TCGA-14-1825 
        6.67        12.43         1.97        17.79        17.85         7.63 
TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-3477 TCGA-14-4157 
        5.88         7.17        17.49         7.96         3.78         3.42 
TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 
        4.57        10.29        14.01         9.14        21.24        13.97 
TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1786 TCGA-19-1787 
        6.41         8.61        14.27         3.39         7.17        12.66 
TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 
        3.25         0.13         9.67         4.87         1.08         7.53 
TCGA-19-2624 TCGA-19-2625 TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 
        0.16         4.08         7.00         7.04         6.64        17.19 
TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5958 TCGA-19-5959 
        8.02        18.90         4.73        12.10        14.07        16.80 
TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 
       14.96        17.79        28.54         9.73         7.13         9.37 
TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX TCGA-27-1831 TCGA-27-1832 
        9.40         8.88        18.97        19.33        16.60         9.86 
TCGA-27-1833 TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 
       24.23        21.30        30.05        14.04        11.51        24.76 
TCGA-27-2521 TCGA-27-2523 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1747 
       16.77        16.08         2.86        14.40        15.78         2.53 
TCGA-28-1749 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 TCGA-28-1757 
        9.21         7.63         8.48         1.22         1.55         0.13 
TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 
        0.66         6.74         4.77         0.10        15.85        19.50 
TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 
        1.18         4.67        12.69        14.86        16.93        12.23 
TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 TCGA-32-2632 TCGA-32-2638 TCGA-32-4208 
       20.78        15.02        15.95         8.84        25.18        21.14 
TCGA-32-4213 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2575 TCGA-41-3392 
       19.86        19.23         0.85        13.35         9.53         0.99 
TCGA-41-3393 TCGA-41-4097 TCGA-41-6646 TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 
        4.44         0.20        12.46        25.58         3.45        20.91 
TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 
        4.34        14.33         8.22         7.50         4.80         4.54 
TCGA-76-4928 TCGA-76-4931 TCGA-76-4934 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 
        3.09         9.17         2.53         3.29         2.70        17.06 
TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 
        4.83         5.03        23.90        34.45        18.64        36.20 
TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 
        5.92         6.28        20.55       117.50         7.69        43.89 
TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 
       36.36        60.10        40.18         0.26        21.01        53.62 
TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 
        6.38        17.69        26.76        37.38        46.95        48.30 
TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5275 TCGA-DB-5276 
       49.94        49.12       122.73        81.96        47.93        72.92 
TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XB 
       50.86        91.13        36.56        78.28        46.42        30.21 
TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A64L TCGA-DB-A64O 
       39.78        37.45        33.57        72.95        24.20        25.48 
TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V 
       30.12         5.98        31.40        27.45        27.81        29.23 
TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O 
       14.40        18.51        12.10        11.24        17.88        30.74 
TCGA-DB-A75P TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G 
       16.18        46.06        24.59        27.81        17.19        17.19 
TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 
       54.25        23.21        13.71        18.61        18.02        14.56 
TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 
       17.46         6.74        13.38         8.45         6.81       182.33 
TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6394 TCGA-DU-6395 
       18.94        17.49        15.16       211.17        22.42        49.02 
TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       75.16        46.06        65.75        87.45         7.04        11.64 
TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 
      133.74        19.89        16.83        94.52       114.08         7.96 
TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 
        2.40        11.47       156.23       154.36        14.99       105.21 
TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 
        6.54         8.84       117.40        90.77        30.67        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 
       10.36         7.96        94.32        18.94        44.02        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8161 TCGA-DU-8162 
       60.30        23.31        41.98         2.76        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       20.68        21.40        19.13        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       33.27        29.85        31.69        24.43        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K 
       33.96        25.55        95.11        20.98        22.29        11.41 
TCGA-DU-A76L TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD 
       26.76       139.04        84.33        51.52        37.38         7.50 
TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 
       44.42        38.89         0.56        50.14        67.46        41.13 
TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       79.99        57.93        78.21        95.57       130.78        14.30 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YL TCGA-E1-A7YM 
       29.13        93.21         3.65        19.46        16.18        21.30 
TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY 
       75.02        51.88         0.76        32.45        36.82       146.14 
TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 
       13.08        73.48       145.05        32.35        39.48         0.23 
TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 
        0.20        47.77        25.48        52.21        36.82        18.77 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7638 TCGA-FG-7641 
       14.93        42.54        41.33        18.44        22.55        20.61 
TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 
       20.09        28.34        13.68        14.24        16.01        14.96 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MX TCGA-FG-A4MY 
       22.52        32.61        38.27        10.72        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A70Y TCGA-FG-A70Z 
       14.76        21.53        15.02        16.44        28.54        10.78 
TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7469 
       36.66        48.69         5.72        27.52         0.10        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7481 TCGA-HT-7482 
        6.54        24.26         6.38        40.34        95.93       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7620 
        4.57         3.16        22.06        56.09        57.60        14.27 
TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 
        0.16        16.24         0.76        44.68         6.05        42.74 
TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 
        0.10        31.69        14.96         0.10         0.10         2.96 
TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 
       17.52         6.90        14.53        39.48        19.23        39.09 
TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 
        0.23        50.63         0.49        23.61        37.15         0.33 
TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 
        0.13         3.68         5.33        35.47         3.72        11.28 
TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 
       31.43         1.64        16.24        63.55         0.10        37.87 
TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 
       33.01        12.23         6.25         0.10         0.46         2.50 
TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 
        5.56        13.78         0.23        29.59        34.19        28.27 
TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 
       15.72         0.23        26.04         0.13        20.22         0.07 
TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 
       27.35         0.10         5.33         2.70        16.93         1.81 
TCGA-HT-A617 TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74L TCGA-HT-A74O 
       16.14        17.65         2.43        10.52        11.05         0.10 
TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 
       56.58        45.44        41.49        68.32        69.27        35.44 
TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK 
       39.75        40.01        42.54        24.92        31.63        12.76 
TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV 
       28.87        20.71        19.00        14.40        14.40         0.23 
TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        6.71         7.99         2.37         9.44         5.88         7.96 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        7.59         1.28         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65V TCGA-QH-A65X 
        3.45         2.37         4.41        15.16        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX 
       14.04        19.33        14.83        14.53        13.61        12.23 
TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X9 
       13.41         9.17        10.29        14.53        16.34         1.91 
TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML 
       16.50        16.70        11.08        12.99        88.83        94.03 
TCGA-R8-A6MO TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 
       32.65         5.46         9.90        28.08         2.07        19.59 
TCGA-RY-A847 TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY 
       30.67        87.12        18.77        41.10        40.93        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       36.82        24.39        25.81        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH 
       95.93         5.85       123.65       135.22        85.55        38.56 
TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ 
       31.10        19.86        26.47        18.61        18.64        14.07 
TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 
       36.13         7.92        26.93        23.51        19.99        20.02 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY 
        8.19         2.04        20.68        15.06        18.54        28.37 
TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 
      169.84        10.39        99.06        30.05        98.63        31.59 
TCGA-S9-A89V TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B 
       18.71        54.77        48.33        34.78        65.39        24.92 
TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J 
       16.18        59.05        40.64        30.44        28.08        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ 
       23.80        21.37        19.69        15.98         2.04        40.41 
TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       44.09        36.69        33.73        30.05        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 
       33.93        61.41        26.99        31.36        45.93        43.20 
TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CH TCGA-VV-A829 
       13.51         0.10         7.89        39.16        23.47        37.05 
TCGA-VW-A7QS TCGA-VW-A8FI TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A 
       23.21         8.05        13.32        43.96        39.88        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85E TCGA-02-0001 TCGA-02-0006 TCGA-02-0007 
       45.80        46.88        20.81        11.77        18.35        23.18 
TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 
       10.59        35.41        20.71        82.59        20.61        87.06 
TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 
       77.65        20.12        53.10        42.74        24.59        12.16 
TCGA-02-0028 TCGA-02-0033 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 
       90.58         2.83         3.62        10.72        10.52        18.31 
TCGA-02-0046 TCGA-02-0051 TCGA-02-0052 TCGA-02-0055 TCGA-02-0057 TCGA-02-0058 
        6.87        15.09        12.59         2.50        19.86         8.35 
TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 
        9.57         6.02        19.73        26.43        28.70        25.05 
TCGA-02-0071 TCGA-02-0075 TCGA-02-0080 TCGA-02-0083 TCGA-02-0085 TCGA-02-0086 
        5.49        20.84        89.72        22.72        51.32         8.81 
TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0106 TCGA-02-0107 
       16.96         3.48        27.02        65.00        11.67        17.65 
TCGA-02-0111 TCGA-02-0114 TCGA-02-0116 TCGA-02-0260 TCGA-02-0266 TCGA-02-0271 
       23.18        99.98        48.95        16.93        17.72        14.47 
TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0325 
       13.87        14.20        15.95        12.23         9.90        10.62 
TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 
        7.33        15.91        25.71         4.37        25.12        10.59 
TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 
       12.39        14.50        10.55        47.11        11.34         9.27 
TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 
       16.21         3.35        16.80        12.92        15.32        15.45 
TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 
       20.32         2.70         6.15        47.61         6.94         3.98 
TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 
       12.95        25.35        14.30        26.70        24.23        11.90 
TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 
        0.20        10.29         2.20        11.74         2.33        20.09 
TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 TCGA-06-0152 
       17.79        10.09         8.61        19.46        46.59        12.33 
TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 
       13.94        10.45         3.19        10.82         9.44        11.80 
TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 
        3.42        56.91        10.65         5.85        19.66         3.29 
TCGA-06-0171 TCGA-06-0173 TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 
       13.12         4.47         4.04        91.00         4.18        88.14 
TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0189 
       20.25         3.65        69.90        73.84        27.22        15.42 
TCGA-06-0190 TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 
       10.42         4.67         7.40         5.56         0.39         7.66 
TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0214 TCGA-06-0219 TCGA-06-0221 
        8.42         7.40        11.84        15.02         0.72        19.82 
TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0409 
       13.32        20.42        48.69        10.82         9.01        72.36 
TCGA-06-0412 TCGA-06-0413 TCGA-06-0414 TCGA-06-0644 TCGA-06-0650 TCGA-06-0686 
        9.57         3.16        35.11        12.62        23.57        14.20 
TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 
       26.40        46.88         7.86         2.70         2.70         0.92 
TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 
       46.19         7.17        40.41        16.57        20.78        26.76 
TCGA-06-1084 TCGA-06-1086 TCGA-06-1087 TCGA-06-1800 TCGA-06-1802 TCGA-06-1804 
       23.93         6.84         4.04        26.79        15.32        13.61 
TCGA-06-1805 TCGA-06-2557 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 
       33.90         1.08         4.93        17.65        12.56        30.64 
TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 
        5.95        16.64         5.98         4.37         0.43        31.50 
TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 TCGA-08-0244 TCGA-08-0245 TCGA-08-0345 
        7.79         5.39       120.56        22.68        37.84         1.74 
TCGA-08-0346 TCGA-08-0347 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 
        8.42        25.71         9.80        29.23        65.33         1.28 
TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 
        8.42        17.95        24.56        31.10        37.58        22.29 
TCGA-08-0375 TCGA-08-0380 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 
       12.23        14.93        15.35        13.97         0.72        12.56 
TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 
       42.15        11.08        19.59        58.68        19.33        10.75 
TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 
        4.80         7.27        15.98        18.41         7.56        14.73 
TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 
       10.45         7.59        94.78         0.10        38.17        25.97 
TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 
       26.66        12.13         3.65        20.38        28.41        15.06 
TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 
       53.85        43.23         7.63         9.73        14.93        14.86 
TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0826 
       91.76        24.79        18.48        10.62        23.51        27.78 
TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 
       38.76         8.94        20.58         5.82         7.59        33.21 
TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1097 TCGA-12-1098 TCGA-14-0787 
       15.98        12.23        15.85        14.53         3.98         2.24 
TCGA-14-0789 TCGA-14-0813 TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 
       11.24         1.35        28.93        19.30         0.79        13.78 
TCGA-15-1444 TCGA-15-1446 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 TCGA-19-1386 
       50.53        19.10        11.77        21.90         0.66         9.07 
TCGA-19-1388 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 
       12.95         4.64        31.33        14.86         5.49         1.58 
TCGA-26-6173 TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 
        7.92         7.30         5.26        14.93        11.28        17.88 
TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5216 TCGA-28-5218 
       14.53        11.77        31.27        23.44        13.64         5.16 
TCGA-28-5220 TCGA-28-6450 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 
       12.76         5.42        11.38         5.42         3.75         1.61 
TCGA-81-5911 TCGA-87-5896 
       17.72        26.30 

  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
              0.20               0.03 
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
            134.27             211.17 
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
             15.22              16.18 
[1] "0.2 - 134.3 (15.2)" "0.0 - 211.2 (16.2)"
[1] "hr=" "1.4"
D68V2, continuous
D68V3, binary
                    cls
clus                   0   1
  15Q LOSS MUTATED   104  50
  15Q LOSS WILD-TYPE 469 462
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  15Q LOSS MUTATED    104   50
  15Q LOSS WILD-TYPE  469  462
                        clus
vv                       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  BRAIN                               104                469
  CENTRAL NERVOUS SYSTEM               50                462
[1] 2 2
[1] FALSE
D68V4, binary
                    cls
clus                   0   1
  15Q LOSS MUTATED    65  89
  15Q LOSS WILD-TYPE 388 543
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  15Q LOSS MUTATED     65   89
  15Q LOSS WILD-TYPE  388  543
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  FEMALE               65                388
  MALE                 89                543
[1] 2 2
[1] FALSE
D68V5, binary
                    cls
clus                   0   1
  15Q LOSS MUTATED    38 107
  15Q LOSS WILD-TYPE 220 663
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  15Q LOSS MUTATED     38  107
  15Q LOSS WILD-TYPE  220  663
     clus
vv    15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  NO                38                220
  YES              107                663
[1] 2 2
[1] FALSE
D68V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  15Q LOSS MUTATED            16                             7               12
  15Q LOSS WILD-TYPE         178                            23              117
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  15Q LOSS MUTATED                  22                   2
  15Q LOSS WILD-TYPE               167                  16
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  15Q LOSS MUTATED                                95
  15Q LOSS WILD-TYPE                             430
D68V7, multiclass
                                 clus
vv                                15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  ASTROCYTOMA                                   16                178
  GLIOBLASTOMA MULTIFORME (GBM)                  7                 23
  OLIGOASTROCYTOMA                              12                117
  OLIGODENDROGLIOMA                             22                167
  TREATED PRIMARY GBM                            2                 16
  UNTREATED PRIMARY (DE NOVO) GBM               95                430
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  15Q LOSS MUTATED                                  0     3
  15Q LOSS WILD-TYPE                                1    18
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  15Q LOSS MUTATED                          11   135
  15Q LOSS WILD-TYPE                        60   824
D68V8, multiclass
                                  clus
vv                                 15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           3                 18
  BLACK OR AFRICAN AMERICAN                      11                 60
  WHITE                                         135                824
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D68V9, binary
                    cls
clus                   0   1
  15Q LOSS MUTATED     5 133
  15Q LOSS WILD-TYPE  39 788
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  15Q LOSS MUTATED      5  133
  15Q LOSS WILD-TYPE   39  788
                        clus
vv                       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  HISPANIC OR LATINO                    5                 39
  NOT HISPANIC OR LATINO              133                788
[1] 2 2
[1] FALSE

Clustering(69) Variable = 16P LOSS MUTATION ANALYSIS
D69V1, survival
                    sevent
clus2                  0   1
  16P LOSS MUTATED    14  64
  16P LOSS WILD-TYPE 466 534
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                78               1000 
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                64                534 
$`16P LOSS MUTATED`
TCGA-06-5859 TCGA-06-6698 TCGA-06-6700 TCGA-06-A6S0 TCGA-12-1600 TCGA-12-3653 
        4.57         4.77         4.77         3.12        14.73        14.53 
TCGA-14-0812 TCGA-14-1823 TCGA-19-1392 TCGA-19-5953 TCGA-19-5955 TCGA-19-5956 
        3.25        17.85         3.65         4.73         1.78        22.49 
TCGA-27-1835 TCGA-27-2521 TCGA-27-2524 TCGA-28-1750 TCGA-32-1978 TCGA-32-1980 
       21.30        16.77         7.59         8.35        15.85         1.18 
TCGA-32-4210 TCGA-41-3915 TCGA-76-4925 TCGA-76-4928 TCGA-DB-5277 TCGA-DB-5281 
        3.72        11.84         4.80         3.09        50.86        78.28 
TCGA-DH-A669 TCGA-DU-7018 TCGA-DU-8165 TCGA-E1-5304 TCGA-E1-5307 TCGA-E1-A7YQ 
       30.21        30.67        19.13        41.13        57.93        51.88 
TCGA-FG-A4MW TCGA-HT-7477 TCGA-HT-8564 TCGA-P5-A780 TCGA-S9-A7IX TCGA-S9-A89V 
       18.38        24.26        15.72         2.37        26.93        18.71 
TCGA-TQ-A7RM TCGA-02-0009 TCGA-02-0025 TCGA-02-0052 TCGA-02-0055 TCGA-02-0074 
       36.69        10.59        42.74        12.59         2.50        10.19 
TCGA-02-0258 TCGA-02-0266 TCGA-02-0281 TCGA-02-0456 TCGA-02-2486 TCGA-06-0132 
       16.54        17.72         3.98         3.35        20.32        25.35 
TCGA-06-0164 TCGA-06-0168 TCGA-06-0171 TCGA-06-0177 TCGA-06-0214 TCGA-06-0216 
       56.91        19.66        13.12         4.18        15.02        24.16 
TCGA-06-0221 TCGA-06-0394 TCGA-06-0414 TCGA-06-0645 TCGA-06-0686 TCGA-06-0743 
       19.82        10.82        35.11         5.75        14.20        26.40 
TCGA-06-0744 TCGA-06-0879 TCGA-06-1087 TCGA-06-2557 TCGA-06-2569 TCGA-06-6389 
       46.88        40.41         4.04         1.08         0.43         7.79 
TCGA-08-0353 TCGA-08-0392 TCGA-08-0509 TCGA-08-0514 TCGA-12-0619 TCGA-12-0776 
        8.42         0.72        12.56        11.08        34.92         9.73 
TCGA-12-0826 TCGA-12-1099 TCGA-14-0813 TCGA-14-0871 TCGA-28-5204 TCGA-28-5216 
       27.78         4.14         1.35        28.93        14.93        13.64 

$`16P LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K 
       42.05        62.01        17.16        23.90        20.09        17.82 
TCGA-FG-A713 TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M 
       20.45        18.64        21.40        45.60        42.77        59.38 
TCGA-06-1806 TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 
       15.32        11.74         3.55         8.35         4.54         8.81 
TCGA-06-5414 TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 
        8.98         8.55         6.71         2.73         3.75         6.15 
TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6699 TCGA-06-6701 TCGA-06-A5U0 
        5.23         8.32        12.85         1.55         4.96        26.79 
TCGA-06-A5U1 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 
        1.87         2.56        14.60        17.72        15.35        21.73 
TCGA-12-1598 TCGA-12-1599 TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 
       15.65        25.68         6.77        59.77        44.02        26.93 
TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-5295 TCGA-12-5299 
       15.22        10.95        12.69        34.92        14.93         3.22 
TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 
        2.04        15.12        11.97         0.95         6.21        23.05 
TCGA-14-0790 TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 
       13.78         2.89        16.50        26.33        15.95         1.38 
TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 
        1.12         3.75        32.05        58.78        23.11         7.10 
TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 
        1.15        30.18         0.92        40.96         6.67        12.43 
TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 
        0.99         1.97        17.79         7.63         5.88         7.17 
TCGA-14-2554 TCGA-14-2555 TCGA-14-3477 TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 
       17.49         7.96         3.78         3.42        17.59        29.03 
TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 
        4.57        10.29        14.01         9.14        21.24        13.97 
TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 TCGA-19-1786 
        6.41         8.61        14.27         3.39        25.38         7.17 
TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 
       12.66         3.25         0.13         9.67         4.87         1.08 
TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 
        7.53         0.16         4.08        24.23         7.00         7.04 
TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5954 TCGA-19-5958 
        6.64        17.19         8.02        18.90        12.10        14.07 
TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 
       16.80        14.96        17.79        28.54        10.03        13.87 
TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 
        9.73         7.13         9.37         9.40         8.88        18.97 
TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 
       19.33         5.06        16.60         9.86        24.23        40.54 
TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2523 
       30.05        14.04        11.51        24.76        18.08        16.08 
TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 
        2.86        14.40        15.78         0.20         2.53         9.21 
TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 
        7.63         8.48         1.22         1.55         2.83         0.13 
TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 
        0.66         6.74         4.77        15.39        21.07         0.49 
TCGA-32-1977 TCGA-32-1979 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 
        0.10        19.50         4.67        12.69        14.86        16.93 
TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 TCGA-32-2632 TCGA-32-2634 
       12.23        20.78        15.02        15.95         8.84        22.78 
TCGA-32-2638 TCGA-32-4208 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 
       25.18        21.14        12.59        19.86        10.85        19.23 
TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 TCGA-41-3393 
        0.85        13.35         8.94         9.53         0.99         4.44 
TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T 
        0.20        15.12        12.46         4.08         1.45        25.58 
TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 
        3.45        20.91         4.34        14.33         8.22         7.50 
TCGA-76-4926 TCGA-76-4929 TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 
        4.54         3.65         9.17         2.53        36.85        16.70 
TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 
        3.29         2.70        17.06         8.35        20.98         4.83 
TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R 
        5.03        23.90        34.45        18.64        36.20         5.92 
TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 
        6.28        20.55       117.50         7.69        43.89        36.36 
TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 
       60.10        40.18         0.26        21.01        53.62         6.38 
TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 
       17.69        26.76        37.38        46.95        48.30        49.94 
TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 
       49.12       122.73        81.96        75.25        47.93        72.92 
TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB 
       91.13        44.52        36.56        46.42        18.84        30.21 
TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L 
       39.78        37.45        33.57        72.95        31.63        24.20 
TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U 
       25.48        30.12         5.98        31.40        27.45        27.81 
TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M 
       29.23        14.40        18.51        12.10        11.24        17.88 
TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 
       30.74        16.18        19.96        63.88        46.06        24.59 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       13.71        18.61        18.02        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       15.16       211.17        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 
      133.74        19.89        16.83        94.52       114.08         7.96 
TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 
        2.40        11.47        62.96       156.23       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7019 
      105.21         6.54         8.84       117.40        90.77        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 
       10.36         7.96        94.32        18.94        44.02        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 
       60.30        23.31        41.98         2.76         5.10        23.74 
TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       14.60        20.68        21.40        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       33.27        29.85        31.69        24.43        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       33.96        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA 
       11.41        26.76        21.30        17.98       139.04        84.33 
TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ 
       51.52        37.38         7.50        44.42        38.89         0.56 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5305 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 
       50.14        67.46        79.99       134.27        78.21        95.57 
TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ 
      130.78        14.30        29.13        93.21         3.65        19.46 
TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YS TCGA-E1-A7YU 
       12.43        16.18        21.30        75.02        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       18.44        15.35        17.88        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 
       28.34        13.68        14.24        16.01        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J 
       32.61        38.27        10.72        18.71        23.70        14.76 
TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z 
       21.53        15.02        16.44        22.26        28.54        10.78 
TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 
       36.66        48.69         5.72        27.52         0.10         6.67 
TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
       11.54        40.11         0.13         0.03        16.54         3.75 
TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
       17.42         6.54         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 
        0.76        44.68         6.05        42.74         0.10        31.69 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 
       14.96         0.10         0.10         2.96        17.52         6.90 
TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 
       14.53        39.48        19.23        39.09         0.23        50.63 
TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 
        0.49        23.61        37.15         0.33         0.13         3.68 
TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 
        5.33        35.47         3.72        11.28        31.43         1.64 
TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
       16.24         9.40        63.55         0.10        37.87        33.01 
TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 
       12.23         6.25         0.10         0.46         2.50         5.56 
TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-A4DS 
       13.78         0.23        29.59        34.19        28.27         0.23 
TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB 
       26.04         0.13        20.22         0.07        27.35         0.10 
TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 
        5.33         2.70        16.93         1.81        16.14        16.83 
TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L 
       17.52        17.65         2.43        10.52        15.35        11.05 
TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 
        0.10        56.58        45.44        41.49        68.32        69.27 
TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ 
       35.44        39.75        40.01        42.54        24.92        31.63 
TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 
       12.76        28.87        20.71        19.00        14.40        14.40 
TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 
        0.23         6.71         7.99         2.37         2.30         9.44 
TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W 
        5.88         7.96         7.59         1.28         0.23        10.42 
TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 
       13.25        11.64        10.95         9.01        13.61         9.60 
TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A781 TCGA-QH-A65R 
        7.56        12.23        19.20         3.45         4.41        15.16 
TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU 
        2.53        12.62        15.85        14.04        19.33        14.83 
TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 
       14.53        13.61        12.23        13.41         9.17        10.29 
TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC 
       14.53        16.34        16.73         1.91        16.50        16.70 
TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X 
       11.08        12.99        88.83        94.03        32.65        30.87 
TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
        5.46         9.90        28.08         2.07        19.59        30.67 
TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY 
       62.17        87.12        18.77        41.10        40.93        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       36.82        24.39        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE 
       98.24        95.93         5.85       123.65        75.25       135.22 
TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN 
       85.55        38.56        84.99        31.10        19.86        26.47 
TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IY 
       18.61        18.64        14.07        36.13         7.92        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       18.54        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 
       30.05        98.63        31.59        20.48        54.77        48.33 
TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F 
       49.32        34.78        65.39        24.92        16.18        59.05 
TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M 
       40.64        30.44        28.08        24.16        40.83        24.79 
TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF 
       33.24        25.38        18.61        14.93        23.80        21.37 
TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RN 
       19.69        15.98         2.04        40.41        44.09        33.73 
TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV 
       31.20        30.05        26.14        25.87        33.93        61.41 
TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB 
       26.99        31.36        45.93        43.20        13.51         0.10 
TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M 
        7.89        39.16        20.02        23.47        37.05        16.01 
TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 
       23.21         8.05        51.06        13.32        43.96        39.88 
TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 
       43.40        45.80        46.88        37.71        20.81         7.63 
TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0010 TCGA-02-0011 
       11.77         4.73        18.35        23.18        35.41        20.71 
TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 
       82.59        20.61        87.06        77.65        20.12        53.10 
TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 
       24.59        12.16        90.58         2.83        14.14         3.62 
TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 
       10.72        10.52        18.31         6.87        14.73         3.22 
TCGA-02-0051 TCGA-02-0054 TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 
       15.09         6.54        19.86         8.35         9.57         6.02 
TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 TCGA-02-0075 
       19.73        26.43        28.70        25.05         5.49        20.84 
TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 
       27.25        89.72        22.72        12.62        51.32         8.81 
TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0106 
       57.76        16.96         3.48        27.02        65.00        11.67 
TCGA-02-0107 TCGA-02-0111 TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 
       17.65        23.18        92.65        99.98        15.65        48.95 
TCGA-02-0260 TCGA-02-0269 TCGA-02-0271 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 
       16.93        10.75        14.47        13.87        14.20        15.95 
TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 
       12.23         9.90         7.73        10.62         7.33        15.91 
TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 
       25.71         4.37        25.12        10.59        12.39        14.50 
TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-2466 
       10.55        47.11        11.34         9.27        16.21        16.80 
TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 
       12.92        15.32        15.45         2.70         6.15        20.38 
TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 
       47.61         6.94         3.98        22.72        33.67        12.95 
TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 
       14.30        26.70        24.23        11.90         0.20        10.29 
TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 
        2.20        11.74         2.33        20.09        17.79        10.09 
TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 
        8.61        19.46        46.59        12.33        13.94        10.45 
TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0165 
        3.19        10.82         9.44        11.80         3.42        10.65 
TCGA-06-0166 TCGA-06-0169 TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 
        5.85         3.29         4.47         3.22         4.04        91.00 
TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 
       88.14        20.25         3.65        69.90        73.84        27.22 
TCGA-06-0188 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 
       44.58        15.42        10.42        38.96         4.67         7.40 
TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 
        5.56         0.39         7.66         8.42         7.40        11.84 
TCGA-06-0213 TCGA-06-0219 TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 
        0.53         0.72        13.64        13.32        20.42        48.69 
TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 
        9.01         0.26        72.36         4.70         9.57         3.16 
TCGA-06-0644 TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0745 
       12.62         5.75         9.80         2.10        23.57         7.86 
TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 
        2.70         2.70         0.92        43.46        46.19         7.17 
TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1800 
       16.57        20.78        26.76        23.93         6.84        26.79 
TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 TCGA-06-2558 TCGA-06-2559 
       11.84        15.32        13.61        33.90        12.49         4.93 
TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 
       17.65        12.56        30.64         5.95        16.64         5.98 
TCGA-06-2567 TCGA-06-2570 TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 
        4.37        31.50         5.39       120.56         7.36        22.68 
TCGA-08-0245 TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 
       37.84         4.18       115.86         1.74         8.42        25.71 
TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 TCGA-08-0354 
       12.16         9.80        29.23        65.33         1.28        17.95 
TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 
       24.56        31.10        37.58        22.29         3.39        12.23 
TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 TCGA-08-0510 TCGA-08-0512 
       14.93        18.02        15.35        13.97         4.27        42.15 
TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 
       19.59        58.68        19.33        10.75         4.80         7.27 
TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0620 
       15.98        18.41         7.56        14.73        12.99        10.45 
TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 
        7.59        94.78         0.10        38.17        25.97        26.66 
TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 
       12.13         3.65        20.38        28.41        15.06        53.85 
TCGA-12-0773 TCGA-12-0775 TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 
       43.23         7.63        14.93        14.86        91.76        24.79 
TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 
       18.48        10.62        23.51        38.76         8.94        20.58 
TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 
      127.59         5.82         7.59        33.21        15.98        12.23 
TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-14-0787 TCGA-14-0789 
       15.85         9.11        14.53         3.98         2.24        11.24 
TCGA-14-0817 TCGA-14-0867 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 
        5.39         2.04        19.30         0.79        13.78        50.53 
TCGA-15-1446 TCGA-15-1447 TCGA-15-1449 TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 
       19.10        53.19        13.28         3.91        26.07        16.37 
TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 
       11.77        21.90         0.66        10.75         9.07         5.95 
TCGA-19-1388 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 
       12.95         4.64        31.33        14.86         5.49         1.58 
TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5207 TCGA-28-5208 
        7.92         2.33         7.30         5.26        11.28        17.88 
TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5215 TCGA-28-5218 
       14.53        11.77        31.27        23.44        11.01         5.16 
TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 
       22.68        12.76         5.42         7.36        11.38         5.42 
TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        3.75         1.61        17.72        26.30 

  16P LOSS MUTATED 16P LOSS WILD-TYPE 
              0.43               0.03 
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
             78.28             211.17 
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
            14.365             16.180 
[1] "0.4 - 78.3 (14.4)"  "0.0 - 211.2 (16.2)"
[1] "hr=" "2"  
D69V2, continuous
D69V3, binary
                    cls
clus                   0   1
  16P LOSS MUTATED    63  15
  16P LOSS WILD-TYPE 510 497
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16P LOSS MUTATED     63   15
  16P LOSS WILD-TYPE  510  497
                        clus
vv                       16P LOSS MUTATED 16P LOSS WILD-TYPE
  BRAIN                                63                510
  CENTRAL NERVOUS SYSTEM               15                497
[1] 2 2
[1] FALSE
D69V4, binary
                    cls
clus                   0   1
  16P LOSS MUTATED    29  49
  16P LOSS WILD-TYPE 424 583
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16P LOSS MUTATED     29   49
  16P LOSS WILD-TYPE  424  583
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  FEMALE               29                424
  MALE                 49                583
[1] 2 2
[1] FALSE
D69V5, binary
                    cls
clus                   0   1
  16P LOSS MUTATED    13  60
  16P LOSS WILD-TYPE 245 710
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16P LOSS MUTATED     13   60
  16P LOSS WILD-TYPE  245  710
     clus
vv    16P LOSS MUTATED 16P LOSS WILD-TYPE
  NO                13                245
  YES               60                710
[1] 2 2
[1] FALSE
D69V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  16P LOSS MUTATED             8                             1                3
  16P LOSS WILD-TYPE         186                            29              126
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  16P LOSS MUTATED                   4                   0
  16P LOSS WILD-TYPE               185                  18
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  16P LOSS MUTATED                                62
  16P LOSS WILD-TYPE                             463
D69V7, multiclass
                                 clus
vv                                16P LOSS MUTATED 16P LOSS WILD-TYPE
  ASTROCYTOMA                                    8                186
  GLIOBLASTOMA MULTIFORME (GBM)                  1                 29
  OLIGOASTROCYTOMA                               3                126
  OLIGODENDROGLIOMA                              4                185
  TREATED PRIMARY GBM                            0                 18
  UNTREATED PRIMARY (DE NOVO) GBM               62                463
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  16P LOSS MUTATED                                  0     1
  16P LOSS WILD-TYPE                                1    20
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  16P LOSS MUTATED                           6    70
  16P LOSS WILD-TYPE                        65   889
D69V8, multiclass
                                  clus
vv                                 16P LOSS MUTATED 16P LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           1                 20
  BLACK OR AFRICAN AMERICAN                       6                 65
  WHITE                                          70                889
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D69V9, binary
                    cls
clus                   0   1
  16P LOSS MUTATED     3  68
  16P LOSS WILD-TYPE  41 853
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16P LOSS MUTATED      3   68
  16P LOSS WILD-TYPE   41  853
                        clus
vv                       16P LOSS MUTATED 16P LOSS WILD-TYPE
  HISPANIC OR LATINO                    3                 41
  NOT HISPANIC OR LATINO               68                853
[1] 2 2
[1] FALSE

Clustering(70) Variable = 16Q LOSS MUTATION ANALYSIS
D70V1, survival
                    sevent
clus2                  0   1
  16Q LOSS MUTATED    20  84
  16Q LOSS WILD-TYPE 460 514
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
               104                974 
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                84                514 
$`16Q LOSS MUTATED`
TCGA-06-5418 TCGA-06-5859 TCGA-06-6698 TCGA-06-6700 TCGA-06-A6S0 TCGA-06-A6S1 
        2.73         4.57         4.77         4.77         3.12         2.56 
TCGA-12-1600 TCGA-12-3653 TCGA-12-5295 TCGA-12-5301 TCGA-14-0736 TCGA-14-0812 
       14.73        14.53        14.93         2.04        15.12         3.25 
TCGA-14-0862 TCGA-14-1823 TCGA-16-1045 TCGA-19-5953 TCGA-19-5955 TCGA-19-5956 
        2.89        17.85        29.03         4.73         1.78        22.49 
TCGA-27-1832 TCGA-27-2521 TCGA-27-2524 TCGA-28-1750 TCGA-28-1755 TCGA-32-1973 
        9.86        16.77         7.59         8.35         1.55        21.07 
TCGA-32-1978 TCGA-32-1980 TCGA-32-1987 TCGA-32-2494 TCGA-32-4210 TCGA-41-3915 
       15.85         1.18        14.86        20.78         3.72        11.84 
TCGA-74-6578 TCGA-76-4928 TCGA-DB-5277 TCGA-DB-5281 TCGA-DH-A669 TCGA-DU-5847 
       14.33         3.09        50.86        78.28        30.21        18.02 
TCGA-DU-7012 TCGA-DU-7014 TCGA-DU-7018 TCGA-DU-8165 TCGA-DU-8167 TCGA-E1-5307 
        6.54       117.40        30.67        19.13        15.48        57.93 
TCGA-E1-A7YQ TCGA-FG-A4MW TCGA-HT-7469 TCGA-HT-8564 TCGA-HT-A4DS TCGA-P5-A780 
       51.88        18.38        11.54        15.72         0.23         2.37 
TCGA-S9-A6U9 TCGA-S9-A6WH TCGA-S9-A7IX TCGA-S9-A89V TCGA-S9-A89Z TCGA-TQ-A7RM 
       95.93        38.56        26.93        18.71        20.48        36.69 
TCGA-02-0009 TCGA-02-0052 TCGA-02-0055 TCGA-02-0074 TCGA-02-0114 TCGA-02-0258 
       10.59        12.59         2.50        10.19        99.98        16.54 
TCGA-02-0266 TCGA-02-0281 TCGA-02-0321 TCGA-02-0337 TCGA-02-0456 TCGA-02-2486 
       17.72         3.98         9.90        25.12         3.35        20.32 
TCGA-06-0132 TCGA-06-0164 TCGA-06-0168 TCGA-06-0171 TCGA-06-0177 TCGA-06-0214 
       25.35        56.91        19.66        13.12         4.18        15.02 
TCGA-06-0216 TCGA-06-0221 TCGA-06-0394 TCGA-06-0414 TCGA-06-0645 TCGA-06-0686 
       24.16        19.82        10.82        35.11         5.75        14.20 
TCGA-06-0743 TCGA-06-0744 TCGA-06-0749 TCGA-06-0879 TCGA-06-0882 TCGA-06-1087 
       26.40        46.88         2.70        40.41        20.78         4.04 
TCGA-06-2557 TCGA-06-2569 TCGA-06-6389 TCGA-06-6693 TCGA-08-0353 TCGA-08-0392 
        1.08         0.43         7.79       120.56         8.42         0.72 
TCGA-08-0509 TCGA-08-0520 TCGA-08-0525 TCGA-12-0618 TCGA-12-0619 TCGA-12-0654 
       12.56        10.75        15.98        12.99        34.92         7.59 
TCGA-12-0826 TCGA-12-1099 TCGA-14-0813 TCGA-14-0871 TCGA-19-1389 TCGA-28-5204 
       27.78         4.14         1.35        28.93         4.64        14.93 
TCGA-28-5216 TCGA-76-6660 
       13.64         3.75 

$`16Q LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K 
       42.05        62.01        17.16        23.90        20.09        17.82 
TCGA-FG-A713 TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M 
       20.45        18.64        21.40        45.60        42.77        59.38 
TCGA-06-1806 TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 
       15.32        11.74         3.55         8.35         4.54         8.81 
TCGA-06-5414 TCGA-06-5415 TCGA-06-5416 TCGA-06-5856 TCGA-06-5858 TCGA-06-6388 
        8.98         8.55         6.71         3.75         6.15         5.23 
TCGA-06-6695 TCGA-06-6697 TCGA-06-6699 TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 
        8.32        12.85         1.55         4.96        26.79         1.87 
TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 
       14.60        17.72        15.35        21.73        15.65        25.68 
TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 
        6.77        59.77        44.02        26.93        15.22        10.95 
TCGA-12-3651 TCGA-12-3652 TCGA-12-5299 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 
       12.69        34.92         3.22        11.97         0.95         6.21 
TCGA-14-0786 TCGA-14-0790 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 
       23.05        13.78        16.50        26.33        15.95         1.38 
TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 
        1.12         3.75        32.05        58.78        23.11         7.10 
TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 
        1.15        30.18         0.92        40.96         6.67        12.43 
TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 
        0.99         1.97        17.79         7.63         5.88         7.17 
TCGA-14-2554 TCGA-14-2555 TCGA-14-3477 TCGA-14-4157 TCGA-16-0848 TCGA-16-1047 
       17.49         7.96         3.78         3.42        17.59         4.57 
TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 
       10.29        14.01         9.14        21.24        13.97         6.41 
TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 TCGA-19-1392 TCGA-19-1786 
        8.61        14.27         3.39        25.38         3.65         7.17 
TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 
       12.66         3.25         0.13         9.67         4.87         1.08 
TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 
        7.53         0.16         4.08        24.23         7.00         7.04 
TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5954 TCGA-19-5958 
        6.64        17.19         8.02        18.90        12.10        14.07 
TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 
       16.80        14.96        17.79        28.54        10.03        13.87 
TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 
        9.73         7.13         9.37         9.40         8.88        18.97 
TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 
       19.33         5.06        16.60        24.23        40.54        21.30 
TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2523 
       30.05        14.04        11.51        24.76        18.08        16.08 
TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 
        2.86        14.40        15.78         0.20         2.53         9.21 
TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 
        7.63         8.48         1.22         2.83         0.13         0.66 
TCGA-28-2506 TCGA-28-2509 TCGA-32-1970 TCGA-32-1976 TCGA-32-1977 TCGA-32-1979 
        6.74         4.77        15.39         0.49         0.10        19.50 
TCGA-32-1982 TCGA-32-1986 TCGA-32-1991 TCGA-32-2491 TCGA-32-2495 TCGA-32-2615 
        4.67        12.69        16.93        12.23        15.02        15.95 
TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 TCGA-32-4211 TCGA-32-4213 
        8.84        22.78        25.18        21.14        12.59        19.86 
TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 
       10.85        19.23         0.85        13.35         8.94         9.53 
TCGA-41-3392 TCGA-41-3393 TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R 
        0.99         4.44         0.20        15.12        12.46         4.08 
TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6581 
        1.45        25.58         3.45        20.91         4.34         8.22 
TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 TCGA-76-4929 TCGA-76-4931 TCGA-76-4934 
        7.50         4.80         4.54         3.65         9.17         2.53 
TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 
       36.85        16.70         3.29         2.70        17.06         8.35 
TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 
       20.98         4.83         5.03        23.90        34.45        18.64 
TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 
       36.20         5.92         6.28        20.55       117.50         7.69 
TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 
       43.89        36.36        60.10        40.18         0.26        21.01 
TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 
       53.62         6.38        17.69        26.76        37.38        46.95 
TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 
       48.30        49.94        49.12       122.73        81.96        75.25 
TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-A4X9 
       47.93        72.92        91.13        44.52        36.56        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG 
       18.84        30.21        39.78        37.45        33.57        72.95 
TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R 
       31.63        24.20        25.48        30.12         5.98        31.40 
TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K 
       27.45        27.81        29.23        14.40        18.51        12.10 
TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 
       11.24        17.88        30.74        16.18        19.96        63.88 
TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR 
       46.06        24.59        27.81        17.19        17.19        54.25 
TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5849 TCGA-DU-5851 
       23.21        17.46        13.71        18.61        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 
       17.49        15.16       211.17        52.11        22.42        49.02 
TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 
       75.16        46.06        65.75         1.22        87.45         7.04 
TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 
       11.64       133.74        19.89        16.83        94.52       114.08 
TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 
        7.96         2.40        11.47        62.96       156.23       154.36 
TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7019 TCGA-DU-7290 
       14.99       105.21         8.84        90.77        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 
        7.96        94.32        18.94        44.02        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8166 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR 
       20.68        21.40        16.96        14.17        33.27        29.85 
TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 
       31.69        24.43        26.17        24.99        33.96        25.55 
TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L 
       21.57        95.11        20.98        22.29        11.41        26.76 
TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC 
       21.30        17.98       139.04        84.33        51.52        37.38 
TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 
        7.50        44.42        38.89         0.56        50.14        67.46 
TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 
       41.13        79.99       134.27        78.21        95.57       130.78 
TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK 
       14.30        29.13        93.21         3.65        19.46        12.43 
TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV 
       16.18        21.30        75.02        15.32         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       36.82       146.14        13.08        73.48       145.05        32.35 
TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 
       39.48         0.23         0.20        47.77        25.48        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 
       15.35        17.88        22.55        20.61        20.09        28.34 
TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 
       13.68        14.24        16.01        14.96        22.52        32.61 
TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L 
       38.27        10.72        18.71        23.70        14.76        21.53 
TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 
       15.02        16.44        22.26        28.54        10.78        36.66 
TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7470 
       48.69         5.72        27.52         0.10         6.67        40.11 
TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 
        0.13         0.03        16.54         3.75        17.42         6.54 
TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 
       24.26         6.38        40.34        75.19        95.93       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
        4.57        17.29         3.16        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       57.60         0.23        14.27         0.16        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 
       44.68         6.05        42.74         0.10        31.69        14.96 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
        0.10         0.10         2.96        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 
       39.48        19.23        39.09         0.23        50.63         0.49 
TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
       23.61        37.15         0.33         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 
       35.47         3.72        11.28        31.43         1.64        16.24 
TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 
        9.40        63.55         0.10        37.87        33.01        12.23 
TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 
        6.25         0.10         0.46         2.50         5.56        13.78 
TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-A4DV TCGA-HT-A5R5 
        0.23        29.59        34.19        28.27        26.04         0.13 
TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 
       20.22         0.07        27.35         0.10         5.33         2.70 
TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C 
       16.93         1.81        16.14        16.83        17.52        17.65 
TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
        2.43        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 
       45.44        41.49        68.32        69.27        35.44        39.75 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL 
       40.01        42.54        24.92        31.63        12.76        28.87 
TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW 
       20.71        19.00        14.40        14.40         0.23         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        7.99         2.37         2.30         9.44         5.88         7.96 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        7.59         1.28         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V 
       19.20         3.45         4.41        15.16         2.53        12.62 
TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW 
       15.85        14.04        19.33        14.83        14.53        13.61 
TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 
       12.23        13.41         9.17        10.29        14.53        16.34 
TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 
       16.73         1.91        16.50        16.70        11.08        12.99 
TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z 
       88.83        94.03        32.65        30.87         5.46         9.90 
TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU 
       28.08         2.07        19.59        30.67        62.17        87.12 
TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       18.77        41.10        40.93        35.38        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6UA 
       25.81        29.85        32.61        35.15        98.24         5.85 
TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WI TCGA-S9-A6WL 
      123.65        75.25       135.22        85.55        84.99        31.10 
TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ 
       19.86        26.47        18.61        18.64        14.07        36.13 
TCGA-S9-A7IS TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 
        7.92        23.51        19.99        20.02         8.19         2.04 
TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 
       20.68        15.06        18.54        28.37        27.16       169.84 
TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-TM-A7C3 
       10.39        99.06        30.05        98.63        31.59        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       48.33        49.32        34.78        65.39        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       59.05        40.64        30.44        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU 
       33.73        31.20        30.05        26.14        25.87        33.93 
TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA 
       61.41        26.99        31.36        45.93        43.20        13.51 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 
        0.10         7.89        39.16        20.02        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       16.01        23.21         8.05        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 
TCGA-06-0209 TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0010 
        7.63        11.77         4.73        18.35        23.18        35.41 
TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 
       20.71        82.59        20.61        87.06        77.65        20.12 
TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 
       53.10        42.74        24.59        12.16        90.58         2.83 
TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 
       14.14         3.62        10.72        10.52        18.31         6.87 
TCGA-02-0047 TCGA-02-0048 TCGA-02-0051 TCGA-02-0054 TCGA-02-0057 TCGA-02-0058 
       14.73         3.22        15.09         6.54        19.86         8.35 
TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 
        9.57         6.02        19.73        26.43        28.70        25.05 
TCGA-02-0071 TCGA-02-0075 TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 
        5.49        20.84        27.25        89.72        22.72        12.62 
TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 
       51.32         8.81        57.76        16.96         3.48        27.02 
TCGA-02-0104 TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 TCGA-02-0113 TCGA-02-0115 
       65.00        11.67        17.65        23.18        92.65        15.65 
TCGA-02-0116 TCGA-02-0260 TCGA-02-0269 TCGA-02-0271 TCGA-02-0285 TCGA-02-0289 
       48.95        16.93        10.75        14.47        13.87        14.20 
TCGA-02-0290 TCGA-02-0317 TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 
       15.95        12.23         7.73        10.62         7.33        15.91 
TCGA-02-0332 TCGA-02-0333 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 
       25.71         4.37        10.59        12.39        14.50        10.55 
TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-2466 TCGA-02-2470 
       47.11        11.34         9.27        16.21        16.80        12.92 
TCGA-02-2483 TCGA-02-2485 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 
       15.32        15.45         2.70         6.15        20.38        47.61 
TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 TCGA-06-0133 
        6.94         3.98        22.72        33.67        12.95        14.30 
TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 
       26.70        24.23        11.90         0.20        10.29         2.20 
TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 
       11.74         2.33        20.09        17.79        10.09         8.61 
TCGA-06-0150 TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 
       19.46        46.59        12.33        13.94        10.45         3.19 
TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0165 TCGA-06-0166 
       10.82         9.44        11.80         3.42        10.65         5.85 
TCGA-06-0169 TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0178 
        3.29         4.47         3.22         4.04        91.00        88.14 
TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 
       20.25         3.65        69.90        73.84        27.22        44.58 
TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 
       15.42        10.42        38.96         4.67         7.40         5.56 
TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 
        0.39         7.66         8.42         7.40        11.84         0.53 
TCGA-06-0219 TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0397 
        0.72        13.64        13.32        20.42        48.69         9.01 
TCGA-06-0402 TCGA-06-0409 TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 TCGA-06-0644 
        0.26        72.36         4.70         9.57         3.16        12.62 
TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0745 TCGA-06-0747 
        5.75         9.80         2.10        23.57         7.86         2.70 
TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 TCGA-06-0878 TCGA-06-0881 TCGA-06-0939 
        0.92        43.46        46.19         7.17        16.57        26.76 
TCGA-06-1084 TCGA-06-1086 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 
       23.93         6.84        26.79        11.84        15.32        13.61 
TCGA-06-1805 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 
       33.90        12.49         4.93        17.65        12.56        30.64 
TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2570 TCGA-06-6390 
        5.95        16.64         5.98         4.37        31.50         5.39 
TCGA-06-6694 TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 
        7.36        22.68        37.84         4.18       115.86         1.74 
TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 
        8.42        25.71        12.16         9.80        29.23        65.33 
TCGA-08-0352 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 
        1.28        17.95        24.56        31.10        37.58        22.29 
TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 
        3.39        12.23        14.93        18.02        15.35        13.97 
TCGA-08-0510 TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 
        4.27        42.15        11.08        19.59        58.68        19.33 
TCGA-08-0521 TCGA-08-0524 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0620 
        4.80         7.27        18.41         7.56        14.73        10.45 
TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 
       94.78         0.10        38.17        25.97        26.66        12.13 
TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 
        3.65        20.38        28.41        15.06        53.85        43.23 
TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 
        7.63         9.73        14.93        14.86        91.76        24.79 
TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 
       18.48        10.62        23.51        38.76         8.94        20.58 
TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 
      127.59         5.82         7.59        33.21        15.98        12.23 
TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-14-0787 TCGA-14-0789 
       15.85         9.11        14.53         3.98         2.24        11.24 
TCGA-14-0817 TCGA-14-0867 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 
        5.39         2.04        19.30         0.79        13.78        50.53 
TCGA-15-1446 TCGA-15-1447 TCGA-15-1449 TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 
       19.10        53.19        13.28         3.91        26.07        16.37 
TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 
       11.77        21.90         0.66        10.75         9.07         5.95 
TCGA-19-1388 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 
       12.95        31.33        14.86         5.49         1.58         7.92 
TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 
        2.33         7.30         5.26        11.28        17.88        14.53 
TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5215 TCGA-28-5218 TCGA-28-5219 
       11.77        31.27        23.44        11.01         5.16        22.68 
TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-81-5910 
       12.76         5.42         7.36        11.38         5.42         1.61 
TCGA-81-5911 TCGA-87-5896 
       17.72        26.30 

  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
              0.23               0.03 
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
            120.56             211.17 
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
             14.43              16.29 
[1] "0.2 - 120.6 (14.4)" "0.0 - 211.2 (16.3)"
[1] "hr=" "1.9"
D70V2, continuous
D70V3, binary
                    cls
clus                   0   1
  16Q LOSS MUTATED    82  22
  16Q LOSS WILD-TYPE 491 490
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16Q LOSS MUTATED     82   22
  16Q LOSS WILD-TYPE  491  490
                        clus
vv                       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  BRAIN                                82                491
  CENTRAL NERVOUS SYSTEM               22                490
[1] 2 2
[1] FALSE
D70V4, binary
                    cls
clus                   0   1
  16Q LOSS MUTATED    42  62
  16Q LOSS WILD-TYPE 411 570
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16Q LOSS MUTATED     42   62
  16Q LOSS WILD-TYPE  411  570
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  FEMALE               42                411
  MALE                 62                570
[1] 2 2
[1] FALSE
D70V5, binary
                    cls
clus                   0   1
  16Q LOSS MUTATED    15  82
  16Q LOSS WILD-TYPE 243 688
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16Q LOSS MUTATED     15   82
  16Q LOSS WILD-TYPE  243  688
     clus
vv    16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  NO                15                243
  YES               82                688
[1] 2 2
[1] FALSE
D70V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  16Q LOSS MUTATED            11                             3                5
  16Q LOSS WILD-TYPE         183                            27              124
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  16Q LOSS MUTATED                   6                   1
  16Q LOSS WILD-TYPE               183                  17
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  16Q LOSS MUTATED                                78
  16Q LOSS WILD-TYPE                             447
D70V7, multiclass
                                 clus
vv                                16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  ASTROCYTOMA                                   11                183
  GLIOBLASTOMA MULTIFORME (GBM)                  3                 27
  OLIGOASTROCYTOMA                               5                124
  OLIGODENDROGLIOMA                              6                183
  TREATED PRIMARY GBM                            1                 17
  UNTREATED PRIMARY (DE NOVO) GBM               78                447
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  16Q LOSS MUTATED                                  0     1
  16Q LOSS WILD-TYPE                                1    20
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  16Q LOSS MUTATED                          11    89
  16Q LOSS WILD-TYPE                        60   870
D70V8, multiclass
                                  clus
vv                                 16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           1                 20
  BLACK OR AFRICAN AMERICAN                      11                 60
  WHITE                                          89                870
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D70V9, binary
                    cls
clus                   0   1
  16Q LOSS MUTATED     4  90
  16Q LOSS WILD-TYPE  40 831
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  16Q LOSS MUTATED      4   90
  16Q LOSS WILD-TYPE   40  831
                        clus
vv                       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  HISPANIC OR LATINO                    4                 40
  NOT HISPANIC OR LATINO               90                831
[1] 2 2
[1] FALSE

Clustering(71) Variable = 17P LOSS MUTATION ANALYSIS
D71V1, survival
                    sevent
clus2                  0   1
  17P LOSS MUTATED    23  55
  17P LOSS WILD-TYPE 457 543
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                78               1000 
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                55                543 
$`17P LOSS MUTATED`
TCGA-06-5408 TCGA-12-3653 TCGA-14-1396 TCGA-14-1453 TCGA-19-0960 TCGA-19-2623 
       11.74        14.53         1.12         1.15         8.61         7.53 
TCGA-19-4065 TCGA-19-A60I TCGA-27-1835 TCGA-28-2509 TCGA-32-1976 TCGA-32-2491 
        7.04        17.79        21.30         4.77         0.49        12.23 
TCGA-41-2573 TCGA-41-3392 TCGA-41-3915 TCGA-41-5651 TCGA-4W-AA9S TCGA-76-4925 
        8.94         0.99        11.84        15.12         1.45         4.80 
TCGA-76-4934 TCGA-76-6285 TCGA-76-6662 TCGA-DU-6400 TCGA-DU-7010 TCGA-DU-8161 
        2.53         8.35        34.45         1.22        14.99        23.74 
TCGA-DU-8165 TCGA-DU-A5TP TCGA-FG-A4MY TCGA-HT-7689 TCGA-HT-8106 TCGA-HT-8564 
       19.13        33.27        23.70        14.96         0.10        15.72 
TCGA-HT-A4DS TCGA-P5-A5EZ TCGA-P5-A5F6 TCGA-S9-A6WM TCGA-TQ-A7RI TCGA-02-0001 
        0.23         2.30         1.28        19.86         2.04        11.77 
TCGA-02-0033 TCGA-02-0051 TCGA-02-0055 TCGA-02-0059 TCGA-02-0069 TCGA-02-0079 
        2.83        15.09         2.50         9.57        28.70        27.25 
TCGA-02-0086 TCGA-02-0104 TCGA-02-0106 TCGA-02-0113 TCGA-02-0258 TCGA-02-0269 
        8.81        65.00        11.67        92.65        16.54        10.75 
TCGA-06-0130 TCGA-06-0147 TCGA-06-0149 TCGA-06-0152 TCGA-06-0159 TCGA-06-0177 
       12.95        17.79         8.61        12.33         9.44         4.18 
TCGA-06-0184 TCGA-06-0187 TCGA-06-0189 TCGA-06-0190 TCGA-06-0197 TCGA-06-0644 
       69.90        27.22        15.42        10.42         5.56        12.62 
TCGA-06-2561 TCGA-08-0245 TCGA-08-0353 TCGA-08-0386 TCGA-08-0390 TCGA-12-0619 
       17.65        37.84         8.42        18.02        13.97        34.92 
TCGA-12-0772 TCGA-12-0826 TCGA-12-1098 TCGA-14-0871 TCGA-15-1447 TCGA-15-1449 
       53.85        27.78         3.98        28.93        53.19        13.28 
TCGA-16-0846 TCGA-26-1442 TCGA-26-5133 TCGA-28-5215 TCGA-76-6283 TCGA-76-6660 
        3.91        31.33        14.86        11.01         5.42         3.75 

$`17P LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K 
       42.05        62.01        17.16        23.90        20.09        17.82 
TCGA-FG-A713 TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M 
       20.45        18.64        21.40        45.60        42.77        59.38 
TCGA-06-1806 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 
       15.32         3.55         8.35         4.54         8.81         8.98 
TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 
        8.55         6.71         2.73         3.75         6.15         4.57 
TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 
        5.23         8.32        12.85         4.77         1.55         4.77 
TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK 
        4.96        26.79         1.87         3.12         2.56        14.60 
TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 
       17.72        15.35        21.73        15.65        25.68        14.73 
TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 
        6.77        59.77        44.02        26.93        15.22        10.95 
TCGA-12-3651 TCGA-12-3652 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 
       12.69        34.92        14.93         3.22         2.04        15.12 
TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 
       11.97         0.95         6.21        23.05        13.78         3.25 
TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1401 
        2.89        16.50        26.33        15.95         1.38         3.75 
TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1454 TCGA-14-1455 
       32.05        58.78        23.11         7.10        30.18         0.92 
TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 
       40.96         6.67        12.43         0.99         1.97        17.79 
TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 
       17.85         7.63         5.88         7.17        17.49         7.96 
TCGA-14-3477 TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 
        3.78         3.42        17.59        29.03         4.57        10.29 
TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0963 
       14.01         9.14        21.24        13.97         6.41        14.27 
TCGA-19-0964 TCGA-19-1390 TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 
        3.39        25.38         3.65         7.17        12.66         3.25 
TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2624 TCGA-19-2625 
        0.13         9.67         4.87         1.08         0.16         4.08 
TCGA-19-2629 TCGA-19-2631 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 
       24.23         7.00         6.64        17.19         8.02        18.90 
TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 
        4.73        12.10         1.78        22.49        14.07        16.80 
TCGA-19-5960 TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 
       14.96        28.54        10.03        13.87         9.73         7.13 
TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 
        9.37         9.40         8.88        18.97        19.33         5.06 
TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 TCGA-27-1836 TCGA-27-1837 
       16.60         9.86        24.23        40.54        30.05        14.04 
TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 TCGA-27-2524 
       11.51        24.76        18.08        16.77        16.08         7.59 
TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 
        2.86        14.40        15.78         0.20         2.53         9.21 
TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 
        8.35         7.63         8.48         1.22         1.55         2.83 
TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-32-1970 TCGA-32-1973 TCGA-32-1977 
        0.13         0.66         6.74        15.39        21.07         0.10 
TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 
       15.85        19.50         1.18         4.67        12.69        14.86 
TCGA-32-1991 TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 TCGA-32-2632 TCGA-32-2634 
       16.93        20.78        15.02        15.95         8.84        22.78 
TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 
       25.18        21.14         3.72        12.59        19.86        10.85 
TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2575 TCGA-41-3393 TCGA-41-4097 
       19.23         0.85        13.35         9.53         4.44         0.20 
TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 
       12.46         4.08        25.58         3.45        20.91         4.34 
TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 
       14.33         8.22         7.50         4.54         3.09         3.65 
TCGA-76-4931 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 
        9.17        36.85        16.70         3.29         2.70        17.06 
TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6663 TCGA-76-6664 
       20.98         4.83         5.03        23.90        18.64        36.20 
TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 
        5.92         6.28        20.55       117.50         7.69        43.89 
TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 
       36.36        60.10        40.18         0.26        21.01        53.62 
TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 
        6.38        17.69        26.76        37.38        46.95        48.30 
TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.94        49.12       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 
       72.92        50.86        91.13        44.52        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF 
       46.42        18.84        30.21        39.78        37.45        33.57 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       72.95        31.63        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 
       12.10        11.24        17.88        30.74        16.18        19.96 
TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F 
       63.88        46.06        24.59        30.21        27.81        17.19 
TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV 
       17.19        54.25        23.21        17.46        13.71        18.61 
TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 
       18.02        14.56        17.46         6.74        13.38         8.45 
TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 
        6.81       182.33        18.94        17.49        15.16       211.17 
TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
       52.11        22.42        49.02        75.16        46.06        65.75 
TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 
       87.45         7.04        11.64       133.74        19.89        16.83 
TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 
       94.52       114.08         7.96         2.40        11.47        62.96 
TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 
      156.23       154.36       105.21         6.54         8.84       117.40 
TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 
       90.77        30.67        26.30        10.36         7.96        94.32 
TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 
       18.94        44.02        25.91        60.30        23.31        41.98 
TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8166 
        2.76         5.10        14.60        20.68        21.40        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU 
       15.48        14.17        29.85        31.69        24.43        26.17 
TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 
       24.99        33.96        25.55        21.57        95.11        20.98 
TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 
       22.29        11.41        26.76        21.30        17.98       139.04 
TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI 
       84.33        51.52        37.38         7.50        44.42        38.89 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 
        0.56        50.14        67.46        41.13        79.99        57.93 
TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE 
      134.27        78.21        95.57       130.78        14.30        29.13 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM 
       93.21         3.65        19.46        12.43        16.18        21.30 
TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW 
       75.02        51.88        15.32         0.76        32.45        36.82 
TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 
      146.14        13.08        73.48       145.05        32.35        39.48 
TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 
        0.23         0.20        47.77        25.48        52.21        36.82 
TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 
       18.77        14.93        42.54        41.33        18.44        15.35 
TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 
       17.88        22.55        20.61        20.09        28.34        13.68 
TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT 
       14.24        16.01        14.96        22.52        32.61        38.27 
TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ 
       10.72        18.38        18.71        14.76        21.53        15.02 
TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 
       16.44        22.26        28.54        10.78        36.66        48.69 
TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 
        5.72        27.52         0.10         6.67        11.54        40.11 
TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 
        0.13         0.03        16.54         3.75        17.42         6.54 
TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 
       24.26         6.38        40.34        75.19        95.93       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
        4.57        17.29         3.16        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       57.60         0.23        14.27         0.16        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7690 
       44.68         6.05        42.74         0.10        31.69         0.10 
TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 
        0.10         2.96        17.52         6.90        14.53        39.48 
TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 
       19.23        39.09         0.23        50.63         0.49        23.61 
TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
       37.15         0.33         0.13         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 
        3.72        11.28        31.43         1.64        16.24         9.40 
TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 
       63.55         0.10        37.87        33.01        12.23         6.25 
TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 
        0.46         2.50         5.56        13.78         0.23        29.59 
TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 
       34.19        28.27        26.04         0.13        20.22         0.07 
TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 
       27.35         0.10         5.33         2.70        16.93         1.81 
TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J 
       16.14        16.83        17.52        17.65         2.43        10.52 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 
       15.35        11.05         0.10        56.58        45.44        41.49 
TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       68.32        69.27        35.44        39.75        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 
       24.92        31.63        12.76        28.87        20.71        19.00 
TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY 
       14.40        14.40         0.23         6.71         7.99         2.37 
TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A72U TCGA-P5-A72W 
        9.44         5.88         7.96         7.59         0.23        10.42 
TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 
       13.25        11.64        10.95         9.01        13.61         9.60 
TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 
        7.56        12.23        19.20         3.45         2.37         4.41 
TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS 
       15.16         2.53        12.62        15.85        14.04        19.33 
TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ 
       14.83        14.53        13.61        12.23        13.41         9.17 
TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA 
       10.29        14.53        16.34        16.73         1.91        16.50 
TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO 
       16.70        11.08        12.99        88.83        94.03        32.65 
TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 
       30.87         5.46         9.90        28.08         2.07        19.59 
TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX 
       30.67        62.17        87.12        18.77        41.10        40.93 
TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 
       35.38        36.82        24.39        25.81        29.85        32.61 
TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD 
       35.15        98.24        95.93         5.85       123.65        75.25 
TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WN 
      135.22        85.55        38.56        84.99        31.10        26.47 
TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX 
       18.61        18.64        14.07        36.13         7.92        26.93 
TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       23.51        19.99        20.02         8.19         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 
       15.06        18.54        28.37        27.16       169.84        10.39 
TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z 
       99.06        30.05        98.63        31.59        18.71        20.48 
TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B 
       54.77        48.33        49.32        34.78        65.39        24.92 
TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J 
       16.18        59.05        40.64        30.44        28.08        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       23.80        21.37        19.69        15.98        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       36.69        33.73        31.20        30.05        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 
       33.93        61.41        26.99        31.36        45.93        43.20 
TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH 
       13.51         0.10         7.89        39.16        20.02        23.47 
TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K 
       37.05        16.01        23.21         8.05        51.06        13.32 
TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D 
       43.96        39.88        43.40        45.80        46.88        37.71 
TCGA-WY-A85E TCGA-06-0209 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 
       20.81         7.63         4.73        18.35        23.18        10.59 
TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 
       35.41        20.71        82.59        20.61        87.06        77.65 
TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 
       20.12        53.10        42.74        24.59        12.16        90.58 
TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 
       14.14         3.62        10.72        10.52        18.31         6.87 
TCGA-02-0047 TCGA-02-0048 TCGA-02-0052 TCGA-02-0054 TCGA-02-0057 TCGA-02-0058 
       14.73         3.22        12.59         6.54        19.86         8.35 
TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 
        6.02        19.73        26.43        25.05         5.49        10.19 
TCGA-02-0075 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0087 
       20.84        89.72        22.72        12.62        51.32        57.76 
TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0107 TCGA-02-0111 TCGA-02-0114 
       16.96         3.48        27.02        17.65        23.18        99.98 
TCGA-02-0115 TCGA-02-0116 TCGA-02-0260 TCGA-02-0266 TCGA-02-0271 TCGA-02-0281 
       15.65        48.95        16.93        17.72        14.47         3.98 
TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 
       13.87        14.20        15.95        12.23         9.90         7.73 
TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 
       10.62         7.33        15.91        25.71         4.37        25.12 
TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 
       10.59        12.39        14.50        10.55        47.11        11.34 
TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 
        9.27        16.21         3.35        16.80        12.92        15.32 
TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 
       15.45        20.32         2.70         6.15        20.38        47.61 
TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 TCGA-06-0132 TCGA-06-0133 
        6.94         3.98        22.72        33.67        25.35        14.30 
TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 
       26.70        24.23        11.90         0.20        10.29         2.20 
TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0148 TCGA-06-0150 TCGA-06-0151 
       11.74         2.33        20.09        10.09        19.46        46.59 
TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0160 TCGA-06-0162 
       13.94        10.45         3.19        10.82        11.80         3.42 
TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 
       56.91        10.65         5.85        19.66         3.29        13.12 
TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0178 TCGA-06-0179 
        4.47         3.22         4.04        91.00        88.14        20.25 
TCGA-06-0182 TCGA-06-0185 TCGA-06-0188 TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 
        3.65        73.84        44.58        38.96         4.67         7.40 
TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 
        0.39         7.66         8.42         7.40        11.84         0.53 
TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 TCGA-06-0238 
       15.02        24.16         0.72        19.82        13.64        13.32 
TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 
       20.42        48.69        10.82         9.01         0.26        72.36 
TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 TCGA-06-0414 TCGA-06-0645 TCGA-06-0646 
        4.70         9.57         3.16        35.11         5.75         5.75 
TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 
        9.80         2.10        23.57        14.20        26.40        46.88 
TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 
        7.86         2.70         2.70         0.92        43.46        46.19 
TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 
        7.17        40.41        16.57        20.78        26.76        23.93 
TCGA-06-1086 TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 
        6.84         4.04        26.79        11.84        15.32        13.61 
TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2562 TCGA-06-2563 
       33.90         1.08        12.49         4.93        12.56        30.64 
TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 
        5.95        16.64         5.98         4.37         0.43        31.50 
TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 TCGA-08-0246 
        7.79         5.39       120.56         7.36        22.68         4.18 
TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 
      115.86         1.74         8.42        25.71        12.16         9.80 
TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 
       29.23        65.33         1.28        17.95        24.56        31.10 
TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0389 
       37.58        22.29         3.39        12.23        14.93        15.35 
TCGA-08-0392 TCGA-08-0509 TCGA-08-0510 TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 
        0.72        12.56         4.27        42.15        11.08        19.59 
TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 
       58.68        19.33        10.75         4.80         7.27        15.98 
TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0620 TCGA-12-0654 
       18.41         7.56        14.73        12.99        10.45         7.59 
TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 
       94.78         0.10        38.17        25.97        26.66        12.13 
TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0773 TCGA-12-0775 
        3.65        20.38        28.41        15.06        43.23         7.63 
TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 
        9.73        14.93        14.86        91.76        24.79        18.48 
TCGA-12-0821 TCGA-12-0822 TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 
       10.62        23.51        38.76         8.94        20.58       127.59 
TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 
        5.82         7.59        33.21        15.98        12.23        15.85 
TCGA-12-1096 TCGA-12-1097 TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 
        9.11        14.53         4.14         2.24        11.24         1.35 
TCGA-14-0817 TCGA-14-0867 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 
        5.39         2.04        19.30         0.79        13.78        50.53 
TCGA-15-1446 TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 
       19.10        26.07        16.37        11.77        21.90         0.66 
TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1388 TCGA-19-1389 TCGA-26-5134 
       10.75         9.07         5.95        12.95         4.64         5.49 
TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 
        1.58         7.92         2.33         7.30         5.26        14.93 
TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 
       11.28        17.88        14.53        11.77        31.27        23.44 
TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 
       13.64         5.16        22.68        12.76         5.42         7.36 
TCGA-76-6280 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
       11.38         1.61        17.72        26.30 

  17P LOSS MUTATED 17P LOSS WILD-TYPE 
              0.10               0.03 
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
             92.65             211.17 
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
            12.035             16.470 
[1] "0.1 - 92.7 (12.0)"  "0.0 - 211.2 (16.5)"
[1] "hr=" "1.9"
D71V2, continuous
D71V3, binary
                    cls
clus                   0   1
  17P LOSS MUTATED    64  14
  17P LOSS WILD-TYPE 509 498
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17P LOSS MUTATED     64   14
  17P LOSS WILD-TYPE  509  498
                        clus
vv                       17P LOSS MUTATED 17P LOSS WILD-TYPE
  BRAIN                                64                509
  CENTRAL NERVOUS SYSTEM               14                498
[1] 2 2
[1] FALSE
D71V4, binary
                    cls
clus                   0   1
  17P LOSS MUTATED    37  41
  17P LOSS WILD-TYPE 416 591
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17P LOSS MUTATED     37   41
  17P LOSS WILD-TYPE  416  591
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  FEMALE               37                416
  MALE                 41                591
[1] 2 2
[1] FALSE
D71V5, binary
                    cls
clus                   0   1
  17P LOSS MUTATED    13  60
  17P LOSS WILD-TYPE 245 710
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17P LOSS MUTATED     13   60
  17P LOSS WILD-TYPE  245  710
     clus
vv    17P LOSS MUTATED 17P LOSS WILD-TYPE
  NO                13                245
  YES               60                710
[1] 2 2
[1] FALSE
D71V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  17P LOSS MUTATED             7                             5                2
  17P LOSS WILD-TYPE         187                            25              127
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  17P LOSS MUTATED                   5                   1
  17P LOSS WILD-TYPE               184                  17
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  17P LOSS MUTATED                                58
  17P LOSS WILD-TYPE                             467
D71V7, multiclass
                                 clus
vv                                17P LOSS MUTATED 17P LOSS WILD-TYPE
  ASTROCYTOMA                                    7                187
  GLIOBLASTOMA MULTIFORME (GBM)                  5                 25
  OLIGOASTROCYTOMA                               2                127
  OLIGODENDROGLIOMA                              5                184
  TREATED PRIMARY GBM                            1                 17
  UNTREATED PRIMARY (DE NOVO) GBM               58                467
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  17P LOSS MUTATED                                  0     1
  17P LOSS WILD-TYPE                                1    20
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  17P LOSS MUTATED                           5    72
  17P LOSS WILD-TYPE                        66   887
D71V8, multiclass
                                  clus
vv                                 17P LOSS MUTATED 17P LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           1                 20
  BLACK OR AFRICAN AMERICAN                       5                 66
  WHITE                                          72                887
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D71V9, binary
                    cls
clus                   0   1
  17P LOSS MUTATED     4  65
  17P LOSS WILD-TYPE  40 856
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17P LOSS MUTATED      4   65
  17P LOSS WILD-TYPE   40  856
                        clus
vv                       17P LOSS MUTATED 17P LOSS WILD-TYPE
  HISPANIC OR LATINO                    4                 40
  NOT HISPANIC OR LATINO               65                856
[1] 2 2
[1] FALSE

Clustering(72) Variable = 17Q LOSS MUTATION ANALYSIS
D72V1, survival
                    sevent
clus2                  0   1
  17Q LOSS MUTATED    13  38
  17Q LOSS WILD-TYPE 467 560
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                51               1027 
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                38                560 
$`17Q LOSS MUTATED`
TCGA-06-5408 TCGA-12-3653 TCGA-14-1453 TCGA-19-2623 TCGA-19-4065 TCGA-28-2509 
       11.74        14.53         1.15         7.53         7.04         4.77 
TCGA-32-2491 TCGA-41-3392 TCGA-41-5651 TCGA-76-4934 TCGA-76-6285 TCGA-DU-6400 
       12.23         0.99        15.12         2.53         8.35         1.22 
TCGA-DU-8165 TCGA-FG-A4MY TCGA-HT-7689 TCGA-HT-8106 TCGA-HT-8564 TCGA-P5-A5EZ 
       19.13        23.70        14.96         0.10        15.72         2.30 
TCGA-P5-A5F6 TCGA-S9-A6WM TCGA-02-0001 TCGA-02-0033 TCGA-02-0051 TCGA-02-0055 
        1.28        19.86        11.77         2.83        15.09         2.50 
TCGA-02-0059 TCGA-02-0079 TCGA-02-0106 TCGA-02-0113 TCGA-02-0258 TCGA-02-0269 
        9.57        27.25        11.67        92.65        16.54        10.75 
TCGA-06-0130 TCGA-06-0147 TCGA-06-0149 TCGA-06-0152 TCGA-06-0159 TCGA-06-0177 
       12.95        17.79         8.61        12.33         9.44         4.18 
TCGA-06-0184 TCGA-06-0187 TCGA-06-0189 TCGA-06-0190 TCGA-06-0197 TCGA-06-0644 
       69.90        27.22        15.42        10.42         5.56        12.62 
TCGA-08-0353 TCGA-08-0386 TCGA-12-0772 TCGA-12-0826 TCGA-12-1098 TCGA-14-0871 
        8.42        18.02        53.85        27.78         3.98        28.93 
TCGA-15-1447 TCGA-76-6283 TCGA-76-6660 
       53.19         5.42         3.75 

$`17Q LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K 
       42.05        62.01        17.16        23.90        20.09        17.82 
TCGA-FG-A713 TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M 
       20.45        18.64        21.40        45.60        42.77        59.38 
TCGA-06-1806 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 
       15.32         3.55         8.35         4.54         8.81         8.98 
TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 
        8.55         6.71         2.73         3.75         6.15         4.57 
TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 
        5.23         8.32        12.85         4.77         1.55         4.77 
TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK 
        4.96        26.79         1.87         3.12         2.56        14.60 
TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 
       17.72        15.35        21.73        15.65        25.68        14.73 
TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 
        6.77        59.77        44.02        26.93        15.22        10.95 
TCGA-12-3651 TCGA-12-3652 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 
       12.69        34.92        14.93         3.22         2.04        15.12 
TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 
       11.97         0.95         6.21        23.05        13.78         3.25 
TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 
        2.89        16.50        26.33        15.95         1.38         1.12 
TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1454 
        3.75        32.05        58.78        23.11         7.10        30.18 
TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 
        0.92        40.96         6.67        12.43         0.99         1.97 
TCGA-14-1821 TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 
       17.79        17.85         7.63         5.88         7.17        17.49 
TCGA-14-2555 TCGA-14-3477 TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 
        7.96         3.78         3.42        17.59        29.03         4.57 
TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 
       10.29        14.01         9.14        21.24        13.97         6.41 
TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 TCGA-19-1392 TCGA-19-1786 
        8.61        14.27         3.39        25.38         3.65         7.17 
TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 
       12.66         3.25         0.13         9.67         4.87         1.08 
TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 TCGA-19-5947 TCGA-19-5950 
        0.16         4.08        24.23         7.00         6.64        17.19 
TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 
        8.02        18.90         4.73        12.10         1.78        22.49 
TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 
       14.07        16.80        14.96        17.79        28.54        10.03 
TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 
       13.87         9.73         7.13         9.37         9.40         8.88 
TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 
       18.97        19.33         5.06        16.60         9.86        24.23 
TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 
       40.54        21.30        30.05        14.04        11.51        24.76 
TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 
       18.08        16.77        16.08         7.59         2.86        14.40 
TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 
       15.78         0.20         2.53         9.21         8.35         7.63 
TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 
        8.48         1.22         1.55         2.83         0.13         0.66 
TCGA-28-2506 TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 
        6.74        15.39        21.07         0.49         0.10        15.85 
TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 
       19.50         1.18         4.67        12.69        14.86        16.93 
TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 
       20.78        15.02        15.95         8.84        22.78        25.18 
TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 
       21.14         3.72        12.59        19.86        10.85        19.23 
TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3393 TCGA-41-3915 
        0.85        13.35         8.94         9.53         4.44        11.84 
TCGA-41-4097 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 
        0.20        12.46         4.08         1.45        25.58         3.45 
TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 
       20.91         4.34        14.33         8.22         7.50         4.80 
TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4935 TCGA-76-6191 
        4.54         3.09         3.65         9.17        36.85        16.70 
TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 
        3.29         2.70        17.06        20.98         4.83         5.03 
TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA 
       23.90        34.45        18.64        36.20         5.92         6.28 
TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 
       20.55       117.50         7.69        43.89        36.36        60.10 
TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.26        21.01        53.62         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 
       26.76        37.38        46.95        48.30        49.94        49.12 
TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 
      122.73        81.96        75.25        47.93        72.92        50.86 
TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA 
       91.13        44.52        36.56        78.28        46.42        18.84 
TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH 
       30.21        39.78        37.45        33.57        72.95        31.63 
TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S 
       24.20        25.48        30.12         5.98        31.40        27.45 
TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L 
       27.81        29.23        14.40        18.51        12.10        11.24 
TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 
       17.88        30.74        16.18        19.96        63.88        46.06 
TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR 
       24.59        30.21        27.81        17.19        17.19        54.25 
TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 
       23.21        17.46        13.71        18.61        18.02        14.56 
TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 
       17.46         6.74        13.38         8.45         6.81       182.33 
TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 
       18.94        17.49        15.16       211.17        52.11        22.42 
TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6401 TCGA-DU-6402 
       49.02        75.16        46.06        65.75        87.45         7.04 
TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 
       11.64       133.74        19.89        16.83        94.52       114.08 
TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 
        7.96         2.40        11.47        62.96       156.23       154.36 
TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 
       14.99       105.21         6.54         8.84       117.40        90.77 
TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 
       30.67        26.30        10.36         7.96        94.32        18.94 
TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 
       44.02        25.91        60.30        23.31        41.98         2.76 
TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8166 
        5.10        23.74        14.60        20.68        21.40        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT 
       15.48        14.17        33.27        29.85        31.69        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 
       20.98        22.29        11.41        26.76        21.30        17.98 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
      139.04        84.33        51.52        37.38         7.50        44.42 
TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 
       38.89         0.56        50.14        67.46        41.13        79.99 
TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD 
       57.93       134.27        78.21        95.57       130.78        14.30 
TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL 
       29.13        93.21         3.65        19.46        12.43        16.18 
TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV 
       21.30        75.02        51.88        15.32         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       36.82       146.14        13.08        73.48       145.05        32.35 
TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 
       39.48         0.23         0.20        47.77        25.48        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 
       15.35        17.88        22.55        20.61        20.09        28.34 
TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 
       13.68        14.24        16.01        14.96        22.52        32.61 
TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A60J TCGA-FG-A60L 
       38.27        10.72        18.38        18.71        14.76        21.53 
TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 
       15.02        16.44        22.26        28.54        10.78        36.66 
TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 
       48.69         5.72        27.52         0.10         6.67        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 
        6.54        24.26         6.38        40.34        75.19        95.93 
TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 
      106.95       172.77         4.01         5.03        29.85        23.18 
TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 
      122.47         4.57        17.29         3.16        22.06        45.99 
TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 
       56.09        57.60         0.23        14.27         0.16        16.24 
TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 
        0.76        44.68         6.05        42.74         0.10        31.69 
TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
        0.10         0.10         2.96        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 
       39.48        19.23        39.09         0.23        50.63         0.49 
TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 
       23.61        37.15         0.33         0.13         3.68         5.33 
TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 
       35.47         3.72        11.28        31.43         1.64        16.24 
TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 
        9.40        63.55         0.10        37.87        33.01        12.23 
TCGA-HT-8105 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 
        6.25         0.46         2.50         5.56        13.78         0.23 
TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 
       29.59        34.19        28.27         0.23        26.04         0.13 
TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 
       20.22         0.07        27.35         0.10         5.33         2.70 
TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C 
       16.93         1.81        16.14        16.83        17.52        17.65 
TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
        2.43        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 
       45.44        41.49        68.32        69.27        35.44        39.75 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL 
       40.01        42.54        24.92        31.63        12.76        28.87 
TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW 
       20.71        19.00        14.40        14.40         0.23         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 
        7.99         2.37         9.44         5.88         7.96         7.59 
TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 
        0.23        10.42        13.25        11.64        10.95         9.01 
TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X 
       13.61         9.60         7.56        12.23        19.20         3.45 
TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X 
        2.37         4.41        15.16         2.53        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX 
       14.04        19.33        14.83        14.53        13.61        12.23 
TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
       13.41         9.17        10.29        14.53        16.34        16.73 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
        1.91        16.50        16.70        11.08        12.99        88.83 
TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 
       94.03        32.65        30.87         5.46         9.90        28.08 
TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV 
        2.07        19.59        30.67        62.17        87.12        18.77 
TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 
       41.10        40.93        35.38        36.82        24.39        25.81 
TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA 
       29.85        32.61        35.15        98.24        95.93         5.85 
TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI 
      123.65        75.25       135.22        85.55        38.56        84.99 
TCGA-S9-A6WL TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ 
       31.10        26.47        18.61        18.64        14.07        36.13 
TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 
        7.92        26.93        23.51        19.99        20.02         8.19 
TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ 
        2.04        20.68        15.06        18.54        28.37        27.16 
TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 
      169.84        10.39        99.06        30.05        98.63        31.59 
TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA 
       18.71        20.48        54.77        48.33        49.32        34.78 
TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H 
       65.39        24.92        16.18        59.05        40.64        30.44 
TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q 
       28.08        24.16        40.83        24.79        33.24        25.38 
TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH 
       18.61        14.93        23.80        21.37        19.69        15.98 
TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO 
        2.04        40.41        44.09        36.69        33.73        31.20 
TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW 
       30.05        26.14        25.87        33.93        61.41        26.99 
TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD 
       31.36        45.93        43.20        13.51         0.10         7.89 
TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS 
       39.16        20.02        23.47        37.05        16.01        23.21 
TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A 
        8.05        51.06        13.32        43.96        39.88        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 TCGA-02-0003 
       45.80        46.88        37.71        20.81         7.63         4.73 
TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 
       18.35        23.18        10.59        35.41        20.71        82.59 
TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 
       20.61        87.06        77.65        20.12        53.10        42.74 
TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 
       24.59        12.16        90.58        14.14         3.62        10.72 
TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 TCGA-02-0052 
       10.52        18.31         6.87        14.73         3.22        12.59 
TCGA-02-0054 TCGA-02-0057 TCGA-02-0058 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 
        6.54        19.86         8.35         6.02        19.73        26.43 
TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 TCGA-02-0080 
       28.70        25.05         5.49        10.19        20.84        89.72 
TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 
       22.72        12.62        51.32         8.81        57.76        16.96 
TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0107 TCGA-02-0111 TCGA-02-0114 
        3.48        27.02        65.00        17.65        23.18        99.98 
TCGA-02-0115 TCGA-02-0116 TCGA-02-0260 TCGA-02-0266 TCGA-02-0271 TCGA-02-0281 
       15.65        48.95        16.93        17.72        14.47         3.98 
TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 
       13.87        14.20        15.95        12.23         9.90         7.73 
TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 
       10.62         7.33        15.91        25.71         4.37        25.12 
TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 
       10.59        12.39        14.50        10.55        47.11        11.34 
TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 
        9.27        16.21         3.35        16.80        12.92        15.32 
TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 
       15.45        20.32         2.70         6.15        20.38        47.61 
TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 TCGA-06-0132 TCGA-06-0133 
        6.94         3.98        22.72        33.67        25.35        14.30 
TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 
       26.70        24.23        11.90         0.20        10.29         2.20 
TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0148 TCGA-06-0150 TCGA-06-0151 
       11.74         2.33        20.09        10.09        19.46        46.59 
TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0160 TCGA-06-0162 
       13.94        10.45         3.19        10.82        11.80         3.42 
TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 
       56.91        10.65         5.85        19.66         3.29        13.12 
TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0178 TCGA-06-0179 
        4.47         3.22         4.04        91.00        88.14        20.25 
TCGA-06-0182 TCGA-06-0185 TCGA-06-0188 TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 
        3.65        73.84        44.58        38.96         4.67         7.40 
TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 
        0.39         7.66         8.42         7.40        11.84         0.53 
TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 TCGA-06-0238 
       15.02        24.16         0.72        19.82        13.64        13.32 
TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 
       20.42        48.69        10.82         9.01         0.26        72.36 
TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 TCGA-06-0414 TCGA-06-0645 TCGA-06-0646 
        4.70         9.57         3.16        35.11         5.75         5.75 
TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 
        9.80         2.10        23.57        14.20        26.40        46.88 
TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 
        7.86         2.70         2.70         0.92        43.46        46.19 
TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 
        7.17        40.41        16.57        20.78        26.76        23.93 
TCGA-06-1086 TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 
        6.84         4.04        26.79        11.84        15.32        13.61 
TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 
       33.90         1.08        12.49         4.93        17.65        12.56 
TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 
       30.64         5.95        16.64         5.98         4.37         0.43 
TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 
       31.50         7.79         5.39       120.56         7.36        22.68 
TCGA-08-0245 TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 
       37.84         4.18       115.86         1.74         8.42        25.71 
TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 TCGA-08-0354 
       12.16         9.80        29.23        65.33         1.28        17.95 
TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 
       24.56        31.10        37.58        22.29         3.39        12.23 
TCGA-08-0380 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 TCGA-08-0510 
       14.93        15.35        13.97         0.72        12.56         4.27 
TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 
       42.15        11.08        19.59        58.68        19.33        10.75 
TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 
        4.80         7.27        15.98        18.41         7.56        14.73 
TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 
       12.99        34.92        10.45         7.59        94.78         0.10 
TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 
       38.17        25.97        26.66        12.13         3.65        20.38 
TCGA-12-0707 TCGA-12-0769 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 
       28.41        15.06        43.23         7.63         9.73        14.93 
TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 
       14.86        91.76        24.79        18.48        10.62        23.51 
TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 
       38.76         8.94        20.58       127.59         5.82         7.59 
TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 
       33.21        15.98        12.23        15.85         9.11        14.53 
TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 TCGA-14-0867 
        4.14         2.24        11.24         1.35         5.39         2.04 
TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 TCGA-15-1449 
       19.30         0.79        13.78        50.53        19.10        13.28 
TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 
        3.91        26.07        16.37        11.77        21.90         0.66 
TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1388 TCGA-19-1389 TCGA-26-1442 
       10.75         9.07         5.95        12.95         4.64        31.33 
TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 
       14.86         5.49         1.58         7.92         2.33         7.30 
TCGA-28-2514 TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 
        5.26        14.93        11.28        17.88        14.53        11.77 
TCGA-28-5213 TCGA-28-5214 TCGA-28-5215 TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 
       31.27        23.44        11.01        13.64         5.16        22.68 
TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-81-5910 TCGA-81-5911 
       12.76         5.42         7.36        11.38         1.61        17.72 
TCGA-87-5896 
       26.30 

  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
              0.10               0.03 
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
             92.65             211.17 
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
             11.74              16.34 
[1] "0.1 - 92.7 (11.7)"  "0.0 - 211.2 (16.3)"
[1] "hr=" "2.1"
D72V2, continuous
D72V3, binary
                    cls
clus                   0   1
  17Q LOSS MUTATED    42   9
  17Q LOSS WILD-TYPE 531 503
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17Q LOSS MUTATED     42    9
  17Q LOSS WILD-TYPE  531  503
                        clus
vv                       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  BRAIN                                42                531
  CENTRAL NERVOUS SYSTEM                9                503
[1] 2 2
[1] FALSE
D72V4, binary
                    cls
clus                   0   1
  17Q LOSS MUTATED    24  27
  17Q LOSS WILD-TYPE 429 605
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17Q LOSS MUTATED     24   27
  17Q LOSS WILD-TYPE  429  605
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  FEMALE               24                429
  MALE                 27                605
[1] 2 2
[1] FALSE
D72V5, binary
                    cls
clus                   0   1
  17Q LOSS MUTATED     9  38
  17Q LOSS WILD-TYPE 249 732
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17Q LOSS MUTATED      9   38
  17Q LOSS WILD-TYPE  249  732
     clus
vv    17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  NO                 9                249
  YES               38                732
[1] 2 2
[1] FALSE
D72V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  17Q LOSS MUTATED             4                             3                1
  17Q LOSS WILD-TYPE         190                            27              128
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  17Q LOSS MUTATED                   4                   1
  17Q LOSS WILD-TYPE               185                  17
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  17Q LOSS MUTATED                                38
  17Q LOSS WILD-TYPE                             487
D72V7, multiclass
                                 clus
vv                                17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  ASTROCYTOMA                                    4                190
  GLIOBLASTOMA MULTIFORME (GBM)                  3                 27
  OLIGOASTROCYTOMA                               1                128
  OLIGODENDROGLIOMA                              4                185
  TREATED PRIMARY GBM                            1                 17
  UNTREATED PRIMARY (DE NOVO) GBM               38                487
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  17Q LOSS MUTATED                                  0     0
  17Q LOSS WILD-TYPE                                1    21
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  17Q LOSS MUTATED                           2    49
  17Q LOSS WILD-TYPE                        69   910
D72V8, multiclass
                                  clus
vv                                 17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           0                 21
  BLACK OR AFRICAN AMERICAN                       2                 69
  WHITE                                          49                910
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D72V9, binary
                    cls
clus                   0   1
  17Q LOSS MUTATED     3  42
  17Q LOSS WILD-TYPE  41 879
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  17Q LOSS MUTATED      3   42
  17Q LOSS WILD-TYPE   41  879
                        clus
vv                       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  HISPANIC OR LATINO                    3                 41
  NOT HISPANIC OR LATINO               42                879
[1] 2 2
[1] FALSE

Clustering(73) Variable = 18P LOSS MUTATION ANALYSIS
D73V1, survival
                    sevent
clus2                  0   1
  18P LOSS MUTATED    66  71
  18P LOSS WILD-TYPE 414 527
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
               137                941 
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
                71                527 
$`18P LOSS MUTATED`
TCGA-DH-A66B TCGA-DU-7300 TCGA-06-1806 TCGA-06-5408 TCGA-06-5859 TCGA-06-6695 
       42.05        62.01        15.32        11.74         4.57         8.32 
TCGA-06-A5U0 TCGA-14-0812 TCGA-14-1453 TCGA-14-4157 TCGA-19-1390 TCGA-19-4065 
       26.79         3.25         1.15         3.42        25.38         7.04 
TCGA-19-5960 TCGA-26-1438 TCGA-26-1439 TCGA-27-1830 TCGA-27-1834 TCGA-27-1838 
       14.96        10.03        13.87         5.06        40.54        11.51 
TCGA-28-1750 TCGA-32-1976 TCGA-32-2491 TCGA-32-2634 TCGA-32-4210 TCGA-41-3392 
        8.35         0.49        12.23        22.78         3.72         0.99 
TCGA-4W-AA9R TCGA-4W-AA9S TCGA-74-6575 TCGA-76-4925 TCGA-76-4929 TCGA-76-6191 
        4.08         1.45        20.91         4.80         3.65        16.70 
TCGA-76-6285 TCGA-76-6286 TCGA-CS-5396 TCGA-DB-5275 TCGA-DB-5279 TCGA-DB-A4XD 
        8.35        20.98        53.62        47.93        44.52        39.78 
TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-A669 
       72.95        31.63        24.20        19.96        63.88        30.21 
TCGA-DU-6393 TCGA-DU-6407 TCGA-DU-7009 TCGA-DU-7014 TCGA-DU-8158 TCGA-DU-A5TR 
       52.11        94.52       154.36       117.40         5.10        29.85 
TCGA-DU-A5TT TCGA-DU-A7T6 TCGA-E1-5307 TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YS 
       24.43        17.98        57.93        16.18        21.30        15.32 
TCGA-FG-8188 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7480 TCGA-HT-7609 TCGA-HT-7616 
       14.96         6.54        24.26        75.19        45.99         0.23 
TCGA-HT-7688 TCGA-HT-7692 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-8564 TCGA-HT-A5RB 
       31.69         2.96         0.23        50.63        15.72         0.10 
TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A74L TCGA-HW-7491 TCGA-HW-8320 TCGA-HW-A5KK 
        1.81        16.14        11.05        68.32        40.01        12.76 
TCGA-P5-A5EX TCGA-P5-A5EZ TCGA-P5-A72Z TCGA-P5-A780 TCGA-QH-A65R TCGA-QH-A65Z 
        7.99         2.30        11.64         2.37        15.16        14.04 
TCGA-RY-A840 TCGA-S9-A6TS TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6UA TCGA-S9-A6WD 
       28.08        62.17        41.10        40.93         5.85        75.25 
TCGA-S9-A6WH TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WP TCGA-S9-A7QY 
       38.56        31.10        19.86        26.47        18.64        28.37 
TCGA-S9-A7R2 TCGA-S9-A89V TCGA-TM-A84G TCGA-TM-A84I TCGA-TQ-A7RF TCGA-VM-A8CA 
       10.39        18.71        40.64        28.08        21.37        13.51 
TCGA-02-0006 TCGA-02-0010 TCGA-02-0011 TCGA-02-0034 TCGA-02-0075 TCGA-02-0079 
       18.35        35.41        20.71        14.14        20.84        27.25 
TCGA-02-0106 TCGA-02-0111 TCGA-02-0113 TCGA-02-0324 TCGA-02-2470 TCGA-06-0129 
       11.67        23.18        92.65         7.73        12.92        33.67 
TCGA-06-0151 TCGA-06-0171 TCGA-06-0173 TCGA-06-0206 TCGA-06-0213 TCGA-06-0237 
       46.59        13.12         4.47         7.66         0.53        13.64 
TCGA-06-0648 TCGA-06-0649 TCGA-06-0876 TCGA-06-1086 TCGA-06-1800 TCGA-06-6694 
        9.80         2.10        46.19         6.84        26.79         7.36 
TCGA-08-0245 TCGA-08-0350 TCGA-08-0510 TCGA-08-0525 TCGA-12-0776 TCGA-12-0826 
       37.84        29.23         4.27        15.98         9.73        27.78 
TCGA-12-1088 TCGA-12-1096 TCGA-14-0817 TCGA-16-0846 TCGA-16-0850 TCGA-26-5133 
      127.59         9.11         5.39         3.91        16.37        14.86 
TCGA-28-2514 TCGA-28-5207 TCGA-28-5213 TCGA-28-5216 TCGA-81-5911 
        5.26        11.28        31.27        13.64        17.72 

$`18P LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 TCGA-FG-A87N 
       17.16        23.90        20.09        17.82        20.45        18.64 
TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-5410 TCGA-06-5411 
       21.40        45.60        42.77        59.38         3.55         8.35 
TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 
        4.54         8.81         8.98         8.55         6.71         2.73 
TCGA-06-5856 TCGA-06-5858 TCGA-06-6388 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 
        3.75         6.15         5.23        12.85         4.77         1.55 
TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK 
        4.77         4.96         1.87         3.12         2.56        14.60 
TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 
       17.72        15.35        21.73        15.65        25.68        14.73 
TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 
        6.77        59.77        44.02        26.93        15.22        10.95 
TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 
       12.69        34.92        14.53        14.93         3.22         2.04 
TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 
       15.12        11.97         0.95         6.21        23.05        13.78 
TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 
        2.89        16.50        26.33        15.95         1.38         1.12 
TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1454 
        3.75        32.05        58.78        23.11         7.10        30.18 
TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 
        0.92        40.96         6.67        12.43         0.99         1.97 
TCGA-14-1821 TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 
       17.79        17.85         7.63         5.88         7.17        17.49 
TCGA-14-2555 TCGA-14-3477 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 
        7.96         3.78        17.59        29.03         4.57        10.29 
TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 
       14.01         9.14        21.24        13.97         6.41         8.61 
TCGA-19-0963 TCGA-19-0964 TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 
       14.27         3.39         3.65         7.17        12.66         3.25 
TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 
        0.13         9.67         4.87         1.08         7.53         0.16 
TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 
        4.08        24.23         7.00         6.64        17.19         8.02 
TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 
       18.90         4.73        12.10         1.78        22.49        14.07 
TCGA-19-5959 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 
       16.80        17.79        28.54         9.73         7.13         9.37 
TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX TCGA-27-1831 TCGA-27-1832 
        9.40         8.88        18.97        19.33        16.60         9.86 
TCGA-27-1833 TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-2518 TCGA-27-2519 
       24.23        21.30        30.05        14.04        24.76        18.08 
TCGA-27-2521 TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 
       16.77        16.08         7.59         2.86        14.40        15.78 
TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 
        0.20         2.53         9.21         7.63         8.48         1.22 
TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 
        1.55         2.83         0.13         0.66         6.74         4.77 
TCGA-32-1970 TCGA-32-1973 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 
       15.39        21.07         0.10        15.85        19.50         1.18 
TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2494 TCGA-32-2495 
        4.67        12.69        14.86        16.93        20.78        15.02 
TCGA-32-2615 TCGA-32-2632 TCGA-32-2638 TCGA-32-4208 TCGA-32-4211 TCGA-32-4213 
       15.95         8.84        25.18        21.14        12.59        19.86 
TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 
       10.85        19.23         0.85        13.35         8.94         9.53 
TCGA-41-3393 TCGA-41-3915 TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9T 
        4.44        11.84         0.20        15.12        12.46        25.58 
TCGA-74-6573 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4926 
        3.45         4.34        14.33         8.22         7.50         4.54 
TCGA-76-4928 TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 TCGA-76-6192 TCGA-76-6193 
        3.09         9.17         2.53        36.85         3.29         2.70 
TCGA-76-6282 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 
       17.06         4.83         5.03        23.90        34.45        18.64 
TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 
       36.20         5.92         6.28        20.55       117.50         7.69 
TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 
       43.89        36.36        60.10        40.18         0.26        21.01 
TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 
        6.38        17.69        26.76        37.38        46.95        48.30 
TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5276 
       49.94        49.12       122.73        81.96        75.25        72.92 
TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA 
       50.86        91.13        36.56        78.28        46.42        18.84 
TCGA-DB-A4XB TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       30.21        37.45        33.57        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X 
       31.40        27.45        27.81        29.23        14.40        18.51 
TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5143 
       12.10        11.24        17.88        30.74        16.18        46.06 
TCGA-DH-5144 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       24.59        27.81        17.19        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 
       17.46        13.71        18.61        18.02        14.56        17.46 
TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 
        6.74        13.38         8.45         6.81       182.33        18.94 
TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       17.49        15.16       211.17        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 
      133.74        19.89        16.83       114.08         7.96         2.40 
TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 
       11.47        62.96       156.23        14.99       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 
        8.84        90.77        30.67        26.30        10.36         7.96 
TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 
       94.32        18.94        44.02        25.91        60.30        23.31 
TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 
       41.98         2.76        23.74        14.60        20.68        21.40 
TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TS 
       19.13        16.96        15.48        14.17        33.27        31.69 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T8 
       20.98        22.29        11.41        26.76        21.30       139.04 
TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI 
       84.33        51.52        37.38         7.50        44.42        38.89 
TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5311 
        0.56        50.14        67.46        41.13        79.99       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH 
       78.21        95.57       130.78        14.30        29.13        93.21 
TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YU 
        3.65        19.46        12.43        75.02        51.88         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       18.44        15.35        17.88        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8189 TCGA-FG-8191 
       28.34        13.68        14.24        16.01        22.52        32.61 
TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J 
       38.27        10.72        18.38        18.71        23.70        14.76 
TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z 
       21.53        15.02        16.44        22.26        28.54        10.78 
TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 
       36.66        48.69         5.72        27.52         0.10         6.67 
TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
       11.54        40.11         0.13         0.03        16.54         3.75 
TCGA-HT-7475 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 
       17.42         6.38        40.34        95.93       106.95       172.77 
TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 
        4.01         5.03        29.85        23.18       122.47         4.57 
TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7620 
       17.29         3.16        22.06        56.09        57.60        14.27 
TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 
        0.16        16.24         0.76        44.68         6.05        42.74 
TCGA-HT-7687 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7693 TCGA-HT-7694 
        0.10        14.96         0.10         0.10        17.52         6.90 
TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7860 TCGA-HT-7873 
       14.53        39.48        19.23        39.09         0.49        23.61 
TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
       37.15         0.33         0.13         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 
        3.72        11.28        31.43         1.64        16.24         9.40 
TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 
       63.55         0.10        37.87        33.01        12.23         6.25 
TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 
        0.10         0.46         2.50         5.56        13.78         0.23 
TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 
       29.59        34.19        28.27         0.23        26.04         0.13 
TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 
       20.22         0.07        27.35         5.33         2.70        16.93 
TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K 
       16.83        17.52        17.65         2.43        10.52        15.35 
TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7493 TCGA-HW-7495 
        0.10        56.58        45.44        41.49        69.27        35.44 
TCGA-HW-8319 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KL TCGA-HW-A5KM 
       39.75        42.54        24.92        31.63        28.87        20.71 
TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EY 
       19.00        14.40        14.40         0.23         6.71         2.37 
TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U 
        9.44         5.88         7.96         7.59         1.28         0.23 
TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 
       10.42        13.25        10.95         9.01        13.61         9.60 
TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A781 TCGA-QH-A65S 
        7.56        12.23        19.20         3.45         4.41         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW 
       12.62        15.85        19.33        14.83        14.53        13.61 
TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 
       12.23        13.41         9.17        10.29        14.53        16.34 
TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 
       16.73         1.91        16.50        16.70        11.08        12.99 
TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z 
       88.83        94.03        32.65        30.87         5.46         9.90 
TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TY 
        2.07        19.59        30.67        87.12        18.77        35.38 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 
       36.82        24.39        25.81        29.85        32.61        35.15 
TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UB TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WI 
       98.24        95.93       123.65       135.22        85.55        84.99 
TCGA-S9-A6WO TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.61        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 
       18.54        27.16       169.84        99.06        30.05        98.63 
TCGA-S9-A7R8 TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA 
       31.59        20.48        54.77        48.33        49.32        34.78 
TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84H TCGA-TM-A84J 
       65.39        24.92        16.18        59.05        30.44        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       23.80        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       36.69        33.73        31.20        30.05        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 
       33.93        61.41        26.99        31.36        45.93        43.20 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 
        0.10         7.89        39.16        20.02        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       16.01        23.21         8.05        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 
TCGA-06-0209 TCGA-02-0001 TCGA-02-0003 TCGA-02-0007 TCGA-02-0009 TCGA-02-0014 
        7.63        11.77         4.73        23.18        10.59        82.59 
TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 
       20.61        87.06        77.65        20.12        53.10        42.74 
TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 TCGA-02-0037 TCGA-02-0038 
       24.59        12.16        90.58         2.83         3.62        10.72 
TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 TCGA-02-0051 
       10.52        18.31         6.87        14.73         3.22        15.09 
TCGA-02-0052 TCGA-02-0054 TCGA-02-0055 TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 
       12.59         6.54         2.50        19.86         8.35         9.57 
TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 
        6.02        19.73        26.43        28.70        25.05         5.49 
TCGA-02-0074 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 
       10.19        89.72        22.72        12.62        51.32         8.81 
TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0107 
       57.76        16.96         3.48        27.02        65.00        17.65 
TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 
       99.98        15.65        48.95        16.54        16.93        17.72 
TCGA-02-0269 TCGA-02-0271 TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 
       10.75        14.47         3.98        13.87        14.20        15.95 
TCGA-02-0317 TCGA-02-0321 TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 
       12.23         9.90        10.62         7.33        15.91        25.71 
TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 
        4.37        25.12        10.59        12.39        14.50        10.55 
TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 
       47.11        11.34         9.27        16.21         3.35        16.80 
TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 
       15.32        15.45        20.32         2.70         6.15        20.38 
TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0130 TCGA-06-0132 
       47.61         6.94         3.98        22.72        12.95        25.35 
TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 
       14.30        26.70        24.23        11.90         0.20        10.29 
TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 
        2.20        11.74         2.33        20.09        17.79        10.09 
TCGA-06-0149 TCGA-06-0150 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 
        8.61        19.46        12.33        13.94        10.45         3.19 
TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 
       10.82         9.44        11.80         3.42        56.91        10.65 
TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 
        5.85        19.66         3.29         3.22         4.04        91.00 
TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 
        4.18        88.14        20.25         3.65        69.90        73.84 
TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 
       27.22        44.58        15.42        10.42        38.96         4.67 
TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 
        7.40         5.56         0.39         8.42         7.40        11.84 
TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 TCGA-06-0238 TCGA-06-0240 
       15.02        24.16         0.72        19.82        13.32        20.42 
TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 TCGA-06-0410 
       48.69        10.82         9.01         0.26        72.36         4.70 
TCGA-06-0412 TCGA-06-0413 TCGA-06-0414 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 
        9.57         3.16        35.11        12.62         5.75         5.75 
TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 
       23.57        14.20        26.40        46.88         7.86         2.70 
TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 
        2.70         0.92        43.46         7.17        40.41        16.57 
TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1087 TCGA-06-1801 TCGA-06-1802 
       20.78        26.76        23.93         4.04        11.84        15.32 
TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 
       13.61        33.90         1.08        12.49         4.93        17.65 
TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 
       12.56        30.64         5.95        16.64         5.98         4.37 
TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 TCGA-08-0244 
        0.43        31.50         7.79         5.39       120.56        22.68 
TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 
        4.18       115.86         1.74         8.42        25.71        12.16 
TCGA-08-0349 TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 
        9.80        65.33         1.28         8.42        17.95        24.56 
TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 
       31.10        37.58        22.29         3.39        12.23        14.93 
TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 TCGA-08-0512 
       18.02        15.35        13.97         0.72        12.56        42.15 
TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 
       11.08        19.59        58.68        19.33        10.75         4.80 
TCGA-08-0524 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 
        7.27        18.41         7.56        14.73        12.99        34.92 
TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 
       10.45         7.59        94.78         0.10        38.17        25.97 
TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 
       26.66        12.13         3.65        20.38        28.41        15.06 
TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 
       53.85        43.23         7.63        14.93        14.86        91.76 
TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0827 TCGA-12-0828 
       24.79        18.48        10.62        23.51        38.76         8.94 
TCGA-12-0829 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 
       20.58         5.82         7.59        33.21        15.98        12.23 
TCGA-12-1095 TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 
       15.85        14.53         3.98         4.14         2.24        11.24 
TCGA-14-0813 TCGA-14-0867 TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 
        1.35         2.04        28.93        19.30         0.79        13.78 
TCGA-15-1444 TCGA-15-1446 TCGA-15-1447 TCGA-15-1449 TCGA-16-0849 TCGA-19-0955 
       50.53        19.10        53.19        13.28        26.07        11.77 
TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1388 
       21.90         0.66        10.75         9.07         5.95        12.95 
TCGA-19-1389 TCGA-26-1442 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 
        4.64        31.33         5.49         1.58         7.92         2.33 
TCGA-28-2513 TCGA-28-5204 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5214 
        7.30        14.93        17.88        14.53        11.77        23.44 
TCGA-28-5215 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 
       11.01         5.16        22.68        12.76         5.42         7.36 
TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-87-5896 
       11.38         5.42         3.75         1.61        26.30 

  18P LOSS MUTATED 18P LOSS WILD-TYPE 
              0.10               0.03 
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
            154.36             211.17 
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
             16.18              15.95 
[1] "0.1 - 154.4 (16.2)" "0.0 - 211.2 (15.9)"
[1] "hr=" "1.1"
D73V2, continuous
D73V3, binary
                    cls
clus                   0   1
  18P LOSS MUTATED    71  66
  18P LOSS WILD-TYPE 502 446
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18P LOSS MUTATED     71   66
  18P LOSS WILD-TYPE  502  446
                        clus
vv                       18P LOSS MUTATED 18P LOSS WILD-TYPE
  BRAIN                                71                502
  CENTRAL NERVOUS SYSTEM               66                446
[1] 2 2
[1] FALSE
D73V4, binary
                    cls
clus                   0   1
  18P LOSS MUTATED    49  88
  18P LOSS WILD-TYPE 404 544
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18P LOSS MUTATED     49   88
  18P LOSS WILD-TYPE  404  544
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  FEMALE               49                404
  MALE                 88                544
[1] 2 2
[1] FALSE
D73V5, binary
                    cls
clus                   0   1
  18P LOSS MUTATED    35  93
  18P LOSS WILD-TYPE 223 677
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18P LOSS MUTATED     35   93
  18P LOSS WILD-TYPE  223  677
     clus
vv    18P LOSS MUTATED 18P LOSS WILD-TYPE
  NO                35                223
  YES               93                677
[1] 2 2
[1] FALSE
D73V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  18P LOSS MUTATED            26                             5               11
  18P LOSS WILD-TYPE         168                            25              118
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  18P LOSS MUTATED                  29                   3
  18P LOSS WILD-TYPE               160                  15
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  18P LOSS MUTATED                                63
  18P LOSS WILD-TYPE                             462
D73V7, multiclass
                                 clus
vv                                18P LOSS MUTATED 18P LOSS WILD-TYPE
  ASTROCYTOMA                                   26                168
  GLIOBLASTOMA MULTIFORME (GBM)                  5                 25
  OLIGOASTROCYTOMA                              11                118
  OLIGODENDROGLIOMA                             29                160
  TREATED PRIMARY GBM                            3                 15
  UNTREATED PRIMARY (DE NOVO) GBM               63                462
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  18P LOSS MUTATED                                  1     3
  18P LOSS WILD-TYPE                                0    18
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  18P LOSS MUTATED                           9   118
  18P LOSS WILD-TYPE                        62   841
D73V8, multiclass
                                  clus
vv                                 18P LOSS MUTATED 18P LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                1                  0
  ASIAN                                           3                 18
  BLACK OR AFRICAN AMERICAN                       9                 62
  WHITE                                         118                841
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D73V9, binary
                    cls
clus                   0   1
  18P LOSS MUTATED     5 115
  18P LOSS WILD-TYPE  39 806
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18P LOSS MUTATED      5  115
  18P LOSS WILD-TYPE   39  806
                        clus
vv                       18P LOSS MUTATED 18P LOSS WILD-TYPE
  HISPANIC OR LATINO                    5                 39
  NOT HISPANIC OR LATINO              115                806
[1] 2 2
[1] FALSE

Clustering(74) Variable = 18Q LOSS MUTATION ANALYSIS
D74V1, survival
                    sevent
clus2                  0   1
  18Q LOSS MUTATED    60  63
  18Q LOSS WILD-TYPE 420 535
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
               123                955 
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
                63                535 
$`18Q LOSS MUTATED`
TCGA-DH-A66B TCGA-DU-7300 TCGA-06-1806 TCGA-06-5859 TCGA-06-A5U0 TCGA-14-0812 
       42.05        62.01        15.32         4.57        26.79         3.25 
TCGA-19-1390 TCGA-19-2619 TCGA-19-4065 TCGA-19-5960 TCGA-26-1438 TCGA-26-1439 
       25.38         9.67         7.04        14.96        10.03        13.87 
TCGA-27-1834 TCGA-27-1838 TCGA-28-1750 TCGA-32-1973 TCGA-32-1976 TCGA-32-1987 
       40.54        11.51         8.35        21.07         0.49        14.86 
TCGA-32-2491 TCGA-32-2634 TCGA-32-4210 TCGA-41-3392 TCGA-4W-AA9S TCGA-76-6285 
       12.23        22.78         3.72         0.99         1.45         8.35 
TCGA-76-6286 TCGA-CS-5396 TCGA-DB-5275 TCGA-DB-5279 TCGA-DB-A4XD TCGA-DB-A4XG 
       20.98        53.62        47.93        44.52        39.78        72.95 
TCGA-DB-A4XH TCGA-DB-A64L TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-A669 TCGA-DH-A7UT 
       31.63        24.20        19.96        63.88        30.21        17.46 
TCGA-DU-5849 TCGA-DU-5870 TCGA-DU-6393 TCGA-DU-6407 TCGA-DU-7009 TCGA-DU-7014 
       14.56       182.33        52.11        94.52       154.36       117.40 
TCGA-DU-8158 TCGA-DU-A5TT TCGA-DU-A7T6 TCGA-E1-5307 TCGA-E1-A7YM TCGA-E1-A7YS 
        5.10        24.43        17.98        57.93        21.30        15.32 
TCGA-FG-8188 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7480 TCGA-HT-7606 TCGA-HT-7609 
       14.96         6.54        24.26        75.19        17.29        45.99 
TCGA-HT-7616 TCGA-HT-7688 TCGA-HT-7692 TCGA-HT-7857 TCGA-HT-8564 TCGA-HT-A5RB 
        0.23        31.69         2.96         0.23        15.72         0.10 
TCGA-HT-A617 TCGA-HT-A74L TCGA-HW-7491 TCGA-HW-8320 TCGA-P5-A5EX TCGA-P5-A72Z 
       16.14        11.05        68.32        40.01         7.99        11.64 
TCGA-QH-A65R TCGA-QH-A65Z TCGA-RY-A840 TCGA-S9-A6TS TCGA-S9-A6TW TCGA-S9-A6TX 
       15.16        14.04        28.08        62.17        41.10        40.93 
TCGA-S9-A6WD TCGA-S9-A6WH TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WP 
       75.25        38.56        31.10        19.86        26.47        18.64 
TCGA-S9-A7QY TCGA-S9-A7R2 TCGA-TM-A84G TCGA-TM-A84I TCGA-TQ-A7RF TCGA-TQ-A7RI 
       28.37        10.39        40.64        28.08        21.37         2.04 
TCGA-VM-A8CA TCGA-02-0006 TCGA-02-0011 TCGA-02-0075 TCGA-02-0079 TCGA-02-0106 
       13.51        18.35        20.71        20.84        27.25        11.67 
TCGA-02-0111 TCGA-02-0113 TCGA-02-0324 TCGA-06-0129 TCGA-06-0151 TCGA-06-0173 
       23.18        92.65         7.73        33.67        46.59         4.47 
TCGA-06-0206 TCGA-06-0213 TCGA-06-0237 TCGA-06-0648 TCGA-06-0649 TCGA-06-0749 
        7.66         0.53        13.64         9.80         2.10         2.70 
TCGA-06-1086 TCGA-06-1800 TCGA-06-2559 TCGA-06-6694 TCGA-08-0245 TCGA-08-0359 
        6.84        26.79         4.93         7.36        37.84         3.39 
TCGA-08-0510 TCGA-08-0525 TCGA-12-0776 TCGA-12-0826 TCGA-12-1088 TCGA-12-1096 
        4.27        15.98         9.73        27.78       127.59         9.11 
TCGA-14-0817 TCGA-16-0846 TCGA-19-0962 TCGA-26-5133 TCGA-28-2514 TCGA-28-5207 
        5.39         3.91         0.66        14.86         5.26        11.28 
TCGA-28-5213 TCGA-28-5216 TCGA-81-5911 
       31.27        13.64        17.72 

$`18Q LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 TCGA-FG-A87N 
       17.16        23.90        20.09        17.82        20.45        18.64 
TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-5408 TCGA-06-5410 
       21.40        45.60        42.77        59.38        11.74         3.55 
TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 TCGA-06-5416 
        8.35         4.54         8.81         8.98         8.55         6.71 
TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 
        2.73         3.75         6.15         5.23         8.32        12.85 
TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U1 TCGA-06-A6S0 
        4.77         1.55         4.77         4.96         1.87         3.12 
TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 
        2.56        14.60        17.72        15.35        21.73        15.65 
TCGA-12-1599 TCGA-12-1600 TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 
       25.68        14.73         6.77        59.77        44.02        26.93 
TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 
       15.22        10.95        12.69        34.92        14.53        14.93 
TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 
        3.22         2.04        15.12        11.97         0.95         6.21 
TCGA-14-0786 TCGA-14-0790 TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 
       23.05        13.78         2.89        16.50        26.33        15.95 
TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 
        1.38         1.12         3.75        32.05        58.78        23.11 
TCGA-14-1452 TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 
        7.10         1.15        30.18         0.92        40.96         6.67 
TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 TCGA-14-1823 TCGA-14-1825 
       12.43         0.99         1.97        17.79        17.85         7.63 
TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-3477 TCGA-14-4157 
        5.88         7.17        17.49         7.96         3.78         3.42 
TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 
       17.59        29.03         4.57        10.29        14.01         9.14 
TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 
       21.24        13.97         6.41         8.61        14.27         3.39 
TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 TCGA-19-2620 
        3.65         7.17        12.66         3.25         0.13         4.87 
TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 
        1.08         7.53         0.16         4.08        24.23         7.00 
TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 
        6.64        17.19         8.02        18.90         4.73        12.10 
TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 TCGA-19-A60I TCGA-19-A6J5 
        1.78        22.49        14.07        16.80        17.79        28.54 
TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 
        9.73         7.13         9.37         9.40         8.88        18.97 
TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1835 
       19.33         5.06        16.60         9.86        24.23        21.30 
TCGA-27-1836 TCGA-27-1837 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 
       30.05        14.04        24.76        18.08        16.77        16.08 
TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 
        7.59         2.86        14.40        15.78         0.20         2.53 
TCGA-28-1749 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 
        9.21         7.63         8.48         1.22         1.55         2.83 
TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 TCGA-32-1970 TCGA-32-1977 
        0.13         0.66         6.74         4.77        15.39         0.10 
TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1991 
       15.85        19.50         1.18         4.67        12.69        16.93 
TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 TCGA-32-2632 TCGA-32-2638 TCGA-32-4208 
       20.78        15.02        15.95         8.84        25.18        21.14 
TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 
       12.59        19.86        10.85        19.23         0.85        13.35 
TCGA-41-2573 TCGA-41-2575 TCGA-41-3393 TCGA-41-3915 TCGA-41-4097 TCGA-41-5651 
        8.94         9.53         4.44        11.84         0.20        15.12 
TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 
       12.46         4.08        25.58         3.45        20.91         4.34 
TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 
       14.33         8.22         7.50         4.80         4.54         3.09 
TCGA-76-4929 TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 
        3.65         9.17         2.53        36.85        16.70         3.29 
TCGA-76-6193 TCGA-76-6282 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 
        2.70        17.06         4.83         5.03        23.90        34.45 
TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 
       18.64        36.20         5.92         6.28        20.55       117.50 
TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 
        7.69        43.89        36.36        60.10        40.18         0.26 
TCGA-CS-5395 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 
       21.01         6.38        17.69        26.76        37.38        46.95 
TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 
       48.30        49.94        49.12       122.73        81.96        75.25 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       72.92        50.86        91.13        36.56        78.28        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A64O TCGA-DB-A64P 
       18.84        30.21        37.45        33.57        25.48        30.12 
TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W 
        5.98        31.40        27.45        27.81        29.23        14.40 
TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR 
       46.06        24.59        27.81        17.19        17.19        54.25 
TCGA-DH-A7US TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5851 TCGA-DU-5852 
       23.21        13.71        18.61        18.02        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 
       13.38         8.45         6.81        18.94        17.49        15.16 
TCGA-DU-6392 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
      211.17        22.42        49.02        75.16        46.06        65.75 
TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
        1.22        87.45         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 
       16.83       114.08         7.96         2.40        11.47        62.96 
TCGA-DU-7008 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 
      156.23        14.99       105.21         6.54         8.84        90.77 
TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 
       30.67        26.30        10.36         7.96        94.32        18.94 
TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 
       44.02        25.91        60.30        23.31        41.98         2.76 
TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 
       23.74        14.60        20.68        21.40        19.13        16.96 
TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TU 
       15.48        14.17        33.27        29.85        31.69        26.17 
TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 
       24.99        33.96        25.55        21.57        95.11        20.98 
TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T8 TCGA-DU-A7TA 
       22.29        11.41        26.76        21.30       139.04        84.33 
TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ 
       51.52        37.38         7.50        44.42        38.89         0.56 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5311 TCGA-E1-5318 
       50.14        67.46        41.13        79.99       134.27        78.21 
TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI 
       95.57       130.78        14.30        29.13        93.21         3.65 
TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YU 
       19.46        12.43        16.18        75.02        51.88         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       18.44        15.35        17.88        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8189 TCGA-FG-8191 
       28.34        13.68        14.24        16.01        22.52        32.61 
TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J 
       38.27        10.72        18.38        18.71        23.70        14.76 
TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z 
       21.53        15.02        16.44        22.26        28.54        10.78 
TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 
       36.66        48.69         5.72        27.52         0.10         6.67 
TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
       11.54        40.11         0.13         0.03        16.54         3.75 
TCGA-HT-7475 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 
       17.42         6.38        40.34        95.93       106.95       172.77 
TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 
        4.01         5.03        29.85        23.18       122.47         4.57 
TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7620 TCGA-HT-7676 
        3.16        22.06        56.09        57.60        14.27         0.16 
TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 
       16.24         0.76        44.68         6.05        42.74         0.10 
TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 
       14.96         0.10         0.10        17.52         6.90        14.53 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 
       39.48        19.23        39.09        50.63         0.49        23.61 
TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
       37.15         0.33         0.13         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 
        3.72        11.28        31.43         1.64        16.24         9.40 
TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 
       63.55         0.10        37.87        33.01        12.23         6.25 
TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 
        0.10         0.46         2.50         5.56        13.78         0.23 
TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 
       29.59        34.19        28.27         0.23        26.04         0.13 
TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 
       20.22         0.07        27.35         5.33         2.70        16.93 
TCGA-HT-A616 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J 
        1.81        16.83        17.52        17.65         2.43        10.52 
TCGA-HT-A74K TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7493 
       15.35         0.10        56.58        45.44        41.49        69.27 
TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK 
       35.44        39.75        42.54        24.92        31.63        12.76 
TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV 
       28.87        20.71        19.00        14.40        14.40         0.23 
TCGA-P5-A5EW TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        6.71         2.37         2.30         9.44         5.88         7.96 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A730 
        7.59         1.28         0.23        10.42        13.25        10.95 
TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W 
        9.01        13.61         9.60         7.56        12.23        19.20 
TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X 
        3.45         2.37         4.41         2.53        12.62        15.85 
TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY 
       19.33        14.83        14.53        13.61        12.23        13.41 
TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 
        9.17        10.29        14.53        16.34        16.73         1.91 
TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML 
       16.50        16.70        11.08        12.99        88.83        94.03 
TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A843 TCGA-RY-A845 
       32.65        30.87         5.46         9.90         2.07        19.59 
TCGA-RY-A847 TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       30.67        87.12        18.77        35.38        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 
       25.81        29.85        32.61        35.15        98.24        95.93 
TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WI TCGA-S9-A6WO 
        5.85       123.65       135.22        85.55        84.99        18.61 
TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ 
       14.07        36.13         7.92        26.93        23.51        19.99 
TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX 
       20.02         8.19         2.04        20.68        15.06        18.54 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 
       27.16       169.84        99.06        30.05        98.63        31.59 
TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA 
       18.71        20.48        54.77        48.33        49.32        34.78 
TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84H TCGA-TM-A84J 
       65.39        24.92        16.18        59.05        30.44        24.16 
TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       40.83        24.79        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM 
       23.80        19.69        15.98        40.41        44.09        36.69 
TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU 
       33.73        31.20        30.05        26.14        25.87        33.93 
TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CB 
       61.41        26.99        31.36        45.93        43.20         0.10 
TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M 
        7.89        39.16        20.02        23.47        37.05        16.01 
TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 
       23.21         8.05        51.06        13.32        43.96        39.88 
TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 
       43.40        45.80        46.88        37.71        20.81         7.63 
TCGA-02-0001 TCGA-02-0003 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 TCGA-02-0014 
       11.77         4.73        23.18        10.59        35.41        82.59 
TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 
       20.61        87.06        77.65        20.12        53.10        42.74 
TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 
       24.59        12.16        90.58         2.83        14.14         3.62 
TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 
       10.72        10.52        18.31         6.87        14.73         3.22 
TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0055 TCGA-02-0057 TCGA-02-0058 
       15.09        12.59         6.54         2.50        19.86         8.35 
TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 
        9.57         6.02        19.73        26.43        28.70        25.05 
TCGA-02-0071 TCGA-02-0074 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 
        5.49        10.19        89.72        22.72        12.62        51.32 
TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 
        8.81        57.76        16.96         3.48        27.02        65.00 
TCGA-02-0107 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 
       17.65        99.98        15.65        48.95        16.54        16.93 
TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 
       17.72        10.75        14.47         3.98        13.87        14.20 
TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 
       15.95        12.23         9.90        10.62         7.33        15.91 
TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 
       25.71         4.37        25.12        10.59        12.39        14.50 
TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 
       10.55        47.11        11.34         9.27        16.21         3.35 
TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 
       16.80        12.92        15.32        15.45        20.32         2.70 
TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 
        6.15        20.38        47.61         6.94         3.98        22.72 
TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 
       12.95        25.35        14.30        26.70        24.23        11.90 
TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 
        0.20        10.29         2.20        11.74         2.33        20.09 
TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0152 TCGA-06-0154 
       17.79        10.09         8.61        19.46        12.33        13.94 
TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 
       10.45         3.19        10.82         9.44        11.80         3.42 
TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 
       56.91        10.65         5.85        19.66         3.29        13.12 
TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 
        3.22         4.04        91.00         4.18        88.14        20.25 
TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 
        3.65        69.90        73.84        27.22        44.58        15.42 
TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 
       10.42        38.96         4.67         7.40         5.56         0.39 
TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 
        8.42         7.40        11.84        15.02        24.16         0.72 
TCGA-06-0221 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 
       19.82        13.32        20.42        48.69        10.82         9.01 
TCGA-06-0402 TCGA-06-0409 TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 TCGA-06-0414 
        0.26        72.36         4.70         9.57         3.16        35.11 
TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 
       12.62         5.75         5.75        23.57        14.20        26.40 
TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 
       46.88         7.86         2.70         0.92        43.46        46.19 
TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 
        7.17        40.41        16.57        20.78        26.76        23.93 
TCGA-06-1087 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 
        4.04        11.84        15.32        13.61        33.90         1.08 
TCGA-06-2558 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 
       12.49        17.65        12.56        30.64         5.95        16.64 
TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 
        5.98         4.37         0.43        31.50         7.79         5.39 
TCGA-06-6693 TCGA-08-0244 TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 
      120.56        22.68         4.18       115.86         1.74         8.42 
TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 
       25.71        12.16         9.80        29.23        65.33         1.28 
TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 
        8.42        17.95        24.56        31.10        37.58        22.29 
TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 
       12.23        14.93        18.02        15.35        13.97         0.72 
TCGA-08-0509 TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 
       12.56        42.15        11.08        19.59        58.68        19.33 
TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 
       10.75         4.80         7.27        18.41         7.56        14.73 
TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 
       12.99        34.92        10.45         7.59        94.78         0.10 
TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 
       38.17        25.97        26.66        12.13         3.65        20.38 
TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0778 
       28.41        15.06        53.85        43.23         7.63        14.93 
TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 
       14.86        91.76        24.79        18.48        10.62        23.51 
TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 
       38.76         8.94        20.58         5.82         7.59        33.21 
TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 
       15.98        12.23        15.85        14.53         3.98         4.14 
TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 TCGA-14-0867 TCGA-14-0871 TCGA-14-1037 
        2.24        11.24         1.35         2.04        28.93        19.30 
TCGA-14-1043 TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 TCGA-15-1447 TCGA-15-1449 
        0.79        13.78        50.53        19.10        53.19        13.28 
TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 TCGA-19-1385 TCGA-19-1386 
       26.07        16.37        11.77        21.90        10.75         9.07 
TCGA-19-1387 TCGA-19-1388 TCGA-19-1389 TCGA-26-1442 TCGA-26-5134 TCGA-26-5139 
        5.95        12.95         4.64        31.33         5.49         1.58 
TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-5204 TCGA-28-5208 TCGA-28-5209 
        7.92         2.33         7.30        14.93        17.88        14.53 
TCGA-28-5211 TCGA-28-5214 TCGA-28-5215 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 
       11.77        23.44        11.01         5.16        22.68        12.76 
TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 
        5.42         7.36        11.38         5.42         3.75         1.61 
TCGA-87-5896 
       26.30 

  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
              0.10               0.03 
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
            182.33             211.17 
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
             17.46              15.95 
[1] "0.1 - 182.3 (17.5)" "0.0 - 211.2 (15.9)"
[1] "hr=" "1.2"
D74V2, continuous
D74V3, binary
                    cls
clus                   0   1
  18Q LOSS MUTATED    61  62
  18Q LOSS WILD-TYPE 512 450
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18Q LOSS MUTATED     61   62
  18Q LOSS WILD-TYPE  512  450
                        clus
vv                       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  BRAIN                                61                512
  CENTRAL NERVOUS SYSTEM               62                450
[1] 2 2
[1] FALSE
D74V4, binary
                    cls
clus                   0   1
  18Q LOSS MUTATED    48  75
  18Q LOSS WILD-TYPE 405 557
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18Q LOSS MUTATED     48   75
  18Q LOSS WILD-TYPE  405  557
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  FEMALE               48                405
  MALE                 75                557
[1] 2 2
[1] FALSE
D74V5, binary
                    cls
clus                   0   1
  18Q LOSS MUTATED    34  82
  18Q LOSS WILD-TYPE 224 688
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18Q LOSS MUTATED     34   82
  18Q LOSS WILD-TYPE  224  688
     clus
vv    18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  NO                34                224
  YES               82                688
[1] 2 2
[1] FALSE
D74V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  18Q LOSS MUTATED            20                             4               10
  18Q LOSS WILD-TYPE         174                            26              119
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  18Q LOSS MUTATED                  32                   1
  18Q LOSS WILD-TYPE               157                  17
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  18Q LOSS MUTATED                                56
  18Q LOSS WILD-TYPE                             469
D74V7, multiclass
                                 clus
vv                                18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  ASTROCYTOMA                                   20                174
  GLIOBLASTOMA MULTIFORME (GBM)                  4                 26
  OLIGOASTROCYTOMA                              10                119
  OLIGODENDROGLIOMA                             32                157
  TREATED PRIMARY GBM                            1                 17
  UNTREATED PRIMARY (DE NOVO) GBM               56                469
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  18Q LOSS MUTATED                                  1     3
  18Q LOSS WILD-TYPE                                0    18
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  18Q LOSS MUTATED                           8   106
  18Q LOSS WILD-TYPE                        63   853
D74V8, multiclass
                                  clus
vv                                 18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                1                  0
  ASIAN                                           3                 18
  BLACK OR AFRICAN AMERICAN                       8                 63
  WHITE                                         106                853
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D74V9, binary
                    cls
clus                   0   1
  18Q LOSS MUTATED     7 104
  18Q LOSS WILD-TYPE  37 817
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  18Q LOSS MUTATED      7  104
  18Q LOSS WILD-TYPE   37  817
                        clus
vv                       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  HISPANIC OR LATINO                    7                 37
  NOT HISPANIC OR LATINO              104                817
[1] 2 2
[1] FALSE

Clustering(75) Variable = 19P LOSS MUTATION ANALYSIS
D75V1, survival
                    sevent
clus2                  0   1
  19P LOSS MUTATED    28  29
  19P LOSS WILD-TYPE 452 569
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                57               1021 
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                29                569 
$`19P LOSS MUTATED`
TCGA-DH-A66B TCGA-06-5411 TCGA-14-0740 TCGA-14-0865 TCGA-14-1458 TCGA-14-3477 
       42.05         8.35        11.97        16.50         6.67         3.78 
TCGA-26-5136 TCGA-27-1834 TCGA-27-2519 TCGA-32-1976 TCGA-32-4210 TCGA-76-4929 
       18.97        40.54        18.08         0.49         3.72         3.65 
TCGA-76-4931 TCGA-CS-4942 TCGA-CS-6668 TCGA-DB-5277 TCGA-DH-5140 TCGA-DH-5142 
        9.17        43.89        49.94        50.86        19.96        63.88 
TCGA-DH-5144 TCGA-DH-A669 TCGA-DU-5855 TCGA-DU-6408 TCGA-DU-A5TS TCGA-E1-5305 
       24.59        30.21         6.81       114.08        31.69        79.99 
TCGA-E1-A7YO TCGA-HT-7468 TCGA-HT-7480 TCGA-HT-7688 TCGA-HT-7857 TCGA-HT-8111 
       75.02         6.67        75.19        31.69         0.23         0.23 
TCGA-HT-8564 TCGA-P5-A5F6 TCGA-R8-A6MO TCGA-RY-A840 TCGA-S9-A6TX TCGA-S9-A6U5 
       15.72         1.28        32.65        28.08        40.93        32.61 
TCGA-S9-A6WI TCGA-S9-A7IS TCGA-TM-A84J TCGA-TM-A84M TCGA-TQ-A7RH TCGA-TQ-A7RM 
       84.99         7.92        24.16        24.79        15.98        36.69 
TCGA-TQ-A7RO TCGA-WY-A858 TCGA-02-0026 TCGA-02-0055 TCGA-02-0456 TCGA-06-0875 
       31.20        43.96        24.59         2.50         3.35        43.46 
TCGA-06-2569 TCGA-06-6389 TCGA-08-0344 TCGA-08-0349 TCGA-08-0358 TCGA-12-0619 
        0.43         7.79       115.86         9.80        22.29        34.92 
TCGA-12-1095 TCGA-15-1444 TCGA-16-0850 
       15.85        50.53        16.37 

$`19P LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       62.01        17.16        23.90        20.09        17.82        20.45 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 
       18.64        21.40        45.60        42.77        59.38        15.32 
TCGA-06-5408 TCGA-06-5410 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 
       11.74         3.55         4.54         8.81         8.98         8.55 
TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 
        6.71         2.73         3.75         6.15         4.57         5.23 
TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 
        8.32        12.85         4.77         1.55         4.77         4.96 
TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK TCGA-06-A7TL 
       26.79         1.87         3.12         2.56        14.60        17.72 
TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 TCGA-12-1602 
       15.35        21.73        15.65        25.68        14.73         6.77 
TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 
       59.77        44.02        26.93        15.22        10.95        12.69 
TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 
       34.92        14.53        14.93         3.22         2.04        15.12 
TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 
        0.95         6.21        23.05        13.78         3.25         2.89 
TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 
       26.33        15.95         1.38         1.12         3.75        32.05 
TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 
       58.78        23.11         7.10         1.15        30.18         0.92 
TCGA-14-1456 TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 TCGA-14-1823 
       40.96        12.43         0.99         1.97        17.79        17.85 
TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-4157 
        7.63         5.88         7.17        17.49         7.96         3.42 
TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 
       17.59        29.03         4.57        10.29        14.01         9.14 
TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 
       21.24        13.97         6.41         8.61        14.27         3.39 
TCGA-19-1390 TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 
       25.38         3.65         7.17        12.66         3.25         0.13 
TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 
        9.67         4.87         1.08         7.53         0.16         4.08 
TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 
       24.23         7.00         7.04         6.64        17.19         8.02 
TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 
       18.90         4.73        12.10         1.78        22.49        14.07 
TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 
       16.80        14.96        17.79        28.54        10.03        13.87 
TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 TCGA-26-A7UX 
        9.73         7.13         9.37         9.40         8.88        19.33 
TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1835 TCGA-27-1836 
        5.06        16.60         9.86        24.23        21.30        30.05 
TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2521 TCGA-27-2523 TCGA-27-2524 
       14.04        11.51        24.76        16.77        16.08         7.59 
TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 
        2.86        14.40        15.78         0.20         2.53         9.21 
TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 
        8.35         7.63         8.48         1.22         1.55         2.83 
TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 TCGA-32-1970 TCGA-32-1973 
        0.13         0.66         6.74         4.77        15.39        21.07 
TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 
        0.10        15.85        19.50         1.18         4.67        12.69 
TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 
       14.86        16.93        12.23        20.78        15.02        15.95 
TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 TCGA-32-4211 TCGA-32-4213 
        8.84        22.78        25.18        21.14        12.59        19.86 
TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 
       10.85        19.23         0.85        13.35         8.94         9.53 
TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 
        0.99         4.44        11.84         0.20        15.12        12.46 
TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 
        4.08         1.45        25.58         3.45        20.91         4.34 
TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 
       14.33         8.22         7.50         4.80         4.54         3.09 
TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 
        2.53        36.85        16.70         3.29         2.70        17.06 
TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 
        8.35        20.98         4.83         5.03        23.90        34.45 
TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 
       18.64        36.20         5.92         6.28        20.55       117.50 
TCGA-CS-4941 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 
        7.69        36.36        60.10        40.18         0.26        21.01 
TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 
       53.62         6.38        17.69        26.76        37.38        46.95 
TCGA-CS-6667 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       48.30        49.12       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       72.92        91.13        44.52        36.56        78.28        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG 
       18.84        30.21        39.78        37.45        33.57        72.95 
TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R 
       31.63        24.20        25.48        30.12         5.98        31.40 
TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K 
       27.45        27.81        29.23        14.40        18.51        12.10 
TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5143 TCGA-DH-A66D 
       11.24        17.88        30.74        16.18        46.06        27.81 
TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU 
       17.19        17.19        54.25        23.21        17.46        13.71 
TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 
       18.61        18.02        14.56        17.46         6.74        13.38 
TCGA-DU-5854 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 
        8.45       182.33        18.94        17.49        15.16       211.17 
TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
       52.11        22.42        49.02        75.16        46.06        65.75 
TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
        1.22        87.45         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 
       16.83        94.52         7.96         2.40        11.47        62.96 
TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 
      156.23       154.36        14.99       105.21         6.54         8.84 
TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 
      117.40        90.77        30.67        26.30        10.36         7.96 
TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 
       94.32        18.94        44.02        25.91        60.30        23.31 
TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 
       41.98         2.76         5.10        23.74        14.60        20.68 
TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP 
       21.40        19.13        16.96        15.48        14.17        33.27 
TCGA-DU-A5TR TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 
       29.85        24.43        26.17        24.99        33.96        25.55 
TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L 
       21.57        95.11        20.98        22.29        11.41        26.76 
TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC 
       21.30        17.98       139.04        84.33        51.52        37.38 
TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 
        7.50        44.42        38.89         0.56        50.14        67.46 
TCGA-E1-5304 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 
       41.13        57.93       134.27        78.21        95.57       130.78 
TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK 
       14.30        29.13        93.21         3.65        19.46        12.43 
TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV 
       16.18        21.30        51.88        15.32         0.76        32.45 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       36.82       146.14        13.08        73.48       145.05        32.35 
TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 
       39.48         0.23         0.20        47.77        25.48        52.21 
TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 
       36.82        18.77        14.93        42.54        41.33        18.44 
TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 
       15.35        17.88        22.55        20.61        20.09        28.34 
TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 
       13.68        14.24        16.01        14.96        22.52        32.61 
TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J 
       38.27        10.72        18.38        18.71        23.70        14.76 
TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z 
       21.53        15.02        16.44        22.26        28.54        10.78 
TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7469 
       36.66        48.69         5.72        27.52         0.10        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7481 TCGA-HT-7482 
        6.54        24.26         6.38        40.34        95.93       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
        4.57        17.29         3.16        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       57.60         0.23        14.27         0.16        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7689 TCGA-HT-7690 
       44.68         6.05        42.74         0.10        14.96         0.10 
TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 
        0.10         2.96        17.52         6.90        14.53        39.48 
TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 
       19.23        39.09        50.63         0.49        23.61        37.15 
TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 
        0.33         0.13         3.68         5.33        35.47         3.72 
TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 
       11.28        31.43         1.64        16.24         9.40        63.55 
TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 
        0.10        37.87        33.01        12.23         6.25         0.10 
TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8113 TCGA-HT-8114 
        0.46         2.50         5.56        13.78        29.59        34.19 
TCGA-HT-8563 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 
       28.27         0.23        26.04         0.13        20.22         0.07 
TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 
       27.35         0.10         5.33         2.70        16.93         1.81 
TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J 
       16.14        16.83        17.52        17.65         2.43        10.52 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 
       15.35        11.05         0.10        56.58        45.44        41.49 
TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       68.32        69.27        35.44        39.75        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 
       24.92        31.63        12.76        28.87        20.71        19.00 
TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY 
       14.40        14.40         0.23         6.71         7.99         2.37 
TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A72U 
        2.30         9.44         5.88         7.96         7.59         0.23 
TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 
       10.42        13.25        11.64        10.95         9.01        13.61 
TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 
        9.60         7.56        12.23        19.20         3.45         2.37 
TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z 
        4.41        15.16         2.53        12.62        15.85        14.04 
TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY 
       19.33        14.83        14.53        13.61        12.23        13.41 
TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 
        9.17        10.29        14.53        16.34        16.73         1.91 
TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML 
       16.50        16.70        11.08        12.99        88.83        94.03 
TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
       30.87         5.46         9.90         2.07        19.59        30.67 
TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TY TCGA-S9-A6TZ 
       62.17        87.12        18.77        41.10        35.38        36.82 
TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 
       24.39        25.81        29.85        35.15        98.24        95.93 
TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH 
        5.85       123.65        75.25       135.22        85.55        38.56 
TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ 
       31.10        19.86        26.47        18.61        18.64        14.07 
TCGA-S9-A7IQ TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 
       36.13        26.93        23.51        19.99        20.02         8.19 
TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ 
        2.04        20.68        15.06        18.54        28.37        27.16 
TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 
      169.84        10.39        99.06        30.05        98.63        31.59 
TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA 
       18.71        20.48        54.77        48.33        49.32        34.78 
TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H 
       65.39        24.92        16.18        59.05        40.64        30.44 
TCGA-TM-A84I TCGA-TM-A84L TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S 
       28.08        40.83        33.24        25.38        18.61        14.93 
TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       23.80        21.37        19.69         2.04        40.41        44.09 
TCGA-TQ-A7RN TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV 
       33.73        30.05        26.14        25.87        33.93        61.41 
TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB 
       26.99        31.36        45.93        43.20        13.51         0.10 
TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M 
        7.89        39.16        20.02        23.47        37.05        16.01 
TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A859 TCGA-WY-A85A 
       23.21         8.05        51.06        13.32        39.88        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 TCGA-02-0001 
       45.80        46.88        37.71        20.81         7.63        11.77 
TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 TCGA-02-0011 
        4.73        18.35        23.18        10.59        35.41        20.71 
TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 
       82.59        20.61        87.06        77.65        20.12        53.10 
TCGA-02-0025 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 
       42.74        12.16        90.58         2.83        14.14         3.62 
TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 
       10.72        10.52        18.31         6.87        14.73         3.22 
TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 
       15.09        12.59         6.54        19.86         8.35         9.57 
TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 
        6.02        19.73        26.43        28.70        25.05         5.49 
TCGA-02-0074 TCGA-02-0075 TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 
       10.19        20.84        27.25        89.72        22.72        12.62 
TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 
       51.32         8.81        57.76        16.96         3.48        27.02 
TCGA-02-0104 TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 TCGA-02-0113 TCGA-02-0114 
       65.00        11.67        17.65        23.18        92.65        99.98 
TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 
       15.65        48.95        16.54        16.93        17.72        10.75 
TCGA-02-0271 TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 
       14.47         3.98        13.87        14.20        15.95        12.23 
TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 
        9.90         7.73        10.62         7.33        15.91        25.71 
TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 
        4.37        25.12        10.59        12.39        14.50        10.55 
TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-2466 TCGA-02-2470 
       47.11        11.34         9.27        16.21        16.80        12.92 
TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 
       15.32        15.45        20.32         2.70         6.15        20.38 
TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 
       47.61         6.94         3.98        22.72        33.67        12.95 
TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 
       25.35        14.30        26.70        24.23        11.90         0.20 
TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 
       10.29         2.20        11.74         2.33        20.09        17.79 
TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 
       10.09         8.61        19.46        46.59        12.33        13.94 
TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 
       10.45         3.19        10.82         9.44        11.80         3.42 
TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 
       56.91        10.65         5.85        19.66         3.29        13.12 
TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 
        4.47         3.22         4.04        91.00         4.18        88.14 
TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 
       20.25         3.65        69.90        73.84        27.22        44.58 
TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 
       15.42        10.42        38.96         4.67         7.40         5.56 
TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 
        0.39         7.66         8.42         7.40        11.84         0.53 
TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 TCGA-06-0238 
       15.02        24.16         0.72        19.82        13.64        13.32 
TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 
       20.42        48.69        10.82         9.01         0.26        72.36 
TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 TCGA-06-0414 TCGA-06-0644 TCGA-06-0645 
        4.70         9.57         3.16        35.11        12.62         5.75 
TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 
        5.75         9.80         2.10        23.57        14.20        26.40 
TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0876 
       46.88         7.86         2.70         2.70         0.92        46.19 
TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 
        7.17        40.41        16.57        20.78        26.76        23.93 
TCGA-06-1086 TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 
        6.84         4.04        26.79        11.84        15.32        13.61 
TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 
       33.90         1.08        12.49         4.93        17.65        12.56 
TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2570 
       30.64         5.95        16.64         5.98         4.37        31.50 
TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 
        5.39       120.56         7.36        22.68        37.84         4.18 
TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0350 TCGA-08-0351 
        1.74         8.42        25.71        12.16        29.23        65.33 
TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 
        1.28         8.42        17.95        24.56        31.10        37.58 
TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 
        3.39        12.23        14.93        18.02        15.35        13.97 
TCGA-08-0392 TCGA-08-0509 TCGA-08-0510 TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 
        0.72        12.56         4.27        42.15        11.08        19.59 
TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 
       58.68        19.33        10.75         4.80         7.27        15.98 
TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0620 TCGA-12-0654 
       18.41         7.56        14.73        12.99        10.45         7.59 
TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 
       94.78         0.10        38.17        25.97        26.66        12.13 
TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 
        3.65        20.38        28.41        15.06        53.85        43.23 
TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 
        7.63         9.73        14.93        14.86        91.76        24.79 
TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0826 TCGA-12-0827 TCGA-12-0828 
       18.48        10.62        23.51        27.78        38.76         8.94 
TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 
       20.58       127.59         5.82         7.59        33.21        15.98 
TCGA-12-1094 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 TCGA-14-0787 
       12.23         9.11        14.53         3.98         4.14         2.24 
TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 TCGA-14-0867 TCGA-14-0871 TCGA-14-1037 
       11.24         1.35         5.39         2.04        28.93        19.30 
TCGA-14-1043 TCGA-15-0742 TCGA-15-1446 TCGA-15-1447 TCGA-15-1449 TCGA-16-0846 
        0.79        13.78        19.10        53.19        13.28         3.91 
TCGA-16-0849 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 
       26.07        11.77        21.90         0.66        10.75         9.07 
TCGA-19-1387 TCGA-19-1388 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 
        5.95        12.95         4.64        31.33        14.86         5.49 
TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 
        1.58         7.92         2.33         7.30         5.26        14.93 
TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 
       11.28        17.88        14.53        11.77        31.27        23.44 
TCGA-28-5215 TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 
       11.01        13.64         5.16        22.68        12.76         5.42 
TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 
        7.36        11.38         5.42         3.75         1.61        17.72 
TCGA-87-5896 
       26.30 

  19P LOSS MUTATED 19P LOSS WILD-TYPE 
              0.23               0.03 
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
            115.86             211.17 
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
             24.16              15.85 
[1] "0.2 - 115.9 (24.2)" "0.0 - 211.2 (15.8)"
[1] "hr=" "1.3"
D75V2, continuous
D75V3, binary
                    cls
clus                   0   1
  19P LOSS MUTATED    25  32
  19P LOSS WILD-TYPE 548 480
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19P LOSS MUTATED     25   32
  19P LOSS WILD-TYPE  548  480
                        clus
vv                       19P LOSS MUTATED 19P LOSS WILD-TYPE
  BRAIN                                25                548
  CENTRAL NERVOUS SYSTEM               32                480
[1] 2 2
[1] FALSE
D75V4, binary
                    cls
clus                   0   1
  19P LOSS MUTATED    23  34
  19P LOSS WILD-TYPE 430 598
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19P LOSS MUTATED     23   34
  19P LOSS WILD-TYPE  430  598
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  FEMALE               23                430
  MALE                 34                598
[1] 2 2
[1] FALSE
D75V5, binary
                    cls
clus                   0   1
  19P LOSS MUTATED    13  39
  19P LOSS WILD-TYPE 245 731
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19P LOSS MUTATED     13   39
  19P LOSS WILD-TYPE  245  731
     clus
vv    19P LOSS MUTATED 19P LOSS WILD-TYPE
  NO                13                245
  YES               39                731
[1] 2 2
[1] FALSE
D75V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  19P LOSS MUTATED            10                             1                7
  19P LOSS WILD-TYPE         184                            29              122
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  19P LOSS MUTATED                  15                   0
  19P LOSS WILD-TYPE               174                  18
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  19P LOSS MUTATED                                24
  19P LOSS WILD-TYPE                             501
D75V7, multiclass
                                 clus
vv                                19P LOSS MUTATED 19P LOSS WILD-TYPE
  ASTROCYTOMA                                   10                184
  GLIOBLASTOMA MULTIFORME (GBM)                  1                 29
  OLIGOASTROCYTOMA                               7                122
  OLIGODENDROGLIOMA                             15                174
  TREATED PRIMARY GBM                            0                 18
  UNTREATED PRIMARY (DE NOVO) GBM               24                501
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  19P LOSS MUTATED                                  0     1
  19P LOSS WILD-TYPE                                1    20
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  19P LOSS MUTATED                           6    48
  19P LOSS WILD-TYPE                        65   911
D75V8, multiclass
                                  clus
vv                                 19P LOSS MUTATED 19P LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           1                 20
  BLACK OR AFRICAN AMERICAN                       6                 65
  WHITE                                          48                911
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D75V9, binary
                    cls
clus                   0   1
  19P LOSS MUTATED     4  46
  19P LOSS WILD-TYPE  40 875
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19P LOSS MUTATED      4   46
  19P LOSS WILD-TYPE   40  875
                        clus
vv                       19P LOSS MUTATED 19P LOSS WILD-TYPE
  HISPANIC OR LATINO                    4                 40
  NOT HISPANIC OR LATINO               46                875
[1] 2 2
[1] FALSE

Clustering(76) Variable = 19Q LOSS MUTATION ANALYSIS
D76V1, survival
                    sevent
clus2                  0   1
  19Q LOSS MUTATED   171  70
  19Q LOSS WILD-TYPE 309 528
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
               241                837 
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                70                528 
$`19Q LOSS MUTATED`
TCGA-CS-6670 TCGA-DH-5141 TCGA-DH-A66B TCGA-DU-7300 TCGA-FG-8187 TCGA-FG-A60K 
       46.88        31.82        42.05        62.01        20.09        17.82 
TCGA-FG-A713 TCGA-HT-A619 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-5411 TCGA-06-A6S1 
       20.45        21.40        42.77        59.38         8.35         2.56 
TCGA-12-1598 TCGA-14-0740 TCGA-14-0862 TCGA-14-0865 TCGA-14-1458 TCGA-26-5136 
       15.65        11.97         2.89        16.50         6.67        18.97 
TCGA-27-1834 TCGA-27-2519 TCGA-32-1976 TCGA-32-2491 TCGA-32-4210 TCGA-76-4929 
       40.54        18.08         0.49        12.23         3.72         3.65 
TCGA-76-4931 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-5396 TCGA-CS-6668 TCGA-DB-5274 
        9.17        43.89        36.36        53.62        49.94        75.25 
TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-A4XA TCGA-DB-A4XG TCGA-DB-A4XH 
       50.86        91.13        44.52        18.84        72.95        31.63 
TCGA-DB-A64L TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64U TCGA-DB-A64V 
       24.20        30.12         5.98        31.40        27.81        29.23 
TCGA-DB-A64W TCGA-DB-A75K TCGA-DB-A75L TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5144 
       14.40        12.10        11.24        19.96        63.88        24.59 
TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US 
       30.21        27.81        17.19        17.19        54.25        23.21 
TCGA-DU-5849 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5874 TCGA-DU-6393 TCGA-DU-6394 
       14.56         6.81       182.33        15.16        52.11        22.42 
TCGA-DU-6397 TCGA-DU-6400 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-7009 TCGA-DU-7014 
       46.06         1.22       114.08         7.96       154.36       117.40 
TCGA-DU-7018 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7302 TCGA-DU-8164 TCGA-DU-8168 
       30.67        94.32        18.94        60.30        21.40        14.17 
TCGA-DU-A5TS TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S8 TCGA-DU-A76R 
       31.69        25.55        21.57        95.11        22.29        21.30 
TCGA-DU-A7T6 TCGA-DU-A7TC TCGA-DU-A7TG TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5311 
       17.98        37.38        44.42        41.13        79.99       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YK TCGA-E1-A7YO TCGA-E1-A7YS 
       78.21        95.57       130.78        12.43        75.02        15.32 
TCGA-E1-A7YY TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-FG-5962 TCGA-FG-5964 TCGA-FG-7634 
      146.14        39.48         0.23        47.77        52.21        15.35 
TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-A4MT 
       17.88        22.55        20.61        16.01        14.96        38.27 
TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A710 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 
       15.02        16.44        36.66         0.10         6.67        11.54 
TCGA-HT-7471 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7605 TCGA-HT-7607 TCGA-HT-7608 
        0.13        75.19        95.93         4.57         3.16        22.06 
TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7677 TCGA-HT-7681 TCGA-HT-7687 TCGA-HT-7688 
        0.23        14.27        16.24        44.68         0.10        31.69 
TCGA-HT-7692 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7874 
        2.96         6.90        14.53        39.09         0.23        37.15 
TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7881 TCGA-HT-8010 TCGA-HT-8012 TCGA-HT-8105 
        0.33         0.13        35.47         1.64         9.40         6.25 
TCGA-HT-8109 TCGA-HT-8111 TCGA-HT-8564 TCGA-HT-A4DV TCGA-HT-A5R9 TCGA-HT-A615 
        5.56         0.23        15.72        26.04         0.07        16.93 
TCGA-HT-A61B TCGA-HT-A74K TCGA-HT-A74L TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7491 
       17.52        15.35        11.05        56.58        45.44        68.32 
TCGA-HW-7495 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-KT-A74X TCGA-P5-A5EX TCGA-P5-A5F0 
       35.44        24.92        31.63        14.40         7.99         9.44 
TCGA-P5-A5F6 TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X 
        1.28        11.64        10.95        12.23        19.20         3.45 
TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CU 
        4.41        15.16        12.62        15.85        14.04        14.83 
TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A86X 
       13.41         9.17        14.53        16.34        16.73        11.08 
TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A840 
       88.83        94.03        32.65        30.87         5.46        28.08 
TCGA-RY-A847 TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6U2 TCGA-S9-A6U5 
       30.67        41.10        40.93        35.38        29.85        32.61 
TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL 
      123.65        75.25       135.22        38.56        84.99        31.10 
TCGA-S9-A6WN TCGA-S9-A6WP TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IY TCGA-S9-A7J1 
       26.47        18.64        36.13         7.92        23.51         8.19 
TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-TM-A7C5 
        2.04        20.68        28.37        27.16       169.84        49.32 
TCGA-TM-A84G TCGA-TM-A84J TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84R TCGA-TM-A84S 
       40.64        24.16        24.79        33.24        18.61        14.93 
TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO 
       19.69        15.98         2.04        36.69        33.73        31.20 
TCGA-TQ-A7RQ TCGA-TQ-A7RU TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8CA 
       26.14        33.93        26.99        31.36        45.93        13.51 
TCGA-VM-A8CB TCGA-VM-A8CE TCGA-VV-A829 TCGA-VW-A7QS TCGA-W9-A837 TCGA-WY-A858 
        0.10        39.16        37.05        23.21        51.06        43.96 
TCGA-02-0026 TCGA-02-0028 TCGA-02-0055 TCGA-02-0060 TCGA-02-0258 TCGA-02-0432 
       24.59        90.58         2.50         6.02        16.54        47.11 
TCGA-02-0456 TCGA-02-2466 TCGA-06-0875 TCGA-06-2561 TCGA-06-2569 TCGA-08-0344 
        3.35        16.80        43.46        17.65         0.43       115.86 
TCGA-08-0349 TCGA-08-0358 TCGA-12-0619 TCGA-12-1095 TCGA-15-1444 TCGA-16-0850 
        9.80        22.29        34.92        15.85        50.53        16.37 
TCGA-19-1388 
       12.95 

$`19Q LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-DB-A4XC TCGA-DU-A76O TCGA-E1-A7YN 
        1.48         3.98        51.55        46.72        17.16        23.90 
TCGA-FG-A87N TCGA-HW-7490 TCGA-06-1806 TCGA-06-5408 TCGA-06-5410 TCGA-06-5412 
       18.64        45.60        15.32        11.74         3.55         4.54 
TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 
        8.81         8.98         8.55         6.71         2.73         3.75 
TCGA-06-5858 TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 
        6.15         4.57         5.23         8.32        12.85         4.77 
TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 
        1.55         4.77         4.96        26.79         1.87         3.12 
TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1599 TCGA-12-1600 
       14.60        17.72        15.35        21.73        25.68        14.73 
TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 
        6.77        59.77        44.02        26.93        15.22        10.95 
TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 
       12.69        34.92        14.53        14.93         3.22         2.04 
TCGA-14-0736 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 
       15.12         0.95         6.21        23.05        13.78         3.25 
TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 
       26.33        15.95         1.38         1.12         3.75        32.05 
TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 
       58.78        23.11         7.10         1.15        30.18         0.92 
TCGA-14-1456 TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 TCGA-14-1823 
       40.96        12.43         0.99         1.97        17.79        17.85 
TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-3477 
        7.63         5.88         7.17        17.49         7.96         3.78 
TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 
        3.42        17.59        29.03         4.57        10.29        14.01 
TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 
        9.14        21.24        13.97         6.41         8.61        14.27 
TCGA-19-0964 TCGA-19-1390 TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 
        3.39        25.38         3.65         7.17        12.66         3.25 
TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 
        0.13         9.67         4.87         1.08         7.53         0.16 
TCGA-19-2625 TCGA-19-2629 TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 
        4.08        24.23         7.00         7.04         6.64        17.19 
TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 
        8.02        18.90         4.73        12.10         1.78        22.49 
TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 
       14.07        16.80        14.96        17.79        28.54        10.03 
TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 
       13.87         9.73         7.13         9.37         9.40         8.88 
TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 TCGA-27-1835 
       19.33         5.06        16.60         9.86        24.23        21.30 
TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2521 TCGA-27-2523 
       30.05        14.04        11.51        24.76        16.77        16.08 
TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 
        7.59         2.86        14.40        15.78         0.20         2.53 
TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 
        9.21         8.35         7.63         8.48         1.22         1.55 
TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 TCGA-32-1970 
        2.83         0.13         0.66         6.74         4.77        15.39 
TCGA-32-1973 TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 
       21.07         0.10        15.85        19.50         1.18         4.67 
TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 
       12.69        14.86        16.93        20.78        15.02        15.95 
TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 TCGA-32-4211 TCGA-32-4213 
        8.84        22.78        25.18        21.14        12.59        19.86 
TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 
       10.85        19.23         0.85        13.35         8.94         9.53 
TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 
        0.99         4.44        11.84         0.20        15.12        12.46 
TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 
        4.08         1.45        25.58         3.45        20.91         4.34 
TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 
       14.33         8.22         7.50         4.80         4.54         3.09 
TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 
        2.53        36.85        16.70         3.29         2.70        17.06 
TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 
        8.35        20.98         4.83         5.03        23.90        34.45 
TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 
       18.64        36.20         5.92         6.28        20.55       117.50 
TCGA-CS-4941 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5397 
        7.69        60.10        40.18         0.26        21.01         6.38 
TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6669 
       17.69        26.76        37.38        46.95        48.30        49.12 
TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5280 TCGA-DB-5281 
      122.73        81.96        47.93        72.92        36.56        78.28 
TCGA-DB-A4X9 TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A64O 
       46.42        30.21        39.78        37.45        33.57        25.48 
TCGA-DB-A64S TCGA-DB-A64X TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5143 
       27.45        18.51        17.88        30.74        16.18        46.06 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5851 TCGA-DU-5852 
       17.46        13.71        18.61        18.02        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-6392 TCGA-DU-6395 
       13.38         8.45        18.94        17.49       211.17        49.02 
TCGA-DU-6396 TCGA-DU-6399 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 
       75.16        65.75        87.45         7.04        11.64       133.74 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 
       19.89        16.83        94.52         2.40        11.47        62.96 
TCGA-DU-7008 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7015 
      156.23        14.99       105.21         6.54         8.84        90.77 
TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7304 
       26.30        10.36         7.96        44.02        25.91        23.31 
TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 
       41.98         2.76         5.10        23.74        14.60        20.68 
TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TT 
       19.13        16.96        15.48        33.27        29.85        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S7 TCGA-DU-A76K TCGA-DU-A76L 
       26.17        24.99        33.96        20.98        11.41        26.76 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TD TCGA-DU-A7TI TCGA-DU-A7TJ 
      139.04        84.33        51.52         7.50        38.89         0.56 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5307 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YH 
       50.14        67.46        57.93        14.30        29.13        93.21 
TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YQ TCGA-E1-A7YU 
        3.65        19.46        16.18        21.30        51.88         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       32.45        36.82        13.08        73.48       145.05        32.35 
TCGA-F6-A8O4 TCGA-FG-5963 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 
        0.20        25.48        36.82        18.77        14.93        42.54 
TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 
       41.33        18.44        20.09        28.34        13.68        14.24 
TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY 
       22.52        32.61        10.72        18.38        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A711 
       14.76        21.53        22.26        28.54        10.78        48.69 
TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7470 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
        5.72        27.52        40.11         0.03        16.54         3.75 
TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7482 
       17.42         6.54        24.26         6.38        40.34       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7606 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7676 TCGA-HT-7680 
       17.29        45.99        56.09        57.60         0.16         0.76 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7693 
        6.05        42.74        14.96         0.10         0.10        17.52 
TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7879 
       39.48        19.23        50.63         0.49        23.61         3.68 
TCGA-HT-7880 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8011 TCGA-HT-8013 
        5.33         3.72        11.28        31.43        16.24        63.55 
TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8106 TCGA-HT-8107 
        0.10        37.87        33.01        12.23         0.10         0.46 
TCGA-HT-8108 TCGA-HT-8110 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-A4DS 
        2.50        13.78        29.59        34.19        28.27         0.23 
TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 
        0.13        20.22        27.35         0.10         5.33         2.70 
TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J 
        1.81        16.14        16.83        17.65         2.43        10.52 
TCGA-HT-A74O TCGA-HW-7489 TCGA-HW-7493 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
        0.10        41.49        69.27        39.75        40.01        42.54 
TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A7W1 TCGA-P5-A5EV 
       12.76        28.87        20.71        19.00        14.40         0.23 
TCGA-P5-A5EW TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 
        6.71         2.37         2.30         5.88         7.96         7.59 
TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 
        0.23        10.42        13.25         9.01        13.61         9.60 
TCGA-P5-A736 TCGA-P5-A780 TCGA-QH-A65S TCGA-QH-A6CS TCGA-QH-A6CV TCGA-QH-A6CW 
        7.56         2.37         2.53        19.33        14.53        13.61 
TCGA-QH-A6CX TCGA-QH-A6X3 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A870 
       12.23        10.29         1.91        16.50        16.70        12.99 
TCGA-RY-A83Z TCGA-RY-A843 TCGA-RY-A845 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV 
        9.90         2.07        19.59        62.17        87.12        18.77 
TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 
       36.82        24.39        25.81        35.15        98.24        95.93 
TCGA-S9-A6UA TCGA-S9-A6WG TCGA-S9-A6WM TCGA-S9-A6WO TCGA-S9-A6WQ TCGA-S9-A7IX 
        5.85        85.55        19.86        18.61        14.07        26.93 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7R2 TCGA-S9-A7R3 
       19.99        20.02        15.06        18.54        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       30.05        98.63        31.59        18.71        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F 
       48.33        34.78        65.39        24.92        16.18        59.05 
TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84L TCGA-TM-A84Q TCGA-TM-A84T TCGA-TQ-A7RF 
       30.44        28.08        40.83        25.38        23.80        21.37 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RP TCGA-TQ-A7RR TCGA-TQ-A7RV TCGA-VM-A8C9 
       40.41        44.09        30.05        25.87        61.41        43.20 
TCGA-VM-A8CD TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A86M TCGA-VW-A8FI TCGA-WH-A86K 
        7.89        20.02        23.47        16.01         8.05        13.32 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 
TCGA-06-0209 TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 
        7.63        11.77         4.73        18.35        23.18        10.59 
TCGA-02-0010 TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 
       35.41        20.71        82.59        20.61        87.06        77.65 
TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 TCGA-02-0027 TCGA-02-0033 TCGA-02-0034 
       20.12        53.10        42.74        12.16         2.83        14.14 
TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 
        3.62        10.72        10.52        18.31         6.87        14.73 
TCGA-02-0048 TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0057 TCGA-02-0058 
        3.22        15.09        12.59         6.54        19.86         8.35 
TCGA-02-0059 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 
        9.57        19.73        26.43        28.70        25.05         5.49 
TCGA-02-0074 TCGA-02-0075 TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 
       10.19        20.84        27.25        89.72        22.72        12.62 
TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 
       51.32         8.81        57.76        16.96         3.48        27.02 
TCGA-02-0104 TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 TCGA-02-0113 TCGA-02-0114 
       65.00        11.67        17.65        23.18        92.65        99.98 
TCGA-02-0115 TCGA-02-0116 TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 
       15.65        48.95        16.93        17.72        10.75        14.47 
TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 
        3.98        13.87        14.20        15.95        12.23         9.90 
TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 
        7.73        10.62         7.33        15.91        25.71         4.37 
TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 TCGA-02-0430 TCGA-02-0440 
       25.12        10.59        12.39        14.50        10.55        11.34 
TCGA-02-0446 TCGA-02-0451 TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 
        9.27        16.21        12.92        15.32        15.45        20.32 
TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 
        2.70         6.15        20.38        47.61         6.94         3.98 
TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 
       22.72        33.67        12.95        25.35        14.30        26.70 
TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 
       24.23        11.90         0.20        10.29         2.20        11.74 
TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 
        2.33        20.09        17.79        10.09         8.61        19.46 
TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 
       46.59        12.33        13.94        10.45         3.19        10.82 
TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 
        9.44        11.80         3.42        56.91        10.65         5.85 
TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 
       19.66         3.29        13.12         4.47         3.22         4.04 
TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 
       91.00         4.18        88.14        20.25         3.65        69.90 
TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 
       73.84        27.22        44.58        15.42        10.42        38.96 
TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 
        4.67         7.40         5.56         0.39         7.66         8.42 
TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 
        7.40        11.84         0.53        15.02        24.16         0.72 
TCGA-06-0221 TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 
       19.82        13.64        13.32        20.42        48.69        10.82 
TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 
        9.01         0.26        72.36         4.70         9.57         3.16 
TCGA-06-0414 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 
       35.11        12.62         5.75         5.75         9.80         2.10 
TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 
       23.57        14.20        26.40        46.88         7.86         2.70 
TCGA-06-0749 TCGA-06-0750 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 
        2.70         0.92        46.19         7.17        40.41        16.57 
TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1087 TCGA-06-1800 
       20.78        26.76        23.93         6.84         4.04        26.79 
TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 
       11.84        15.32        13.61        33.90         1.08        12.49 
TCGA-06-2559 TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 
        4.93        12.56        30.64         5.95        16.64         5.98 
TCGA-06-2567 TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 
        4.37        31.50         7.79         5.39       120.56         7.36 
TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 
       22.68        37.84         4.18         1.74         8.42        25.71 
TCGA-08-0348 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 
       12.16        29.23        65.33         1.28         8.42        17.95 
TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 
       24.56        31.10        37.58         3.39        12.23        14.93 
TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 TCGA-08-0510 
       18.02        15.35        13.97         0.72        12.56         4.27 
TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 
       42.15        11.08        19.59        58.68        19.33        10.75 
TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 
        4.80         7.27        15.98        18.41         7.56        14.73 
TCGA-12-0618 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 
       12.99        10.45         7.59        94.78         0.10        38.17 
TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 
       25.97        26.66        12.13         3.65        20.38        28.41 
TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 
       15.06        53.85        43.23         7.63         9.73        14.93 
TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 
       14.86        91.76        24.79        18.48        10.62        23.51 
TCGA-12-0826 TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 
       27.78        38.76         8.94        20.58       127.59         5.82 
TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 TCGA-12-1096 TCGA-12-1097 
        7.59        33.21        15.98        12.23         9.11        14.53 
TCGA-12-1098 TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 
        3.98         4.14         2.24        11.24         1.35         5.39 
TCGA-14-0867 TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 TCGA-15-1446 
        2.04        28.93        19.30         0.79        13.78        19.10 
TCGA-15-1447 TCGA-15-1449 TCGA-16-0846 TCGA-16-0849 TCGA-19-0955 TCGA-19-0957 
       53.19        13.28         3.91        26.07        11.77        21.90 
TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1389 TCGA-26-1442 
        0.66        10.75         9.07         5.95         4.64        31.33 
TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 
       14.86         5.49         1.58         7.92         2.33         7.30 
TCGA-28-2514 TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 
        5.26        14.93        11.28        17.88        14.53        11.77 
TCGA-28-5213 TCGA-28-5214 TCGA-28-5215 TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 
       31.27        23.44        11.01        13.64         5.16        22.68 
TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 
       12.76         5.42         7.36        11.38         5.42         3.75 
TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        1.61        17.72        26.30 

  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
              0.07               0.03 
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
            182.33             211.17 
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
             22.29              14.86 
[1] "0.1 - 182.3 (22.3)" "0.0 - 211.2 (14.9)"
[1] "hr=" "3.2"
D76V2, continuous
D76V3, binary
                    cls
clus                   0   1
  19Q LOSS MUTATED    34 210
  19Q LOSS WILD-TYPE 539 302
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19Q LOSS MUTATED     34  210
  19Q LOSS WILD-TYPE  539  302
                        clus
vv                       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  BRAIN                                34                539
  CENTRAL NERVOUS SYSTEM              210                302
[1] 2 2
[1] FALSE
D76V4, binary
                    cls
clus                   0   1
  19Q LOSS MUTATED   108 136
  19Q LOSS WILD-TYPE 345 496
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19Q LOSS MUTATED    108  136
  19Q LOSS WILD-TYPE  345  496
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  FEMALE              108                345
  MALE                136                496
[1] 2 2
[1] FALSE
D76V5, binary
                    cls
clus                   0   1
  19Q LOSS MUTATED   102 126
  19Q LOSS WILD-TYPE 156 644
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19Q LOSS MUTATED    102  126
  19Q LOSS WILD-TYPE  156  644
     clus
vv    19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  NO               102                156
  YES              126                644
[1] 2 2
[1] FALSE
D76V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  19Q LOSS MUTATED            23                             2               44
  19Q LOSS WILD-TYPE         171                            28               85
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  19Q LOSS MUTATED                 143                   2
  19Q LOSS WILD-TYPE                46                  16
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  19Q LOSS MUTATED                                30
  19Q LOSS WILD-TYPE                             495
D76V7, multiclass
                                 clus
vv                                19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  ASTROCYTOMA                                   23                171
  GLIOBLASTOMA MULTIFORME (GBM)                  2                 28
  OLIGOASTROCYTOMA                              44                 85
  OLIGODENDROGLIOMA                            143                 46
  TREATED PRIMARY GBM                            2                 16
  UNTREATED PRIMARY (DE NOVO) GBM               30                495
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  19Q LOSS MUTATED                                  0     5
  19Q LOSS WILD-TYPE                                1    16
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  19Q LOSS MUTATED                          11   221
  19Q LOSS WILD-TYPE                        60   738
D76V8, multiclass
                                  clus
vv                                 19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           5                 16
  BLACK OR AFRICAN AMERICAN                      11                 60
  WHITE                                         221                738
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D76V9, binary
                    cls
clus                   0   1
  19Q LOSS MUTATED    18 208
  19Q LOSS WILD-TYPE  26 713
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  19Q LOSS MUTATED     18  208
  19Q LOSS WILD-TYPE   26  713
                        clus
vv                       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  HISPANIC OR LATINO                   18                 26
  NOT HISPANIC OR LATINO              208                713
[1] 2 2
[1] FALSE

Clustering(77) Variable = 20P LOSS MUTATION ANALYSIS
D77V1, survival
                    sevent
clus2                  0   1
  20P LOSS MUTATED     8  18
  20P LOSS WILD-TYPE 472 580
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                26               1052 
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                18                580 
$`20P LOSS MUTATED`
TCGA-FG-A87N TCGA-14-3477 TCGA-19-1390 TCGA-19-2629 TCGA-27-2521 TCGA-28-1750 
       18.64         3.78        25.38        24.23        16.77         8.35 
TCGA-4W-AA9R TCGA-76-4934 TCGA-76-6286 TCGA-DB-5277 TCGA-DU-8166 TCGA-E1-A7YH 
        4.08         2.53        20.98        50.86        16.96        93.21 
TCGA-HT-7693 TCGA-S9-A89V TCGA-TQ-A7RM TCGA-02-0001 TCGA-02-0011 TCGA-02-0051 
       17.52        18.71        36.69        11.77        20.71        15.09 
TCGA-02-0060 TCGA-02-0281 TCGA-06-0188 TCGA-06-0414 TCGA-06-0686 TCGA-08-0245 
        6.02         3.98        44.58        35.11        14.20        37.84 
TCGA-12-1099 TCGA-14-0867 
        4.14         2.04 

$`20P LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K 
       42.05        62.01        17.16        23.90        20.09        17.82 
TCGA-FG-A713 TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 
       20.45        21.40        45.60        42.77        59.38        15.32 
TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 
       11.74         3.55         8.35         4.54         8.81         8.98 
TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 
        8.55         6.71         2.73         3.75         6.15         4.57 
TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 
        5.23         8.32        12.85         4.77         1.55         4.77 
TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK 
        4.96        26.79         1.87         3.12         2.56        14.60 
TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 
       17.72        15.35        21.73        15.65        25.68        14.73 
TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 
        6.77        59.77        44.02        26.93        15.22        10.95 
TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 TCGA-12-5299 TCGA-12-5301 
       12.69        34.92        14.53        14.93         3.22         2.04 
TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 
       15.12        11.97         0.95         6.21        23.05        13.78 
TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 
        3.25         2.89        16.50        26.33        15.95         1.38 
TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 
        1.12         3.75        32.05        58.78        23.11         7.10 
TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 
        1.15        30.18         0.92        40.96         6.67        12.43 
TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 
        0.99         1.97        17.79        17.85         7.63         5.88 
TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 
        7.17        17.49         7.96         3.42        17.59        29.03 
TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 
        4.57        10.29        14.01         9.14        21.24        13.97 
TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1392 TCGA-19-1786 
        6.41         8.61        14.27         3.39         3.65         7.17 
TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 
       12.66         3.25         0.13         9.67         4.87         1.08 
TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 
        7.53         0.16         4.08         7.00         7.04         6.64 
TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 
       17.19         8.02        18.90         4.73        12.10         1.78 
TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 
       22.49        14.07        16.80        14.96        17.79        28.54 
TCGA-26-1438 TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 
       10.03        13.87         9.73         7.13         9.37         9.40 
TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 
        8.88        18.97        19.33         5.06        16.60         9.86 
TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 
       24.23        40.54        21.30        30.05        14.04        11.51 
TCGA-27-2518 TCGA-27-2519 TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 
       24.76        18.08        16.08         7.59         2.86        14.40 
TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 TCGA-28-1751 TCGA-28-1752 
       15.78         0.20         2.53         9.21         7.63         8.48 
TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 
        1.22         1.55         2.83         0.13         0.66         6.74 
TCGA-28-2509 TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 TCGA-32-1978 
        4.77        15.39        21.07         0.49         0.10        15.85 
TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 
       19.50         1.18         4.67        12.69        14.86        16.93 
TCGA-32-2491 TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 TCGA-32-2632 TCGA-32-2634 
       12.23        20.78        15.02        15.95         8.84        22.78 
TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 
       25.18        21.14         3.72        12.59        19.86        10.85 
TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3392 
       19.23         0.85        13.35         8.94         9.53         0.99 
TCGA-41-3393 TCGA-41-3915 TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9S 
        4.44        11.84         0.20        15.12        12.46         1.45 
TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 
       25.58         3.45        20.91         4.34        14.33         8.22 
TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 
        7.50         4.80         4.54         3.09         3.65         9.17 
TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 
       36.85        16.70         3.29         2.70        17.06         8.35 
TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 
        4.83         5.03        23.90        34.45        18.64        36.20 
TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 
        5.92         6.28        20.55       117.50         7.69        43.89 
TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 
       36.36        60.10        40.18         0.26        21.01        53.62 
TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 
        6.38        17.69        26.76        37.38        46.95        48.30 
TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.94        49.12       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       72.92        91.13        44.52        36.56        78.28        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG 
       18.84        30.21        39.78        37.45        33.57        72.95 
TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R 
       31.63        24.20        25.48        30.12         5.98        31.40 
TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K 
       27.45        27.81        29.23        14.40        18.51        12.10 
TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 
       11.24        17.88        30.74        16.18        19.96        63.88 
TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G 
       46.06        24.59        30.21        27.81        17.19        17.19 
TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 
       54.25        23.21        17.46        13.71        18.61        18.02 
TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 
       14.56        17.46         6.74        13.38         8.45         6.81 
TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 
      182.33        18.94        17.49        15.16       211.17        52.11 
TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 
       22.42        49.02        75.16        46.06        65.75         1.22 
TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 
       87.45         7.04        11.64       133.74        19.89        16.83 
TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 
       94.52       114.08         7.96         2.40        11.47        62.96 
TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 
      156.23       154.36        14.99       105.21         6.54         8.84 
TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 
      117.40        90.77        30.67        26.30        10.36         7.96 
TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 
       94.32        18.94        44.02        25.91        60.30        23.31 
TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 
       41.98         2.76         5.10        23.74        14.60        20.68 
TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8167 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR 
       21.40        19.13        15.48        14.17        33.27        29.85 
TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 
       31.69        24.43        26.17        24.99        33.96        25.55 
TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 TCGA-DU-A76K TCGA-DU-A76L 
       21.57        95.11        20.98        22.29        11.41        26.76 
TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC 
       21.30        17.98       139.04        84.33        51.52        37.38 
TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 
        7.50        44.42        38.89         0.56        50.14        67.46 
TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 
       41.13        79.99        57.93       134.27        78.21        95.57 
TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YK 
      130.78        14.30        29.13         3.65        19.46        12.43 
TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU 
       16.18        21.30        75.02        51.88        15.32         0.76 
TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 
       32.45        36.82       146.14        13.08        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 
       18.44        15.35        17.88        22.55        20.61        20.09 
TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 
       28.34        13.68        14.24        16.01        14.96        22.52 
TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A4MY 
       32.61        38.27        10.72        18.38        18.71        23.70 
TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y 
       14.76        21.53        15.02        16.44        22.26        28.54 
TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 
       10.78        36.66        48.69         5.72        27.52         0.10 
TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 
        6.67        11.54        40.11         0.13         0.03        16.54 
TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 TCGA-HT-7479 
        3.75        17.42         6.54        24.26         6.38        40.34 
TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 
       75.19        95.93       106.95       172.77         4.01         5.03 
TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 
       29.85        23.18       122.47         4.57        17.29         3.16 
TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 
       22.06        45.99        56.09        57.60         0.23        14.27 
TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7686 
        0.16        16.24         0.76        44.68         6.05        42.74 
TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 
        0.10        31.69        14.96         0.10         0.10         2.96 
TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 
        6.90        14.53        39.48        19.23        39.09         0.23 
TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 
       50.63         0.49        23.61        37.15         0.33         0.13 
TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 
        3.68         5.33        35.47         3.72        11.28        31.43 
TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 
        1.64        16.24         9.40        63.55         0.10        37.87 
TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 
       33.01        12.23         6.25         0.10         0.46         2.50 
TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 
        5.56        13.78         0.23        29.59        34.19        28.27 
TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 
       15.72         0.23        26.04         0.13        20.22         0.07 
TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 
       27.35         0.10         5.33         2.70        16.93         1.81 
TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J 
       16.14        16.83        17.52        17.65         2.43        10.52 
TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 
       15.35        11.05         0.10        56.58        45.44        41.49 
TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 
       68.32        69.27        35.44        39.75        40.01        42.54 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-IK-7675 
       24.92        31.63        12.76        28.87        20.71        19.00 
TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY 
       14.40        14.40         0.23         6.71         7.99         2.37 
TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A5F6 
        2.30         9.44         5.88         7.96         7.59         1.28 
TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 
        0.23        10.42        13.25        11.64        10.95         9.01 
TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X 
       13.61         9.60         7.56        12.23        19.20         3.45 
TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X 
        2.37         4.41        15.16         2.53        12.62        15.85 
TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX 
       14.04        19.33        14.83        14.53        13.61        12.23 
TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 
       13.41         9.17        10.29        14.53        16.34        16.73 
TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK 
        1.91        16.50        16.70        11.08        12.99        88.83 
TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z TCGA-RY-A840 
       94.03        32.65        30.87         5.46         9.90        28.08 
TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TV 
        2.07        19.59        30.67        62.17        87.12        18.77 
TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 
       41.10        40.93        35.38        36.82        24.39        25.81 
TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA 
       29.85        32.61        35.15        98.24        95.93         5.85 
TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI 
      123.65        75.25       135.22        85.55        38.56        84.99 
TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP TCGA-S9-A6WQ 
       31.10        19.86        26.47        18.61        18.64        14.07 
TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 
       36.13         7.92        26.93        23.51        19.99        20.02 
TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY 
        8.19         2.04        20.68        15.06        18.54        28.37 
TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 
       27.16       169.84        10.39        99.06        30.05        98.63 
TCGA-S9-A7R8 TCGA-S9-A89Z TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA 
       31.59        20.48        54.77        48.33        49.32        34.78 
TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H 
       65.39        24.92        16.18        59.05        40.64        30.44 
TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q 
       28.08        24.16        40.83        24.79        33.24        25.38 
TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH 
       18.61        14.93        23.80        21.37        19.69        15.98 
TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP 
        2.04        40.41        44.09        33.73        31.20        30.05 
TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE 
       26.14        25.87        33.93        61.41        26.99        31.36 
TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE 
       45.93        43.20        13.51         0.10         7.89        39.16 
TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI 
       20.02        23.47        37.05        16.01        23.21         8.05 
TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B 
       51.06        13.32        43.96        39.88        43.40        45.80 
TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 TCGA-02-0003 TCGA-02-0006 
       46.88        37.71        20.81         7.63         4.73        18.35 
TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 
       23.18        10.59        35.41        82.59        20.61        87.06 
TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 
       77.65        20.12        53.10        42.74        24.59        12.16 
TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 
       90.58         2.83        14.14         3.62        10.72        10.52 
TCGA-02-0043 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 TCGA-02-0052 TCGA-02-0054 
       18.31         6.87        14.73         3.22        12.59         6.54 
TCGA-02-0055 TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 TCGA-02-0064 TCGA-02-0068 
        2.50        19.86         8.35         9.57        19.73        26.43 
TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 TCGA-02-0079 
       28.70        25.05         5.49        10.19        20.84        27.25 
TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 
       89.72        22.72        12.62        51.32         8.81        57.76 
TCGA-02-0089 TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0106 TCGA-02-0107 
       16.96         3.48        27.02        65.00        11.67        17.65 
TCGA-02-0111 TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 
       23.18        92.65        99.98        15.65        48.95        16.54 
TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 TCGA-02-0285 TCGA-02-0289 
       16.93        17.72        10.75        14.47        13.87        14.20 
TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 
       15.95        12.23         9.90         7.73        10.62         7.33 
TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 
       15.91        25.71         4.37        25.12        10.59        12.39 
TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 
       14.50        10.55        47.11        11.34         9.27        16.21 
TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 
        3.35        16.80        12.92        15.32        15.45        20.32 
TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 
        2.70         6.15        20.38        47.61         6.94         3.98 
TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 
       22.72        33.67        12.95        25.35        14.30        26.70 
TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 
       24.23        11.90         0.20        10.29         2.20        11.74 
TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 
        2.33        20.09        17.79        10.09         8.61        19.46 
TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 
       46.59        12.33        13.94        10.45         3.19        10.82 
TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 
        9.44        11.80         3.42        56.91        10.65         5.85 
TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 
       19.66         3.29        13.12         4.47         3.22         4.04 
TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 
       91.00         4.18        88.14        20.25         3.65        69.90 
TCGA-06-0185 TCGA-06-0187 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 
       73.84        27.22        15.42        10.42        38.96         4.67 
TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 
        7.40         5.56         0.39         7.66         8.42         7.40 
TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 
       11.84         0.53        15.02        24.16         0.72        19.82 
TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 
       13.64        13.32        20.42        48.69        10.82         9.01 
TCGA-06-0402 TCGA-06-0409 TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 TCGA-06-0644 
        0.26        72.36         4.70         9.57         3.16        12.62 
TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0743 
        5.75         5.75         9.80         2.10        23.57        26.40 
TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 
       46.88         7.86         2.70         2.70         0.92        43.46 
TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 
       46.19         7.17        40.41        16.57        20.78        26.76 
TCGA-06-1084 TCGA-06-1086 TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 
       23.93         6.84         4.04        26.79        11.84        15.32 
TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 
       13.61        33.90         1.08        12.49         4.93        17.65 
TCGA-06-2562 TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 
       12.56        30.64         5.95        16.64         5.98         4.37 
TCGA-06-2569 TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 
        0.43        31.50         7.79         5.39       120.56         7.36 
TCGA-08-0244 TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 
       22.68         4.18       115.86         1.74         8.42        25.71 
TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 
       12.16         9.80        29.23        65.33         1.28         8.42 
TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 
       17.95        24.56        31.10        37.58        22.29         3.39 
TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 
       12.23        14.93        18.02        15.35        13.97         0.72 
TCGA-08-0509 TCGA-08-0510 TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 
       12.56         4.27        42.15        11.08        19.59        58.68 
TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 
       19.33        10.75         4.80         7.27        15.98        18.41 
TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 
        7.56        14.73        12.99        34.92        10.45         7.59 
TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 
       94.78         0.10        38.17        25.97        26.66        12.13 
TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 
        3.65        20.38        28.41        15.06        53.85        43.23 
TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 
        7.63         9.73        14.93        14.86        91.76        24.79 
TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0826 TCGA-12-0827 TCGA-12-0828 
       18.48        10.62        23.51        27.78        38.76         8.94 
TCGA-12-0829 TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 
       20.58       127.59         5.82         7.59        33.21        15.98 
TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-14-0787 
       12.23        15.85         9.11        14.53         3.98         2.24 
TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 
       11.24         1.35         5.39        28.93        19.30         0.79 
TCGA-15-0742 TCGA-15-1444 TCGA-15-1446 TCGA-15-1447 TCGA-15-1449 TCGA-16-0846 
       13.78        50.53        19.10        53.19        13.28         3.91 
TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 
       26.07        16.37        11.77        21.90         0.66        10.75 
TCGA-19-1386 TCGA-19-1387 TCGA-19-1388 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 
        9.07         5.95        12.95         4.64        31.33        14.86 
TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 
        5.49         1.58         7.92         2.33         7.30         5.26 
TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 
       14.93        11.28        17.88        14.53        11.77        31.27 
TCGA-28-5214 TCGA-28-5215 TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 
       23.44        11.01        13.64         5.16        22.68        12.76 
TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 
        5.42         7.36        11.38         5.42         3.75         1.61 
TCGA-81-5911 TCGA-87-5896 
       17.72        26.30 

  20P LOSS MUTATED 20P LOSS WILD-TYPE 
              2.04               0.03 
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
             93.21             211.17 
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
            17.240             15.965 
[1] "2.0 - 93.2 (17.2)"  "0.0 - 211.2 (16.0)"
[1] "hr=" "1.3"
D77V2, continuous
D77V3, binary
                    cls
clus                   0   1
  20P LOSS MUTATED    19   7
  20P LOSS WILD-TYPE 554 505
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20P LOSS MUTATED     19    7
  20P LOSS WILD-TYPE  554  505
                        clus
vv                       20P LOSS MUTATED 20P LOSS WILD-TYPE
  BRAIN                                19                554
  CENTRAL NERVOUS SYSTEM                7                505
[1] 2 2
[1] FALSE
D77V4, binary
                    cls
clus                   0   1
  20P LOSS MUTATED    15  11
  20P LOSS WILD-TYPE 438 621
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20P LOSS MUTATED     15   11
  20P LOSS WILD-TYPE  438  621
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  FEMALE               15                438
  MALE                 11                621
[1] 2 2
[1] FALSE
D77V5, binary
                    cls
clus                   0   1
  20P LOSS MUTATED     3  23
  20P LOSS WILD-TYPE 255 747
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20P LOSS MUTATED      3   23
  20P LOSS WILD-TYPE  255  747
     clus
vv    20P LOSS MUTATED 20P LOSS WILD-TYPE
  NO                 3                255
  YES               23                747
[1] 2 2
[1] FALSE
D77V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  20P LOSS MUTATED             4                             1                2
  20P LOSS WILD-TYPE         190                            29              127
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  20P LOSS MUTATED                   1                   0
  20P LOSS WILD-TYPE               188                  18
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  20P LOSS MUTATED                                18
  20P LOSS WILD-TYPE                             507
D77V7, multiclass
                                 clus
vv                                20P LOSS MUTATED 20P LOSS WILD-TYPE
  ASTROCYTOMA                                    4                190
  GLIOBLASTOMA MULTIFORME (GBM)                  1                 29
  OLIGOASTROCYTOMA                               2                127
  OLIGODENDROGLIOMA                              1                188
  TREATED PRIMARY GBM                            0                 18
  UNTREATED PRIMARY (DE NOVO) GBM               18                507
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  20P LOSS MUTATED                                  0     2
  20P LOSS WILD-TYPE                                1    19
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  20P LOSS MUTATED                           3    21
  20P LOSS WILD-TYPE                        68   938
D77V8, multiclass
                                  clus
vv                                 20P LOSS MUTATED 20P LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           2                 19
  BLACK OR AFRICAN AMERICAN                       3                 68
  WHITE                                          21                938
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D77V9, binary
                    cls
clus                   0   1
  20P LOSS MUTATED     2  22
  20P LOSS WILD-TYPE  42 899
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20P LOSS MUTATED      2   22
  20P LOSS WILD-TYPE   42  899
                        clus
vv                       20P LOSS MUTATED 20P LOSS WILD-TYPE
  HISPANIC OR LATINO                    2                 42
  NOT HISPANIC OR LATINO               22                899
[1] 2 2
[1] FALSE

Clustering(78) Variable = 20Q LOSS MUTATION ANALYSIS
D78V1, survival
                    sevent
clus2                  0   1
  20Q LOSS MUTATED     6  15
  20Q LOSS WILD-TYPE 474 583
  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
                21               1057 
  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
                15                583 
$`20Q LOSS MUTATED`
TCGA-14-3477 TCGA-19-1390 TCGA-19-2629 TCGA-28-1750 TCGA-32-2494 TCGA-4W-AA9R 
        3.78        25.38        24.23         8.35        20.78         4.08 
TCGA-76-6285 TCGA-76-6286 TCGA-DU-5871 TCGA-E1-A7YH TCGA-HT-A618 TCGA-TQ-A7RM 
        8.35        20.98        18.94        93.21        16.83        36.69 
TCGA-02-0001 TCGA-02-0051 TCGA-02-0281 TCGA-06-0188 TCGA-06-0414 TCGA-06-0686 
       11.77        15.09         3.98        44.58        35.11        14.20 
TCGA-08-0245 TCGA-12-1099 TCGA-14-0867 
       37.84         4.14         2.04 

$`20Q LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K 
       42.05        62.01        17.16        23.90        20.09        17.82 
TCGA-FG-A713 TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M 
       20.45        18.64        21.40        45.60        42.77        59.38 
TCGA-06-1806 TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 
       15.32        11.74         3.55         8.35         4.54         8.81 
TCGA-06-5414 TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 
        8.98         8.55         6.71         2.73         3.75         6.15 
TCGA-06-5859 TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 
        4.57         5.23         8.32        12.85         4.77         1.55 
TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 
        4.77         4.96        26.79         1.87         3.12         2.56 
TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 
       14.60        17.72        15.35        21.73        15.65        25.68 
TCGA-12-1600 TCGA-12-1602 TCGA-12-3644 TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 
       14.73         6.77        59.77        44.02        26.93        15.22 
TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 TCGA-12-3653 TCGA-12-5295 TCGA-12-5299 
       10.95        12.69        34.92        14.53        14.93         3.22 
TCGA-12-5301 TCGA-14-0736 TCGA-14-0740 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 
        2.04        15.12        11.97         0.95         6.21        23.05 
TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 
       13.78         3.25         2.89        16.50        26.33        15.95 
TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 
        1.38         1.12         3.75        32.05        58.78        23.11 
TCGA-14-1452 TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 
        7.10         1.15        30.18         0.92        40.96         6.67 
TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 TCGA-14-1823 TCGA-14-1825 
       12.43         0.99         1.97        17.79        17.85         7.63 
TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-4157 TCGA-16-0848 
        5.88         7.17        17.49         7.96         3.42        17.59 
TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 
       29.03         4.57        10.29        14.01         9.14        21.24 
TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1392 
       13.97         6.41         8.61        14.27         3.39         3.65 
TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 
        7.17        12.66         3.25         0.13         9.67         4.87 
TCGA-19-2621 TCGA-19-2623 TCGA-19-2624 TCGA-19-2625 TCGA-19-2631 TCGA-19-4065 
        1.08         7.53         0.16         4.08         7.00         7.04 
TCGA-19-5947 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 
        6.64        17.19         8.02        18.90         4.73        12.10 
TCGA-19-5955 TCGA-19-5956 TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I 
        1.78        22.49        14.07        16.80        14.96        17.79 
TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 
       28.54        10.03        13.87         9.73         7.13         9.37 
TCGA-26-5132 TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 
        9.40         8.88        18.97        19.33         5.06        16.60 
TCGA-27-1832 TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 
        9.86        24.23        40.54        21.30        30.05        14.04 
TCGA-27-1838 TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 TCGA-27-2524 
       11.51        24.76        18.08        16.77        16.08         7.59 
TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 
        2.86        14.40        15.78         0.20         2.53         9.21 
TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 
        7.63         8.48         1.22         1.55         2.83         0.13 
TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 
        0.66         6.74         4.77        15.39        21.07         0.49 
TCGA-32-1977 TCGA-32-1978 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 
        0.10        15.85        19.50         1.18         4.67        12.69 
TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2495 TCGA-32-2615 TCGA-32-2632 
       14.86        16.93        12.23        15.02        15.95         8.84 
TCGA-32-2634 TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 
       22.78        25.18        21.14         3.72        12.59        19.86 
TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 
       10.85        19.23         0.85        13.35         8.94         9.53 
TCGA-41-3392 TCGA-41-3393 TCGA-41-3915 TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 
        0.99         4.44        11.84         0.20        15.12        12.46 
TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 
        1.45        25.58         3.45        20.91         4.34        14.33 
TCGA-74-6581 TCGA-74-6584 TCGA-76-4925 TCGA-76-4926 TCGA-76-4928 TCGA-76-4929 
        8.22         7.50         4.80         4.54         3.09         3.65 
TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 
        9.17         2.53        36.85        16.70         3.29         2.70 
TCGA-76-6282 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 
       17.06         4.83         5.03        23.90        34.45        18.64 
TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 
       36.20         5.92         6.28        20.55       117.50         7.69 
TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 
       43.89        36.36        60.10        40.18         0.26        21.01 
TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 
       53.62         6.38        17.69        26.76        37.38        46.95 
TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 
       48.30        49.94        49.12       122.73        81.96        75.25 
TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 
       47.93        72.92        50.86        91.13        44.52        36.56 
TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE 
       78.28        46.42        18.84        30.21        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P 
       33.57        72.95        31.63        24.20        25.48        30.12 
TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64W 
        5.98        31.40        27.45        27.81        29.23        14.40 
TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       18.51        12.10        11.24        17.88        30.74        16.18 
TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D 
       19.96        63.88        46.06        24.59        30.21        27.81 
TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU 
       17.19        17.19        54.25        23.21        17.46        13.71 
TCGA-DH-A7UV TCGA-DU-5847 TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 
       18.61        18.02        14.56        17.46         6.74        13.38 
TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 
        8.45         6.81       182.33        17.49        15.16       211.17 
TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 
       52.11        22.42        49.02        75.16        46.06        65.75 
TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 
        1.22        87.45         7.04        11.64       133.74        19.89 
TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 
       16.83        94.52       114.08         7.96         2.40        11.47 
TCGA-DU-7007 TCGA-DU-7008 TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 
       62.96       156.23       154.36        14.99       105.21         6.54 
TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 
        8.84       117.40        90.77        30.67        26.30        10.36 
TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 
        7.96        94.32        18.94        44.02        25.91        60.30 
TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 
       23.31        41.98         2.76         5.10        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-8168 
       20.68        21.40        19.13        16.96        15.48        14.17 
TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW 
       33.27        29.85        31.69        24.43        26.17        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       33.96        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA 
       11.41        26.76        21.30        17.98       139.04        84.33 
TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ 
       51.52        37.38         7.50        44.42        38.89         0.56 
TCGA-E1-5302 TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 
       50.14        67.46        41.13        79.99        57.93       134.27 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YE TCGA-E1-A7YI 
       78.21        95.57       130.78        14.30        29.13         3.65 
TCGA-E1-A7YJ TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ 
       19.46        12.43        16.18        21.30        75.02        51.88 
TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 
       15.32         0.76        32.45        36.82       146.14        13.08 
TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 
       73.48       145.05        32.35        39.48         0.23         0.20 
TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 
       47.77        25.48        52.21        36.82        18.77        14.93 
TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 
       42.54        41.33        18.44        15.35        17.88        22.55 
TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 
       20.61        20.09        28.34        13.68        14.24        16.01 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       14.96        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 
       18.71        23.70        14.76        21.53        15.02        16.44 
TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q 
       22.26        28.54        10.78        36.66        48.69         5.72 
TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 
       27.52         0.10         6.67        11.54        40.11         0.13 
TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 
        0.03        16.54         3.75        17.42         6.54        24.26 
TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 
        6.38        40.34        75.19        95.93       106.95       172.77 
TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 
        4.01         5.03        29.85        23.18       122.47         4.57 
TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 
       17.29         3.16        22.06        45.99        56.09        57.60 
TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
        0.23        14.27         0.16        16.24         0.76        44.68 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7690 
        6.05        42.74         0.10        31.69        14.96         0.10 
TCGA-HT-7691 TCGA-HT-7692 TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 
        0.10         2.96        17.52         6.90        14.53        39.48 
TCGA-HT-7855 TCGA-HT-7856 TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 
       19.23        39.09         0.23        50.63         0.49        23.61 
TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
       37.15         0.33         0.13         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 
        3.72        11.28        31.43         1.64        16.24         9.40 
TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 
       63.55         0.10        37.87        33.01        12.23         6.25 
TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 
        0.10         0.46         2.50         5.56        13.78         0.23 
TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV 
       29.59        34.19        28.27        15.72         0.23        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC 
        0.13        20.22         0.07        27.35         0.10         5.33 
TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A61B TCGA-HT-A61C 
        2.70        16.93         1.81        16.14        17.52        17.65 
TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
        2.43        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 
       45.44        41.49        68.32        69.27        35.44        39.75 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL 
       40.01        42.54        24.92        31.63        12.76        28.87 
TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW 
       20.71        19.00        14.40        14.40         0.23         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        7.99         2.37         2.30         9.44         5.88         7.96 
TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72U TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z 
        7.59         1.28         0.23        10.42        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77W TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S 
       19.20         3.45         2.37         4.41        15.16         2.53 
TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV 
       12.62        15.85        14.04        19.33        14.83        14.53 
TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 
       13.61        12.23        13.41         9.17        10.29        14.53 
TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X 
       16.34        16.73         1.91        16.50        16.70        11.08 
TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y 
       12.99        88.83        94.03        32.65        30.87         5.46 
TCGA-RY-A83Z TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS 
        9.90        28.08         2.07        19.59        30.67        62.17 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ 
       87.12        18.77        41.10        40.93        35.38        36.82 
TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       24.39        25.81        29.85        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG 
       95.93         5.85       123.65        75.25       135.22        85.55 
TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO 
       38.56        84.99        31.10        19.86        26.47        18.61 
TCGA-S9-A6WP TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY 
       18.64        14.07        36.13         7.92        26.93        23.51 
TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW 
       19.99        20.02         8.19         2.04        20.68        15.06 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       18.54        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A7C3 
       30.05        98.63        31.59        18.71        20.48        54.77 
TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C 
       48.33        49.32        34.78        65.39        24.92        16.18 
TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       59.05        40.64        30.44        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR TCGA-TQ-A7RU 
       33.73        31.20        30.05        26.14        25.87        33.93 
TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA 
       61.41        26.99        31.36        45.93        43.20        13.51 
TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A829 
        0.10         7.89        39.16        20.02        23.47        37.05 
TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 
       16.01        23.21         8.05        51.06        13.32        43.96 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E 
       39.88        43.40        45.80        46.88        37.71        20.81 
TCGA-06-0209 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 TCGA-02-0009 TCGA-02-0010 
        7.63         4.73        18.35        23.18        10.59        35.41 
TCGA-02-0011 TCGA-02-0014 TCGA-02-0015 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 
       20.71        82.59        20.61        87.06        77.65        20.12 
TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 
       53.10        42.74        24.59        12.16        90.58         2.83 
TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 
       14.14         3.62        10.72        10.52        18.31         6.87 
TCGA-02-0047 TCGA-02-0048 TCGA-02-0052 TCGA-02-0054 TCGA-02-0055 TCGA-02-0057 
       14.73         3.22        12.59         6.54         2.50        19.86 
TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 
        8.35         9.57         6.02        19.73        26.43        28.70 
TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 TCGA-02-0079 TCGA-02-0080 
       25.05         5.49        10.19        20.84        27.25        89.72 
TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 
       22.72        12.62        51.32         8.81        57.76        16.96 
TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 
        3.48        27.02        65.00        11.67        17.65        23.18 
TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 
       92.65        99.98        15.65        48.95        16.54        16.93 
TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 
       17.72        10.75        14.47        13.87        14.20        15.95 
TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 
       12.23         9.90         7.73        10.62         7.33        15.91 
TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0339 TCGA-02-0422 
       25.71         4.37        25.12        10.59        12.39        14.50 
TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 
       10.55        47.11        11.34         9.27        16.21         3.35 
TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 
       16.80        12.92        15.32        15.45        20.32         2.70 
TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 
        6.15        20.38        47.61         6.94         3.98        22.72 
TCGA-06-0129 TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 
       33.67        12.95        25.35        14.30        26.70        24.23 
TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 
       11.90         0.20        10.29         2.20        11.74         2.33 
TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 
       20.09        17.79        10.09         8.61        19.46        46.59 
TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0159 
       12.33        13.94        10.45         3.19        10.82         9.44 
TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 
       11.80         3.42        56.91        10.65         5.85        19.66 
TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 
        3.29        13.12         4.47         3.22         4.04        91.00 
TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 TCGA-06-0185 
        4.18        88.14        20.25         3.65        69.90        73.84 
TCGA-06-0187 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 
       27.22        15.42        10.42        38.96         4.67         7.40 
TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 
        5.56         0.39         7.66         8.42         7.40        11.84 
TCGA-06-0213 TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 
        0.53        15.02        24.16         0.72        19.82        13.64 
TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 
       13.32        20.42        48.69        10.82         9.01         0.26 
TCGA-06-0409 TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 TCGA-06-0644 TCGA-06-0645 
       72.36         4.70         9.57         3.16        12.62         5.75 
TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0743 TCGA-06-0744 
        5.75         9.80         2.10        23.57        26.40        46.88 
TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0875 TCGA-06-0876 
        7.86         2.70         2.70         0.92        43.46        46.19 
TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 
        7.17        40.41        16.57        20.78        26.76        23.93 
TCGA-06-1086 TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 
        6.84         4.04        26.79        11.84        15.32        13.61 
TCGA-06-1805 TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 
       33.90         1.08        12.49         4.93        17.65        12.56 
TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 
       30.64         5.95        16.64         5.98         4.37         0.43 
TCGA-06-2570 TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 TCGA-06-6694 TCGA-08-0244 
       31.50         7.79         5.39       120.56         7.36        22.68 
TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 
        4.18       115.86         1.74         8.42        25.71        12.16 
TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 
        9.80        29.23        65.33         1.28         8.42        17.95 
TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 
       24.56        31.10        37.58        22.29         3.39        12.23 
TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 
       14.93        18.02        15.35        13.97         0.72        12.56 
TCGA-08-0510 TCGA-08-0512 TCGA-08-0514 TCGA-08-0516 TCGA-08-0517 TCGA-08-0518 
        4.27        42.15        11.08        19.59        58.68        19.33 
TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 
       10.75         4.80         7.27        15.98        18.41         7.56 
TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 TCGA-12-0656 
       14.73        12.99        34.92        10.45         7.59        94.78 
TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 
        0.10        38.17        25.97        26.66        12.13         3.65 
TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 
       20.38        28.41        15.06        53.85        43.23         7.63 
TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 TCGA-12-0820 
        9.73        14.93        14.86        91.76        24.79        18.48 
TCGA-12-0821 TCGA-12-0822 TCGA-12-0826 TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 
       10.62        23.51        27.78        38.76         8.94        20.58 
TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 
      127.59         5.82         7.59        33.21        15.98        12.23 
TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-14-0787 TCGA-14-0789 
       15.85         9.11        14.53         3.98         2.24        11.24 
TCGA-14-0813 TCGA-14-0817 TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-0742 
        1.35         5.39        28.93        19.30         0.79        13.78 
TCGA-15-1444 TCGA-15-1446 TCGA-15-1447 TCGA-15-1449 TCGA-16-0846 TCGA-16-0849 
       50.53        19.10        53.19        13.28         3.91        26.07 
TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 
       16.37        11.77        21.90         0.66        10.75         9.07 
TCGA-19-1387 TCGA-19-1388 TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 
        5.95        12.95         4.64        31.33        14.86         5.49 
TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 
        1.58         7.92         2.33         7.30         5.26        14.93 
TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 
       11.28        17.88        14.53        11.77        31.27        23.44 
TCGA-28-5215 TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 
       11.01        13.64         5.16        22.68        12.76         5.42 
TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 
        7.36        11.38         5.42         3.75         1.61        17.72 
TCGA-87-5896 
       26.30 

  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
              2.04               0.03 
  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
             93.21             211.17 
  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
             16.83              15.98 
[1] "2.0 - 93.2 (16.8)"  "0.0 - 211.2 (16.0)"
[1] "hr=" "1.4"
D78V2, continuous
D78V3, binary
                    cls
clus                   0   1
  20Q LOSS MUTATED    17   4
  20Q LOSS WILD-TYPE 556 508
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20Q LOSS MUTATED     17    4
  20Q LOSS WILD-TYPE  556  508
                        clus
vv                       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  BRAIN                                17                556
  CENTRAL NERVOUS SYSTEM                4                508
[1] 2 2
[1] FALSE
D78V4, binary
                    cls
clus                   0   1
  20Q LOSS MUTATED    13   8
  20Q LOSS WILD-TYPE 440 624
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20Q LOSS MUTATED     13    8
  20Q LOSS WILD-TYPE  440  624
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  FEMALE               13                440
  MALE                  8                624
[1] 2 2
[1] FALSE
D78V5, binary
                    cls
clus                   0   1
  20Q LOSS MUTATED     4  17
  20Q LOSS WILD-TYPE 254 753
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20Q LOSS MUTATED      4   17
  20Q LOSS WILD-TYPE  254  753
     clus
vv    20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  NO                 4                254
  YES               17                753
[1] 2 2
[1] FALSE
D78V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  20Q LOSS MUTATED             2                             1                2
  20Q LOSS WILD-TYPE         192                            29              127
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  20Q LOSS MUTATED                   0                   0
  20Q LOSS WILD-TYPE               189                  18
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  20Q LOSS MUTATED                                16
  20Q LOSS WILD-TYPE                             509
D78V7, multiclass
                                 clus
vv                                20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  ASTROCYTOMA                                    2                192
  GLIOBLASTOMA MULTIFORME (GBM)                  1                 29
  OLIGOASTROCYTOMA                               2                127
  OLIGODENDROGLIOMA                              0                189
  TREATED PRIMARY GBM                            0                 18
  UNTREATED PRIMARY (DE NOVO) GBM               16                509
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  20Q LOSS MUTATED                                  0     0
  20Q LOSS WILD-TYPE                                1    21
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  20Q LOSS MUTATED                           3    18
  20Q LOSS WILD-TYPE                        68   941
D78V8, multiclass
                                  clus
vv                                 20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           0                 21
  BLACK OR AFRICAN AMERICAN                       3                 68
  WHITE                                          18                941
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D78V9, binary
                    cls
clus                   0   1
  20Q LOSS MUTATED     1  18
  20Q LOSS WILD-TYPE  43 903
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  20Q LOSS MUTATED      1   18
  20Q LOSS WILD-TYPE   43  903
                        clus
vv                       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  HISPANIC OR LATINO                    1                 43
  NOT HISPANIC OR LATINO               18                903
[1] 2 2
[1] FALSE

Clustering(79) Variable = 21Q LOSS MUTATION ANALYSIS
D79V1, survival
                    sevent
clus2                  0   1
  21Q LOSS MUTATED    34  44
  21Q LOSS WILD-TYPE 446 554
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                78               1000 
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                44                554 
$`21Q LOSS MUTATED`
TCGA-HW-7490 TCGA-06-A7TL TCGA-12-1600 TCGA-12-3653 TCGA-12-5295 TCGA-14-0740 
       45.60        17.72        14.73        14.53        14.93        11.97 
TCGA-14-1823 TCGA-14-3477 TCGA-16-0848 TCGA-19-0960 TCGA-19-2629 TCGA-27-2521 
       17.85         3.78        17.59         8.61        24.23        16.77 
TCGA-32-1978 TCGA-32-4210 TCGA-41-3392 TCGA-76-4925 TCGA-76-4934 TCGA-CS-4943 
       15.85         3.72         0.99         4.80         2.53        36.36 
TCGA-DB-5279 TCGA-DB-A75L TCGA-DH-5140 TCGA-DH-5142 TCGA-DU-5871 TCGA-DU-7010 
       44.52        11.24        19.96        63.88        18.94        14.99 
TCGA-DU-8165 TCGA-DU-8167 TCGA-DU-A5TU TCGA-DU-A7TA TCGA-E1-5307 TCGA-E1-A7YE 
       19.13        15.48        26.17        84.33        57.93        29.13 
TCGA-E1-A7YH TCGA-E1-A7YK TCGA-E1-A7Z4 TCGA-FG-7636 TCGA-FG-A60J TCGA-HT-7689 
       93.21        12.43       145.05        17.88        14.76        14.96 
TCGA-HT-7857 TCGA-HT-7902 TCGA-HT-8106 TCGA-HT-8564 TCGA-HT-A61B TCGA-P5-A5EV 
        0.23        31.43         0.10        15.72        17.52         0.23 
TCGA-P5-A5EW TCGA-P5-A5EZ TCGA-P5-A5F4 TCGA-P5-A5F6 TCGA-P5-A72W TCGA-P5-A77W 
        6.71         2.30         7.59         1.28        10.42        19.20 
TCGA-S9-A89Z TCGA-TM-A84Q TCGA-TQ-A7RR TCGA-VM-A8CF TCGA-06-0209 TCGA-02-0011 
       20.48        25.38        25.87        20.02         7.63        20.71 
TCGA-02-0015 TCGA-02-0051 TCGA-02-0106 TCGA-02-0114 TCGA-02-0266 TCGA-02-0281 
       20.61        15.09        11.67        99.98        17.72         3.98 
TCGA-02-0339 TCGA-06-0150 TCGA-06-0221 TCGA-06-0402 TCGA-06-0414 TCGA-06-0648 
       12.39        19.46        19.82         0.26        35.11         9.80 
TCGA-06-0875 TCGA-06-6389 TCGA-06-6693 TCGA-06-6694 TCGA-08-0516 TCGA-12-0826 
       43.46         7.79       120.56         7.36        19.59        27.78 
TCGA-12-0827 TCGA-12-1099 TCGA-14-0817 TCGA-15-0742 TCGA-16-0850 TCGA-28-2514 
       38.76         4.14         5.39        13.78        16.37         5.26 

$`21Q LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K 
       42.05        62.01        17.16        23.90        20.09        17.82 
TCGA-FG-A713 TCGA-FG-A87N TCGA-HT-A619 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 
       20.45        18.64        21.40        42.77        59.38        15.32 
TCGA-06-5408 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 
       11.74         3.55         8.35         4.54         8.81         8.98 
TCGA-06-5415 TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5858 TCGA-06-5859 
        8.55         6.71         2.73         3.75         6.15         4.57 
TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 TCGA-06-6700 
        5.23         8.32        12.85         4.77         1.55         4.77 
TCGA-06-6701 TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S0 TCGA-06-A6S1 TCGA-06-A7TK 
        4.96        26.79         1.87         3.12         2.56        14.60 
TCGA-12-0615 TCGA-12-1092 TCGA-12-1598 TCGA-12-1599 TCGA-12-1602 TCGA-12-3644 
       15.35        21.73        15.65        25.68         6.77        59.77 
TCGA-12-3646 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 TCGA-12-3651 TCGA-12-3652 
       44.02        26.93        15.22        10.95        12.69        34.92 
TCGA-12-5299 TCGA-12-5301 TCGA-14-0736 TCGA-14-0781 TCGA-14-0783 TCGA-14-0786 
        3.22         2.04        15.12         0.95         6.21        23.05 
TCGA-14-0790 TCGA-14-0812 TCGA-14-0862 TCGA-14-0865 TCGA-14-0866 TCGA-14-1034 
       13.78         3.25         2.89        16.50        26.33        15.95 
TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 
        1.38         1.12         3.75        32.05        58.78        23.11 
TCGA-14-1452 TCGA-14-1453 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 
        7.10         1.15        30.18         0.92        40.96         6.67 
TCGA-14-1459 TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 TCGA-14-1825 TCGA-14-1827 
       12.43         0.99         1.97        17.79         7.63         5.88 
TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-4157 TCGA-16-1045 TCGA-16-1047 
        7.17        17.49         7.96         3.42        29.03         4.57 
TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 
       10.29        14.01         9.14        21.24        13.97         6.41 
TCGA-19-0963 TCGA-19-0964 TCGA-19-1390 TCGA-19-1392 TCGA-19-1786 TCGA-19-1787 
       14.27         3.39        25.38         3.65         7.17        12.66 
TCGA-19-1789 TCGA-19-1791 TCGA-19-2619 TCGA-19-2620 TCGA-19-2621 TCGA-19-2623 
        3.25         0.13         9.67         4.87         1.08         7.53 
TCGA-19-2624 TCGA-19-2625 TCGA-19-2631 TCGA-19-4065 TCGA-19-5947 TCGA-19-5950 
        0.16         4.08         7.00         7.04         6.64        17.19 
TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5956 
        8.02        18.90         4.73        12.10         1.78        22.49 
TCGA-19-5958 TCGA-19-5959 TCGA-19-5960 TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 
       14.07        16.80        14.96        17.79        28.54        10.03 
TCGA-26-1439 TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 
       13.87         9.73         7.13         9.37         9.40         8.88 
TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 
       18.97        19.33         5.06        16.60         9.86        24.23 
TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 
       40.54        21.30        30.05        14.04        11.51        24.76 
TCGA-27-2519 TCGA-27-2523 TCGA-27-2524 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 
       18.08        16.08         7.59         2.86        14.40        15.78 
TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 TCGA-28-1751 TCGA-28-1752 
        0.20         2.53         9.21         8.35         7.63         8.48 
TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 
        1.22         1.55         2.83         0.13         0.66         6.74 
TCGA-28-2509 TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 TCGA-32-1977 TCGA-32-1979 
        4.77        15.39        21.07         0.49         0.10        19.50 
TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 
        1.18         4.67        12.69        14.86        16.93        12.23 
TCGA-32-2494 TCGA-32-2495 TCGA-32-2615 TCGA-32-2632 TCGA-32-2634 TCGA-32-2638 
       20.78        15.02        15.95         8.84        22.78        25.18 
TCGA-32-4208 TCGA-32-4211 TCGA-32-4213 TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 
       21.14        12.59        19.86        10.85        19.23         0.85 
TCGA-41-2572 TCGA-41-2573 TCGA-41-2575 TCGA-41-3393 TCGA-41-3915 TCGA-41-4097 
       13.35         8.94         9.53         4.44        11.84         0.20 
TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9R TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 
       15.12        12.46         4.08         1.45        25.58         3.45 
TCGA-74-6575 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4926 
       20.91         4.34        14.33         8.22         7.50         4.54 
TCGA-76-4928 TCGA-76-4929 TCGA-76-4931 TCGA-76-4935 TCGA-76-6191 TCGA-76-6192 
        3.09         3.65         9.17        36.85        16.70         3.29 
TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 TCGA-76-6657 
        2.70        17.06         8.35        20.98         4.83         5.03 
TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-OX-A56R TCGA-RR-A6KA 
       23.90        34.45        18.64        36.20         5.92         6.28 
TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4944 TCGA-CS-5393 
       20.55       117.50         7.69        43.89        60.10        40.18 
TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 
        0.26        21.01        53.62         6.38        17.69        26.76 
TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 
       37.38        46.95        48.30        49.94        49.12       122.73 
TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 
       81.96        75.25        47.93        72.92        50.86        91.13 
TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD 
       36.56        78.28        46.42        18.84        30.21        39.78 
TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A4XH TCGA-DB-A64L TCGA-DB-A64O 
       37.45        33.57        72.95        31.63        24.20        25.48 
TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V 
       30.12         5.98        31.40        27.45        27.81        29.23 
TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P 
       14.40        18.51        12.10        17.88        30.74        16.18 
TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G 
       46.06        24.59        30.21        27.81        17.19        17.19 
TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5847 
       54.25        23.21        17.46        13.71        18.61        18.02 
TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 
       14.56        17.46         6.74        13.38         8.45         6.81 
TCGA-DU-5870 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 
      182.33        17.49        15.16       211.17        52.11        22.42 
TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 
       49.02        75.16        46.06        65.75         1.22        87.45 
TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 
        7.04        11.64       133.74        19.89        16.83        94.52 
TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7008 
      114.08         7.96         2.40        11.47        62.96       156.23 
TCGA-DU-7009 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 
      154.36       105.21         6.54         8.84       117.40        90.77 
TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7298 
       30.67        26.30        10.36         7.96        94.32        18.94 
TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 
       44.02        25.91        60.30        23.31        41.98         2.76 
TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8166 
        5.10        23.74        14.60        20.68        21.40        16.96 
TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TW 
       14.17        33.27        29.85        31.69        24.43        24.99 
TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       33.96        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TB 
       11.41        26.76        21.30        17.98       139.04        51.52 
TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 
       37.38         7.50        44.42        38.89         0.56        50.14 
TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 
       67.46        41.13        79.99       134.27        78.21        95.57 
TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YL TCGA-E1-A7YM 
      130.78        14.30         3.65        19.46        16.18        21.30 
TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YS TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW 
       75.02        51.88        15.32         0.76        32.45        36.82 
TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 
      146.14        13.08        73.48        32.35        39.48         0.23 
TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 
        0.20        47.77        25.48        52.21        36.82        18.77 
TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7638 
       14.93        42.54        41.33        18.44        15.35        22.55 
TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 
       20.61        20.09        28.34        13.68        14.24        16.01 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       14.96        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60L TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 
       18.71        23.70        21.53        15.02        16.44        22.26 
TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 
       28.54        10.78        36.66        48.69         5.72        27.52 
TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 
        0.10         6.67        11.54        40.11         0.13         0.03 
TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7478 
       16.54         3.75        17.42         6.54        24.26         6.38 
TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 TCGA-HT-7483 TCGA-HT-7485 
       40.34        75.19        95.93       106.95       172.77         4.01 
TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 TCGA-HT-7605 TCGA-HT-7606 
        5.03        29.85        23.18       122.47         4.57        17.29 
TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 TCGA-HT-7611 TCGA-HT-7616 
        3.16        22.06        45.99        56.09        57.60         0.23 
TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 
       14.27         0.16        16.24         0.76        44.68         6.05 
TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7690 TCGA-HT-7691 TCGA-HT-7692 
       42.74         0.10        31.69         0.10         0.10         2.96 
TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 
       17.52         6.90        14.53        39.48        19.23        39.09 
TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 
       50.63         0.49        23.61        37.15         0.33         0.13 
TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-8010 
        3.68         5.33        35.47         3.72        11.28         1.64 
TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 
       16.24         9.40        63.55         0.10        37.87        33.01 
TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 
       12.23         6.25         0.46         2.50         5.56        13.78 
TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-A4DS TCGA-HT-A4DV 
        0.23        29.59        34.19        28.27         0.23        26.04 
TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC 
        0.13        20.22         0.07        27.35         0.10         5.33 
TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 TCGA-HT-A61C 
        2.70        16.93         1.81        16.14        16.83        17.65 
TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O TCGA-HW-7486 
        2.43        10.52        15.35        11.05         0.10        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 
       45.44        41.49        68.32        69.27        35.44        39.75 
TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL 
       40.01        42.54        24.92        31.63        12.76        28.87 
TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EX TCGA-P5-A5EY 
       20.71        19.00        14.40        14.40         7.99         2.37 
TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 TCGA-P5-A72U TCGA-P5-A72X TCGA-P5-A72Z 
        9.44         5.88         7.96         0.23        13.25        11.64 
TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 
       10.95         9.01        13.61         9.60         7.56        12.23 
TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V 
        3.45         2.37         4.41        15.16         2.53        12.62 
TCGA-QH-A65X TCGA-QH-A65Z TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW 
       15.85        14.04        19.33        14.83        14.53        13.61 
TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 
       12.23        13.41         9.17        10.29        14.53        16.34 
TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 
       16.73         1.91        16.50        16.70        11.08        12.99 
TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A83Z 
       88.83        94.03        32.65        30.87         5.46         9.90 
TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU 
       28.08         2.07        19.59        30.67        62.17        87.12 
TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       18.77        41.10        40.93        35.38        36.82        24.39 
TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 
       25.81        29.85        32.61        35.15        98.24        95.93 
TCGA-S9-A6UA TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH 
        5.85       123.65        75.25       135.22        85.55        38.56 
TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP 
       84.99        31.10        19.86        26.47        18.61        18.64 
TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7IZ 
       14.07        36.13         7.92        26.93        23.51        19.99 
TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX 
       20.02         8.19         2.04        20.68        15.06        18.54 
TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 
       28.37        27.16       169.84        10.39        99.06        30.05 
TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-S9-A89V TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 
       98.63        31.59        18.71        54.77        48.33        49.32 
TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G 
       34.78        65.39        24.92        16.18        59.05        40.64 
TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O 
       30.44        28.08        24.16        40.83        24.79        33.24 
TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH 
       18.61        14.93        23.80        21.37        19.69        15.98 
TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO 
        2.04        40.41        44.09        36.69        33.73        31.20 
TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A7RW TCGA-TQ-A8XE 
       30.05        26.14        33.93        61.41        26.99        31.36 
TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CD TCGA-VM-A8CE 
       45.93        43.20        13.51         0.10         7.89        39.16 
TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 
       23.47        37.05        16.01        23.21         8.05        51.06 
TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B TCGA-WY-A85C 
       13.32        43.96        39.88        43.40        45.80        46.88 
TCGA-WY-A85D TCGA-WY-A85E TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0007 
       37.71        20.81        11.77         4.73        18.35        23.18 
TCGA-02-0009 TCGA-02-0010 TCGA-02-0014 TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 
       10.59        35.41        82.59        87.06        77.65        20.12 
TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 TCGA-02-0027 TCGA-02-0028 TCGA-02-0033 
       53.10        42.74        24.59        12.16        90.58         2.83 
TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0039 TCGA-02-0043 TCGA-02-0046 
       14.14         3.62        10.72        10.52        18.31         6.87 
TCGA-02-0047 TCGA-02-0048 TCGA-02-0052 TCGA-02-0054 TCGA-02-0055 TCGA-02-0057 
       14.73         3.22        12.59         6.54         2.50        19.86 
TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 
        8.35         9.57         6.02        19.73        26.43        28.70 
TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 TCGA-02-0079 TCGA-02-0080 
       25.05         5.49        10.19        20.84        27.25        89.72 
TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 
       22.72        12.62        51.32         8.81        57.76        16.96 
TCGA-02-0099 TCGA-02-0102 TCGA-02-0104 TCGA-02-0107 TCGA-02-0111 TCGA-02-0113 
        3.48        27.02        65.00        17.65        23.18        92.65 
TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0269 TCGA-02-0271 
       15.65        48.95        16.54        16.93        10.75        14.47 
TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 
       13.87        14.20        15.95        12.23         9.90         7.73 
TCGA-02-0325 TCGA-02-0326 TCGA-02-0330 TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 
       10.62         7.33        15.91        25.71         4.37        25.12 
TCGA-02-0338 TCGA-02-0422 TCGA-02-0430 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 
       10.59        14.50        10.55        47.11        11.34         9.27 
TCGA-02-0451 TCGA-02-0456 TCGA-02-2466 TCGA-02-2470 TCGA-02-2483 TCGA-02-2485 
       16.21         3.35        16.80        12.92        15.32        15.45 
TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 
       20.32         2.70         6.15        20.38        47.61         6.94 
TCGA-06-0127 TCGA-06-0128 TCGA-06-0129 TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 
        3.98        22.72        33.67        12.95        25.35        14.30 
TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 
       26.70        24.23        11.90         0.20        10.29         2.20 
TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 
       11.74         2.33        20.09        17.79        10.09         8.61 
TCGA-06-0151 TCGA-06-0152 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 
       46.59        12.33        13.94        10.45         3.19        10.82 
TCGA-06-0159 TCGA-06-0160 TCGA-06-0162 TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 
        9.44        11.80         3.42        56.91        10.65         5.85 
TCGA-06-0168 TCGA-06-0169 TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 
       19.66         3.29        13.12         4.47         3.22         4.04 
TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0184 
       91.00         4.18        88.14        20.25         3.65        69.90 
TCGA-06-0185 TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 
       73.84        27.22        44.58        15.42        10.42        38.96 
TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 
        4.67         7.40         5.56         0.39         7.66         8.42 
TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 TCGA-06-0214 TCGA-06-0216 TCGA-06-0219 
        7.40        11.84         0.53        15.02        24.16         0.72 
TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 
       13.64        13.32        20.42        48.69        10.82         9.01 
TCGA-06-0409 TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 TCGA-06-0644 TCGA-06-0645 
       72.36         4.70         9.57         3.16        12.62         5.75 
TCGA-06-0646 TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 
        5.75         2.10        23.57        14.20        26.40        46.88 
TCGA-06-0745 TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0876 TCGA-06-0878 
        7.86         2.70         2.70         0.92        46.19         7.17 
TCGA-06-0879 TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 
       40.41        16.57        20.78        26.76        23.93         6.84 
TCGA-06-1087 TCGA-06-1800 TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 
        4.04        26.79        11.84        15.32        13.61        33.90 
TCGA-06-2557 TCGA-06-2558 TCGA-06-2559 TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 
        1.08        12.49         4.93        17.65        12.56        30.64 
TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2569 TCGA-06-2570 
        5.95        16.64         5.98         4.37         0.43        31.50 
TCGA-06-6390 TCGA-08-0244 TCGA-08-0245 TCGA-08-0246 TCGA-08-0344 TCGA-08-0345 
        5.39        22.68        37.84         4.18       115.86         1.74 
TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 
        8.42        25.71        12.16         9.80        29.23        65.33 
TCGA-08-0352 TCGA-08-0353 TCGA-08-0354 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 
        1.28         8.42        17.95        24.56        31.10        37.58 
TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 TCGA-08-0389 
       22.29         3.39        12.23        14.93        18.02        15.35 
TCGA-08-0390 TCGA-08-0392 TCGA-08-0509 TCGA-08-0510 TCGA-08-0512 TCGA-08-0514 
       13.97         0.72        12.56         4.27        42.15        11.08 
TCGA-08-0517 TCGA-08-0518 TCGA-08-0520 TCGA-08-0521 TCGA-08-0524 TCGA-08-0525 
       58.68        19.33        10.75         4.80         7.27        15.98 
TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 
       18.41         7.56        14.73        12.99        34.92        10.45 
TCGA-12-0654 TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 
        7.59        94.78         0.10        38.17        25.97        26.66 
TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 
       12.13         3.65        20.38        28.41        15.06        53.85 
TCGA-12-0773 TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 
       43.23         7.63         9.73        14.93        14.86        91.76 
TCGA-12-0819 TCGA-12-0820 TCGA-12-0821 TCGA-12-0822 TCGA-12-0828 TCGA-12-0829 
       24.79        18.48        10.62        23.51         8.94        20.58 
TCGA-12-1088 TCGA-12-1089 TCGA-12-1090 TCGA-12-1091 TCGA-12-1093 TCGA-12-1094 
      127.59         5.82         7.59        33.21        15.98        12.23 
TCGA-12-1095 TCGA-12-1096 TCGA-12-1097 TCGA-12-1098 TCGA-14-0787 TCGA-14-0789 
       15.85         9.11        14.53         3.98         2.24        11.24 
TCGA-14-0813 TCGA-14-0867 TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-1444 
        1.35         2.04        28.93        19.30         0.79        50.53 
TCGA-15-1446 TCGA-15-1447 TCGA-15-1449 TCGA-16-0846 TCGA-16-0849 TCGA-19-0955 
       19.10        53.19        13.28         3.91        26.07        11.77 
TCGA-19-0957 TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1388 
       21.90         0.66        10.75         9.07         5.95        12.95 
TCGA-19-1389 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 
        4.64        31.33        14.86         5.49         1.58         7.92 
TCGA-26-6174 TCGA-28-2513 TCGA-28-5204 TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 
        2.33         7.30        14.93        11.28        17.88        14.53 
TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5215 TCGA-28-5216 TCGA-28-5218 
       11.77        31.27        23.44        11.01        13.64         5.16 
TCGA-28-5219 TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 TCGA-76-6283 
       22.68        12.76         5.42         7.36        11.38         5.42 
TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        3.75         1.61        17.72        26.30 

  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
              0.10               0.03 
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
            145.05             211.17 
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
             16.11              15.98 
[1] "0.1 - 145.1 (16.1)" "0.0 - 211.2 (16.0)"
[1] "hr=" "1.1"
D79V2, continuous
D79V3, binary
                    cls
clus                   0   1
  21Q LOSS MUTATED    42  36
  21Q LOSS WILD-TYPE 531 476
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  21Q LOSS MUTATED     42   36
  21Q LOSS WILD-TYPE  531  476
                        clus
vv                       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  BRAIN                                42                531
  CENTRAL NERVOUS SYSTEM               36                476
[1] 2 2
[1] FALSE
D79V4, binary
                    cls
clus                   0   1
  21Q LOSS MUTATED    37  41
  21Q LOSS WILD-TYPE 416 591
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  21Q LOSS MUTATED     37   41
  21Q LOSS WILD-TYPE  416  591
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  FEMALE               37                416
  MALE                 41                591
[1] 2 2
[1] FALSE
D79V5, binary
                    cls
clus                   0   1
  21Q LOSS MUTATED    14  57
  21Q LOSS WILD-TYPE 244 713
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  21Q LOSS MUTATED     14   57
  21Q LOSS WILD-TYPE  244  713
     clus
vv    21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  NO                14                244
  YES               57                713
[1] 2 2
[1] FALSE
D79V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  21Q LOSS MUTATED            23                             2                7
  21Q LOSS WILD-TYPE         171                            28              122
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  21Q LOSS MUTATED                   6                   1
  21Q LOSS WILD-TYPE               183                  17
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  21Q LOSS MUTATED                                39
  21Q LOSS WILD-TYPE                             486
D79V7, multiclass
                                 clus
vv                                21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  ASTROCYTOMA                                   23                171
  GLIOBLASTOMA MULTIFORME (GBM)                  2                 28
  OLIGOASTROCYTOMA                               7                122
  OLIGODENDROGLIOMA                              6                183
  TREATED PRIMARY GBM                            1                 17
  UNTREATED PRIMARY (DE NOVO) GBM               39                486
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  21Q LOSS MUTATED                                  0     1
  21Q LOSS WILD-TYPE                                1    20
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  21Q LOSS MUTATED                           3    72
  21Q LOSS WILD-TYPE                        68   887
D79V8, multiclass
                                  clus
vv                                 21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                0                  1
  ASIAN                                           1                 20
  BLACK OR AFRICAN AMERICAN                       3                 68
  WHITE                                          72                887
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D79V9, binary
                    cls
clus                   0   1
  21Q LOSS MUTATED     4  67
  21Q LOSS WILD-TYPE  40 854
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  21Q LOSS MUTATED      4   67
  21Q LOSS WILD-TYPE   40  854
                        clus
vv                       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  HISPANIC OR LATINO                    4                 40
  NOT HISPANIC OR LATINO               67                854
[1] 2 2
[1] FALSE

Clustering(80) Variable = 22Q LOSS MUTATION ANALYSIS
D80V1, survival
                    sevent
clus2                  0   1
  22Q LOSS MUTATED    58 182
  22Q LOSS WILD-TYPE 422 416
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
               240                838 
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
               182                416 
$`22Q LOSS MUTATED`
TCGA-19-A6J4 TCGA-06-1806 TCGA-06-5408 TCGA-06-5411 TCGA-06-5413 TCGA-06-5418 
        3.98        15.32        11.74         8.35         8.81         2.73 
TCGA-06-5856 TCGA-06-6697 TCGA-06-6698 TCGA-06-A5U1 TCGA-06-A6S1 TCGA-12-1598 
        3.75        12.85         4.77         1.87         2.56        15.65 
TCGA-12-1600 TCGA-12-3646 TCGA-12-3651 TCGA-12-3653 TCGA-12-5295 TCGA-14-0736 
       14.73        44.02        12.69        14.53        14.93        15.12 
TCGA-14-0783 TCGA-14-0862 TCGA-14-0865 TCGA-14-1034 TCGA-14-1402 TCGA-14-1450 
        6.21         2.89        16.50        15.95        32.05        58.78 
TCGA-14-1454 TCGA-14-1794 TCGA-14-1821 TCGA-14-3477 TCGA-16-1056 TCGA-19-0964 
       30.18         0.99        17.79         3.78        14.01         3.39 
TCGA-19-1392 TCGA-19-1791 TCGA-19-2620 TCGA-19-2623 TCGA-19-2625 TCGA-19-2629 
        3.65         0.13         4.87         7.53         4.08        24.23 
TCGA-19-2631 TCGA-19-5947 TCGA-19-5956 TCGA-19-5958 TCGA-19-5960 TCGA-19-A60I 
        7.00         6.64        22.49        14.07        14.96        17.79 
TCGA-26-5132 TCGA-26-5136 TCGA-27-1830 TCGA-27-1832 TCGA-27-1834 TCGA-27-1835 
        9.40        18.97         5.06         9.86        40.54        21.30 
TCGA-27-2519 TCGA-27-2523 TCGA-27-2527 TCGA-28-1746 TCGA-28-1752 TCGA-28-2506 
       18.08        16.08        14.40         0.20         8.48         6.74 
TCGA-28-2509 TCGA-32-1970 TCGA-32-1973 TCGA-32-1976 TCGA-32-1978 TCGA-32-1980 
        4.77        15.39        21.07         0.49        15.85         1.18 
TCGA-32-1986 TCGA-32-2491 TCGA-32-2615 TCGA-32-2632 TCGA-32-2634 TCGA-41-2573 
       12.69        12.23        15.95         8.84        22.78         8.94 
TCGA-41-2575 TCGA-41-3915 TCGA-41-4097 TCGA-41-6646 TCGA-4W-AA9S TCGA-74-6581 
        9.53        11.84         0.20        12.46         1.45         8.22 
TCGA-76-4925 TCGA-76-4926 TCGA-76-4929 TCGA-76-4934 TCGA-76-6657 TCGA-OX-A56R 
        4.80         4.54         3.65         2.53         5.03         5.92 
TCGA-CS-4943 TCGA-CS-5397 TCGA-CS-6186 TCGA-DB-5277 TCGA-DB-A64L TCGA-DB-A64O 
       36.36         6.38        17.69        50.86        24.20        25.48 
TCGA-DH-A669 TCGA-DU-5847 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-6399 TCGA-DU-7008 
       30.21        18.02         6.74        13.38        65.75       156.23 
TCGA-DU-7290 TCGA-DU-7298 TCGA-DU-8158 TCGA-DU-8161 TCGA-DU-8165 TCGA-DU-8167 
       10.36        18.94         5.10        23.74        19.13        15.48 
TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TY TCGA-DU-A76K TCGA-DU-A76L TCGA-E1-5304 
       24.43        26.17        33.96        11.41        26.76        41.13 
TCGA-E1-5322 TCGA-E1-A7YE TCGA-E1-A7YJ TCGA-E1-A7YM TCGA-E1-A7YS TCGA-E1-A7Z2 
      130.78        29.13        19.46        21.30        15.32        13.08 
TCGA-FG-7643 TCGA-FG-A4MY TCGA-HT-7477 TCGA-HT-7686 TCGA-HT-7688 TCGA-HT-7690 
       20.09        23.70        24.26        42.74        31.69         0.10 
TCGA-HT-7860 TCGA-HT-A614 TCGA-HT-A617 TCGA-HT-A618 TCGA-HW-A5KK TCGA-P5-A5F6 
        0.49         2.70        16.14        16.83        12.76         1.28 
TCGA-P5-A72U TCGA-P5-A780 TCGA-QH-A6CS TCGA-RY-A83Z TCGA-S9-A6TS TCGA-S9-A6UA 
        0.23         2.37        19.33         9.90        62.17         5.85 
TCGA-S9-A7IX TCGA-S9-A7J0 TCGA-S9-A89V TCGA-S9-A89Z TCGA-TM-A84G TCGA-TQ-A7RW 
       26.93        20.02        18.71        20.48        40.64        26.99 
TCGA-VM-A8CD TCGA-VM-A8CF TCGA-WH-A86K TCGA-02-0007 TCGA-02-0010 TCGA-02-0015 
        7.89        20.02        13.32        23.18        35.41        20.61 
TCGA-02-0016 TCGA-02-0027 TCGA-02-0039 TCGA-02-0043 TCGA-02-0054 TCGA-02-0057 
       87.06        12.16        10.52        18.31         6.54        19.86 
TCGA-02-0059 TCGA-02-0060 TCGA-02-0075 TCGA-02-0086 TCGA-02-0099 TCGA-02-0113 
        9.57         6.02        20.84         8.81         3.48        92.65 
TCGA-02-0260 TCGA-02-0266 TCGA-02-0269 TCGA-02-0321 TCGA-02-0325 TCGA-02-0326 
       16.93        17.72        10.75         9.90        10.62         7.33 
TCGA-02-0333 TCGA-02-0430 TCGA-02-0456 TCGA-02-2466 TCGA-02-2483 TCGA-02-2486 
        4.37        10.55         3.35        16.80        15.32        20.32 
TCGA-06-0129 TCGA-06-0140 TCGA-06-0141 TCGA-06-0147 TCGA-06-0152 TCGA-06-0159 
       33.67         0.20        10.29        17.79        12.33         9.44 
TCGA-06-0162 TCGA-06-0164 TCGA-06-0166 TCGA-06-0168 TCGA-06-0175 TCGA-06-0182 
        3.42        56.91         5.85        19.66         4.04         3.65 
TCGA-06-0185 TCGA-06-0188 TCGA-06-0189 TCGA-06-0194 TCGA-06-0197 TCGA-06-0216 
       73.84        44.58        15.42         4.67         5.56        24.16 
TCGA-06-0219 TCGA-06-0221 TCGA-06-0237 TCGA-06-0241 TCGA-06-0397 TCGA-06-0402 
        0.72        19.82        13.64        48.69         9.01         0.26 
TCGA-06-0410 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 TCGA-06-0875 TCGA-06-0878 
        4.70        46.88         7.86         2.70        43.46         7.17 
TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1804 TCGA-06-2558 TCGA-06-2562 
       20.78        26.76        23.93        13.61        12.49        12.56 
TCGA-06-2567 TCGA-06-6389 TCGA-06-6390 TCGA-06-6693 TCGA-08-0244 TCGA-08-0245 
        4.37         7.79         5.39       120.56        22.68        37.84 
TCGA-08-0246 TCGA-08-0349 TCGA-08-0350 TCGA-08-0354 TCGA-08-0386 TCGA-08-0389 
        4.18         9.80        29.23        17.95        18.02        15.35 
TCGA-08-0392 TCGA-08-0512 TCGA-08-0516 TCGA-08-0520 TCGA-12-0619 TCGA-12-0620 
        0.72        42.15        19.59        10.75        34.92        10.45 
TCGA-12-0656 TCGA-12-0662 TCGA-12-0670 TCGA-12-0776 TCGA-12-0820 TCGA-12-0821 
       94.78        38.17        25.97         9.73        18.48        10.62 
TCGA-12-0826 TCGA-12-1088 TCGA-12-1091 TCGA-12-1096 TCGA-12-1097 TCGA-14-0867 
       27.78       127.59        33.21         9.11        14.53         2.04 
TCGA-15-0742 TCGA-15-1447 TCGA-19-0962 TCGA-19-1385 TCGA-19-1389 TCGA-26-6173 
       13.78        53.19         0.66        10.75         4.64         7.92 
TCGA-28-5207 TCGA-28-5208 TCGA-28-5213 TCGA-28-5219 TCGA-76-6280 TCGA-87-5896 
       11.28        17.88        31.27        22.68        11.38        26.30 

$`22Q LOSS WILD-TYPE`
TCGA-06-6391 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 TCGA-DH-A66B 
        1.48        51.55        46.88        46.72        31.82        42.05 
TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K TCGA-FG-A713 
       62.01        17.16        23.90        20.09        17.82        20.45 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-5410 
       18.64        21.40        45.60        42.77        59.38         3.55 
TCGA-06-5412 TCGA-06-5414 TCGA-06-5415 TCGA-06-5416 TCGA-06-5858 TCGA-06-5859 
        4.54         8.98         8.55         6.71         6.15         4.57 
TCGA-06-6388 TCGA-06-6695 TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A5U0 
        5.23         8.32         1.55         4.77         4.96        26.79 
TCGA-06-A6S0 TCGA-06-A7TK TCGA-06-A7TL TCGA-12-0615 TCGA-12-1092 TCGA-12-1599 
        3.12        14.60        17.72        15.35        21.73        25.68 
TCGA-12-1602 TCGA-12-3644 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 TCGA-12-3652 
        6.77        59.77        26.93        15.22        10.95        34.92 
TCGA-12-5299 TCGA-12-5301 TCGA-14-0740 TCGA-14-0781 TCGA-14-0786 TCGA-14-0790 
        3.22         2.04        11.97         0.95        23.05        13.78 
TCGA-14-0812 TCGA-14-0866 TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 TCGA-14-1451 
        3.25        26.33         1.38         1.12         3.75        23.11 
TCGA-14-1452 TCGA-14-1453 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 
        7.10         1.15         0.92        40.96         6.67        12.43 
TCGA-14-1795 TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 TCGA-14-2554 
        1.97        17.85         7.63         5.88         7.17        17.49 
TCGA-14-2555 TCGA-14-4157 TCGA-16-0848 TCGA-16-1045 TCGA-16-1047 TCGA-16-1055 
        7.96         3.42        17.59        29.03         4.57        10.29 
TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 TCGA-19-0963 
        9.14        21.24        13.97         6.41         8.61        14.27 
TCGA-19-1390 TCGA-19-1786 TCGA-19-1787 TCGA-19-1789 TCGA-19-2619 TCGA-19-2621 
       25.38         7.17        12.66         3.25         9.67         1.08 
TCGA-19-2624 TCGA-19-4065 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 TCGA-19-5953 
        0.16         7.04        17.19         8.02        18.90         4.73 
TCGA-19-5954 TCGA-19-5955 TCGA-19-5959 TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1439 
       12.10         1.78        16.80        28.54        10.03        13.87 
TCGA-26-1440 TCGA-26-1443 TCGA-26-1799 TCGA-26-5135 TCGA-26-A7UX TCGA-27-1831 
        9.73         7.13         9.37         8.88        19.33        16.60 
TCGA-27-1833 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 TCGA-27-2521 
       24.23        30.05        14.04        11.51        24.76        16.77 
TCGA-27-2524 TCGA-27-2526 TCGA-27-2528 TCGA-28-1747 TCGA-28-1749 TCGA-28-1750 
        7.59         2.86        15.78         2.53         9.21         8.35 
TCGA-28-1751 TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 
        7.63         1.22         1.55         2.83         0.13         0.66 
TCGA-32-1977 TCGA-32-1979 TCGA-32-1982 TCGA-32-1987 TCGA-32-1991 TCGA-32-2494 
        0.10        19.50         4.67        14.86        16.93        20.78 
TCGA-32-2495 TCGA-32-2638 TCGA-32-4208 TCGA-32-4210 TCGA-32-4211 TCGA-32-4213 
       15.02        25.18        21.14         3.72        12.59        19.86 
TCGA-32-4719 TCGA-32-5222 TCGA-41-2571 TCGA-41-2572 TCGA-41-3392 TCGA-41-3393 
       10.85        19.23         0.85        13.35         0.99         4.44 
TCGA-41-5651 TCGA-4W-AA9R TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6575 TCGA-74-6577 
       15.12         4.08        25.58         3.45        20.91         4.34 
TCGA-74-6578 TCGA-74-6584 TCGA-76-4928 TCGA-76-4931 TCGA-76-4935 TCGA-76-6191 
       14.33         7.50         3.09         9.17        36.85        16.70 
TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6285 TCGA-76-6286 TCGA-76-6656 
        3.29         2.70        17.06         8.35        20.98         4.83 
TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-RR-A6KA TCGA-RR-A6KC 
       23.90        34.45        18.64        36.20         6.28        20.55 
TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 
      117.50         7.69        43.89        60.10        40.18         0.26 
TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6667 
       21.01        53.62        26.76        37.38        46.95        48.30 
TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5275 
       49.94        49.12       122.73        81.96        75.25        47.93 
TCGA-DB-5276 TCGA-DB-5278 TCGA-DB-5279 TCGA-DB-5280 TCGA-DB-5281 TCGA-DB-A4X9 
       72.92        91.13        44.52        36.56        78.28        46.42 
TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG 
       18.84        30.21        39.78        37.45        33.57        72.95 
TCGA-DB-A4XH TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U 
       31.63        30.12         5.98        31.40        27.45        27.81 
TCGA-DB-A64V TCGA-DB-A64W TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M 
       29.23        14.40        18.51        12.10        11.24        17.88 
TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5140 TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 
       30.74        16.18        19.96        63.88        46.06        24.59 
TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT 
       27.81        17.19        17.19        54.25        23.21        17.46 
TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5854 TCGA-DU-5855 
       13.71        18.61        14.56        17.46         8.45         6.81 
TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 
      182.33        18.94        17.49        15.16       211.17        52.11 
TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6400 TCGA-DU-6401 
       22.42        49.02        75.16        46.06         1.22        87.45 
TCGA-DU-6402 TCGA-DU-6403 TCGA-DU-6404 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 
        7.04        11.64       133.74        19.89        16.83        94.52 
TCGA-DU-6408 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 TCGA-DU-7009 
      114.08         7.96         2.40        11.47        62.96       154.36 
TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 
       14.99       105.21         6.54         8.84       117.40        90.77 
TCGA-DU-7018 TCGA-DU-7019 TCGA-DU-7292 TCGA-DU-7294 TCGA-DU-7299 TCGA-DU-7301 
       30.67        26.30         7.96        94.32        44.02        25.91 
TCGA-DU-7302 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8162 TCGA-DU-8163 
       60.30        23.31        41.98         2.76        14.60        20.68 
TCGA-DU-8164 TCGA-DU-8166 TCGA-DU-8168 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TS 
       21.40        16.96        14.17        33.27        29.85        31.69 
TCGA-DU-A5TW TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A6S8 
       24.99        25.55        21.57        95.11        20.98        22.29 
TCGA-DU-A76R TCGA-DU-A7T6 TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC 
       21.30        17.98       139.04        84.33        51.52        37.38 
TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 TCGA-E1-5303 
        7.50        44.42        38.89         0.56        50.14        67.46 
TCGA-E1-5305 TCGA-E1-5307 TCGA-E1-5311 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-A7YD 
       79.99        57.93       134.27        78.21        95.57        14.30 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YK TCGA-E1-A7YL TCGA-E1-A7YO TCGA-E1-A7YQ 
       93.21         3.65        12.43        16.18        75.02        51.88 
TCGA-E1-A7YU TCGA-E1-A7YV TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z3 TCGA-E1-A7Z4 
        0.76        32.45        36.82       146.14        73.48       145.05 
TCGA-E1-A7Z6 TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 
       32.35        39.48         0.23         0.20        47.77        25.48 
TCGA-FG-5964 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 
       52.21        36.82        18.77        14.93        42.54        41.33 
TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-8181 
       18.44        15.35        17.88        22.55        20.61        28.34 
TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 
       13.68        14.24        16.01        14.96        22.52        32.61 
TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A60J TCGA-FG-A60L 
       38.27        10.72        18.38        18.71        14.76        21.53 
TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-FG-A6J3 TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 
       15.02        16.44        22.26        28.54        10.78        36.66 
TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7469 
       48.69         5.72        27.52         0.10         6.67        11.54 
TCGA-HT-7470 TCGA-HT-7471 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
       40.11         0.13         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 
        6.54         6.38        40.34        75.19        95.93       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
        4.57        17.29         3.16        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7616 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 
       57.60         0.23        14.27         0.16        16.24         0.76 
TCGA-HT-7681 TCGA-HT-7684 TCGA-HT-7687 TCGA-HT-7689 TCGA-HT-7691 TCGA-HT-7692 
       44.68         6.05         0.10        14.96         0.10         2.96 
TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7855 TCGA-HT-7856 
       17.52         6.90        14.53        39.48        19.23        39.09 
TCGA-HT-7857 TCGA-HT-7858 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 
        0.23        50.63        23.61        37.15         0.33         0.13 
TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 
        3.68         5.33        35.47         3.72        11.28        31.43 
TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 
        1.64        16.24         9.40        63.55         0.10        37.87 
TCGA-HT-8019 TCGA-HT-8104 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 
       33.01        12.23         6.25         0.10         0.46         2.50 
TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 
        5.56        13.78         0.23        29.59        34.19        28.27 
TCGA-HT-8564 TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 
       15.72         0.23        26.04         0.13        20.22         0.07 
TCGA-HT-A5RA TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A61B 
       27.35         0.10         5.33        16.93         1.81        17.52 
TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O 
       17.65         2.43        10.52        15.35        11.05         0.10 
TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7491 TCGA-HW-7493 TCGA-HW-7495 
       56.58        45.44        41.49        68.32        69.27        35.44 
TCGA-HW-8319 TCGA-HW-8320 TCGA-HW-8321 TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KL 
       39.75        40.01        42.54        24.92        31.63        28.87 
TCGA-HW-A5KM TCGA-IK-7675 TCGA-KT-A74X TCGA-KT-A7W1 TCGA-P5-A5EV TCGA-P5-A5EW 
       20.71        19.00        14.40        14.40         0.23         6.71 
TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5EZ TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        7.99         2.37         2.30         9.44         5.88         7.96 
TCGA-P5-A5F4 TCGA-P5-A72W TCGA-P5-A72X TCGA-P5-A72Z TCGA-P5-A730 TCGA-P5-A731 
        7.59        10.42        13.25        11.64        10.95         9.01 
TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A77X 
       13.61         9.60         7.56        12.23        19.20         3.45 
TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A65Z 
        4.41        15.16         2.53        12.62        15.85        14.04 
TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ 
       14.83        14.53        13.61        12.23        13.41         9.17 
TCGA-QH-A6X3 TCGA-QH-A6X4 TCGA-QH-A6X5 TCGA-QH-A6X8 TCGA-QH-A6X9 TCGA-QH-A6XA 
       10.29        14.53        16.34        16.73         1.91        16.50 
TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO 
       16.70        11.08        12.99        88.83        94.03        32.65 
TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
       30.87         5.46        28.08         2.07        19.59        30.67 
TCGA-S9-A6TU TCGA-S9-A6TV TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ 
       87.12        18.77        41.10        40.93        35.38        36.82 
TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 
       24.39        25.81        29.85        32.61        35.15        98.24 
TCGA-S9-A6U9 TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH 
       95.93       123.65        75.25       135.22        85.55        38.56 
TCGA-S9-A6WI TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WP 
       84.99        31.10        19.86        26.47        18.61        18.64 
TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IS TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J1 
       14.07        36.13         7.92        23.51        19.99         8.19 
TCGA-S9-A7J2 TCGA-S9-A7J3 TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ 
        2.04        20.68        15.06        18.54        28.37        27.16 
TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 
      169.84        10.39        99.06        30.05        98.63        31.59 
TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7C5 TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B 
       54.77        48.33        49.32        34.78        65.39        24.92 
TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84H TCGA-TM-A84I TCGA-TM-A84J TCGA-TM-A84L 
       16.18        59.05        30.44        28.08        24.16        40.83 
TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R TCGA-TM-A84S TCGA-TM-A84T 
       24.79        33.24        25.38        18.61        14.93        23.80 
TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI TCGA-TQ-A7RJ TCGA-TQ-A7RK 
       21.37        19.69        15.98         2.04        40.41        44.09 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RR 
       36.69        33.73        31.20        30.05        26.14        25.87 
TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-TQ-A8XE TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA 
       33.93        61.41        31.36        45.93        43.20        13.51 
TCGA-VM-A8CB TCGA-VM-A8CE TCGA-VM-A8CH TCGA-VV-A829 TCGA-VV-A86M TCGA-VW-A7QS 
        0.10        39.16        23.47        37.05        16.01        23.21 
TCGA-VW-A8FI TCGA-W9-A837 TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85B 
        8.05        51.06        43.96        39.88        43.40        45.80 
TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 TCGA-02-0001 TCGA-02-0003 
       46.88        37.71        20.81         7.63        11.77         4.73 
TCGA-02-0006 TCGA-02-0009 TCGA-02-0011 TCGA-02-0014 TCGA-02-0021 TCGA-02-0023 
       18.35        10.59        20.71        82.59        77.65        20.12 
TCGA-02-0024 TCGA-02-0025 TCGA-02-0026 TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 
       53.10        42.74        24.59        90.58         2.83        14.14 
TCGA-02-0037 TCGA-02-0038 TCGA-02-0046 TCGA-02-0047 TCGA-02-0048 TCGA-02-0051 
        3.62        10.72         6.87        14.73         3.22        15.09 
TCGA-02-0052 TCGA-02-0055 TCGA-02-0058 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 
       12.59         2.50         8.35        19.73        26.43        28.70 
TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0079 TCGA-02-0080 TCGA-02-0083 
       25.05         5.49        10.19        27.25        89.72        22.72 
TCGA-02-0084 TCGA-02-0085 TCGA-02-0087 TCGA-02-0089 TCGA-02-0102 TCGA-02-0104 
       12.62        51.32        57.76        16.96        27.02        65.00 
TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 
       11.67        17.65        23.18        99.98        15.65        48.95 
TCGA-02-0258 TCGA-02-0271 TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 
       16.54        14.47         3.98        13.87        14.20        15.95 
TCGA-02-0317 TCGA-02-0324 TCGA-02-0330 TCGA-02-0332 TCGA-02-0337 TCGA-02-0338 
       12.23         7.73        15.91        25.71        25.12        10.59 
TCGA-02-0339 TCGA-02-0422 TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 
       12.39        14.50        47.11        11.34         9.27        16.21 
TCGA-02-2470 TCGA-02-2485 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 
       12.92        15.45         2.70         6.15        20.38        47.61 
TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 
        6.94         3.98        22.72        12.95        25.35        14.30 
TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 
       26.70        24.23        11.90         2.20        11.74         2.33 
TCGA-06-0146 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 TCGA-06-0154 
       20.09        10.09         8.61        19.46        46.59        13.94 
TCGA-06-0155 TCGA-06-0157 TCGA-06-0158 TCGA-06-0160 TCGA-06-0165 TCGA-06-0169 
       10.45         3.19        10.82        11.80        10.65         3.29 
TCGA-06-0171 TCGA-06-0173 TCGA-06-0174 TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 
       13.12         4.47         3.22        91.00         4.18        88.14 
TCGA-06-0179 TCGA-06-0184 TCGA-06-0187 TCGA-06-0190 TCGA-06-0192 TCGA-06-0195 
       20.25        69.90        27.22        10.42        38.96         7.40 
TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 
        0.39         7.66         8.42         7.40        11.84         0.53 
TCGA-06-0214 TCGA-06-0238 TCGA-06-0240 TCGA-06-0394 TCGA-06-0409 TCGA-06-0412 
       15.02        13.32        20.42        10.82        72.36         9.57 
TCGA-06-0413 TCGA-06-0414 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 
        3.16        35.11        12.62         5.75         5.75         9.80 
TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 TCGA-06-0749 TCGA-06-0750 
        2.10        23.57        14.20        26.40         2.70         0.92 
TCGA-06-0876 TCGA-06-0879 TCGA-06-0881 TCGA-06-1086 TCGA-06-1087 TCGA-06-1800 
       46.19        40.41        16.57         6.84         4.04        26.79 
TCGA-06-1801 TCGA-06-1802 TCGA-06-1805 TCGA-06-2557 TCGA-06-2559 TCGA-06-2561 
       11.84        15.32        33.90         1.08         4.93        17.65 
TCGA-06-2563 TCGA-06-2564 TCGA-06-2565 TCGA-06-2566 TCGA-06-2569 TCGA-06-2570 
       30.64         5.95        16.64         5.98         0.43        31.50 
TCGA-06-6694 TCGA-08-0344 TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0348 
        7.36       115.86         1.74         8.42        25.71        12.16 
TCGA-08-0351 TCGA-08-0352 TCGA-08-0353 TCGA-08-0355 TCGA-08-0356 TCGA-08-0357 
       65.33         1.28         8.42        24.56        31.10        37.58 
TCGA-08-0358 TCGA-08-0359 TCGA-08-0375 TCGA-08-0380 TCGA-08-0390 TCGA-08-0509 
       22.29         3.39        12.23        14.93        13.97        12.56 
TCGA-08-0510 TCGA-08-0514 TCGA-08-0517 TCGA-08-0518 TCGA-08-0521 TCGA-08-0524 
        4.27        11.08        58.68        19.33         4.80         7.27 
TCGA-08-0525 TCGA-08-0529 TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0654 
       15.98        18.41         7.56        14.73        12.99         7.59 
TCGA-12-0657 TCGA-12-0688 TCGA-12-0691 TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 
        0.10        26.66        12.13         3.65        20.38        28.41 
TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 TCGA-12-0775 TCGA-12-0778 TCGA-12-0780 
       15.06        53.85        43.23         7.63        14.93        14.86 
TCGA-12-0818 TCGA-12-0819 TCGA-12-0822 TCGA-12-0827 TCGA-12-0828 TCGA-12-0829 
       91.76        24.79        23.51        38.76         8.94        20.58 
TCGA-12-1089 TCGA-12-1090 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1098 
        5.82         7.59        15.98        12.23        15.85         3.98 
TCGA-12-1099 TCGA-14-0787 TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 TCGA-14-0871 
        4.14         2.24        11.24         1.35         5.39        28.93 
TCGA-14-1037 TCGA-14-1043 TCGA-15-1444 TCGA-15-1446 TCGA-15-1449 TCGA-16-0846 
       19.30         0.79        50.53        19.10        13.28         3.91 
TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 TCGA-19-1386 TCGA-19-1387 
       26.07        16.37        11.77        21.90         9.07         5.95 
TCGA-19-1388 TCGA-26-1442 TCGA-26-5133 TCGA-26-5134 TCGA-26-5139 TCGA-26-6174 
       12.95        31.33        14.86         5.49         1.58         2.33 
TCGA-28-2513 TCGA-28-2514 TCGA-28-5204 TCGA-28-5209 TCGA-28-5211 TCGA-28-5214 
        7.30         5.26        14.93        14.53        11.77        23.44 
TCGA-28-5215 TCGA-28-5216 TCGA-28-5218 TCGA-28-5220 TCGA-28-6450 TCGA-32-2616 
       11.01        13.64         5.16        12.76         5.42         7.36 
TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 
        5.42         3.75         1.61        17.72 

  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
              0.10               0.03 
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
            156.23             211.17 
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
            13.895             16.715 
[1] "0.1 - 156.2 (13.9)" "0.0 - 211.2 (16.7)"
[1] "hr=" "2"  
D80V2, continuous
D80V3, binary
                    cls
clus                   0   1
  22Q LOSS MUTATED   183  57
  22Q LOSS WILD-TYPE 390 455
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  22Q LOSS MUTATED    183   57
  22Q LOSS WILD-TYPE  390  455
                        clus
vv                       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  BRAIN                               183                390
  CENTRAL NERVOUS SYSTEM               57                455
[1] 2 2
[1] FALSE
D80V4, binary
                    cls
clus                   0   1
  22Q LOSS MUTATED   101 139
  22Q LOSS WILD-TYPE 352 493
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  22Q LOSS MUTATED    101  139
  22Q LOSS WILD-TYPE  352  493
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  FEMALE              101                352
  MALE                139                493
[1] 2 2
[1] FALSE
D80V5, binary
                    cls
clus                   0   1
  22Q LOSS MUTATED    39 189
  22Q LOSS WILD-TYPE 219 581
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  22Q LOSS MUTATED     39  189
  22Q LOSS WILD-TYPE  219  581
     clus
vv    22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  NO                39                219
  YES              189                581
[1] 2 2
[1] FALSE
D80V6, continuous
                    vv
clus                 ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  22Q LOSS MUTATED            29                             9               11
  22Q LOSS WILD-TYPE         165                            21              118
                    vv
clus                 OLIGODENDROGLIOMA TREATED PRIMARY GBM
  22Q LOSS MUTATED                  17                   6
  22Q LOSS WILD-TYPE               172                  12
                    vv
clus                 UNTREATED PRIMARY (DE NOVO) GBM
  22Q LOSS MUTATED                               168
  22Q LOSS WILD-TYPE                             357
D80V7, multiclass
                                 clus
vv                                22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  ASTROCYTOMA                                   29                165
  GLIOBLASTOMA MULTIFORME (GBM)                  9                 21
  OLIGOASTROCYTOMA                              11                118
  OLIGODENDROGLIOMA                             17                172
  TREATED PRIMARY GBM                            6                 12
  UNTREATED PRIMARY (DE NOVO) GBM              168                357
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  22Q LOSS MUTATED                                  1     4
  22Q LOSS WILD-TYPE                                0    17
                    vv
clus                 BLACK OR AFRICAN AMERICAN WHITE
  22Q LOSS MUTATED                          15   214
  22Q LOSS WILD-TYPE                        56   745
D80V8, multiclass
                                  clus
vv                                 22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE                1                  0
  ASIAN                                           4                 17
  BLACK OR AFRICAN AMERICAN                      15                 56
  WHITE                                         214                745
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D80V9, binary
                    cls
clus                   0   1
  22Q LOSS MUTATED     6 209
  22Q LOSS WILD-TYPE  38 712
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  22Q LOSS MUTATED      6  209
  22Q LOSS WILD-TYPE   38  712
                        clus
vv                       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  HISPANIC OR LATINO                    6                 38
  NOT HISPANIC OR LATINO              209                712
[1] 2 2
[1] FALSE

Clustering(81) Variable = XP LOSS MUTATION ANALYSIS
D81V1, survival
                   sevent
clus2                 0   1
  XP LOSS MUTATED    95 114
  XP LOSS WILD-TYPE 385 484
  XP LOSS MUTATED XP LOSS WILD-TYPE 
              209               869 
  XP LOSS MUTATED XP LOSS WILD-TYPE 
              114               484 
$`XP LOSS MUTATED`
TCGA-FG-A713 TCGA-06-5408 TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5859 
       20.45        11.74         6.71         2.73         3.75         4.57 
TCGA-06-A5U0 TCGA-06-A5U1 TCGA-06-A6S1 TCGA-06-A7TL TCGA-12-0615 TCGA-12-3644 
       26.79         1.87         2.56        17.72        15.35        59.77 
TCGA-12-3646 TCGA-12-3652 TCGA-12-5295 TCGA-14-0736 TCGA-14-0740 TCGA-14-0862 
       44.02        34.92        14.93        15.12        11.97         2.89 
TCGA-14-0865 TCGA-14-1453 TCGA-14-3477 TCGA-16-1045 TCGA-19-1390 TCGA-19-1392 
       16.50         1.15         3.78        29.03        25.38         3.65 
TCGA-19-1786 TCGA-19-2619 TCGA-19-2621 TCGA-19-2623 TCGA-19-2625 TCGA-19-2629 
        7.17         9.67         1.08         7.53         4.08        24.23 
TCGA-19-5947 TCGA-19-5956 TCGA-19-5960 TCGA-26-1439 TCGA-26-1440 TCGA-27-2524 
        6.64        22.49        14.96        13.87         9.73         7.59 
TCGA-28-1750 TCGA-32-1973 TCGA-32-1977 TCGA-32-1978 TCGA-32-2494 TCGA-32-2615 
        8.35        21.07         0.10        15.85        20.78        15.95 
TCGA-32-2634 TCGA-32-4208 TCGA-32-4210 TCGA-32-4213 TCGA-32-4719 TCGA-41-2572 
       22.78        21.14         3.72        19.86        10.85        13.35 
TCGA-41-2575 TCGA-41-3392 TCGA-4W-AA9R TCGA-74-6575 TCGA-76-4925 TCGA-76-4926 
        9.53         0.99         4.08        20.91         4.80         4.54 
TCGA-76-4929 TCGA-76-4931 TCGA-76-4934 TCGA-76-4935 TCGA-76-6285 TCGA-76-6286 
        3.65         9.17         2.53        36.85         8.35        20.98 
TCGA-OX-A56R TCGA-CS-4938 TCGA-DB-5275 TCGA-DB-5279 TCGA-DB-5281 TCGA-DB-A4XH 
        5.92       117.50        47.93        44.52        78.28        31.63 
TCGA-DB-A64W TCGA-DH-5140 TCGA-DH-A7UU TCGA-DU-5847 TCGA-DU-5871 TCGA-DU-6401 
       14.40        19.96        13.71        18.02        18.94        87.45 
TCGA-DU-6404 TCGA-DU-6407 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7007 
      133.74        94.52         7.96         2.40        11.47        62.96 
TCGA-DU-7008 TCGA-DU-7018 TCGA-DU-7294 TCGA-DU-7302 TCGA-DU-8158 TCGA-DU-8168 
      156.23        30.67        94.32        60.30         5.10        14.17 
TCGA-DU-A5TS TCGA-DU-A6S8 TCGA-DU-A76R TCGA-DU-A7T6 TCGA-E1-5307 TCGA-E1-5311 
       31.69        22.29        21.30        17.98        57.93       134.27 
TCGA-E1-5322 TCGA-E1-A7YE TCGA-E1-A7YK TCGA-E1-A7YS TCGA-E1-A7YV TCGA-EZ-7264 
      130.78        29.13        12.43        15.32        32.45        39.48 
TCGA-F6-A8O3 TCGA-FG-5964 TCGA-FG-A4MY TCGA-FG-A6IZ TCGA-FG-A6J1 TCGA-HT-7469 
        0.23        52.21        23.70        15.02        16.44        11.54 
TCGA-HT-7471 TCGA-HT-7476 TCGA-HT-7477 TCGA-HT-7609 TCGA-HT-7616 TCGA-HT-7689 
        0.13         6.54        24.26        45.99         0.23        14.96 
TCGA-HT-7690 TCGA-HT-7692 TCGA-HT-7855 TCGA-HT-7857 TCGA-HT-7902 TCGA-HT-8104 
        0.10         2.96        19.23         0.23        31.43        12.23 
TCGA-HT-8563 TCGA-HT-8564 TCGA-HT-A618 TCGA-HT-A61B TCGA-HT-A74O TCGA-HW-7491 
       28.27        15.72        16.83        17.52         0.10        68.32 
TCGA-HW-8320 TCGA-HW-8321 TCGA-IK-7675 TCGA-KT-A74X TCGA-P5-A5EZ TCGA-P5-A5F6 
       40.01        42.54        19.00        14.40         2.30         1.28 
TCGA-P5-A72W TCGA-P5-A72Z TCGA-P5-A737 TCGA-P5-A77W TCGA-P5-A780 TCGA-QH-A65S 
       10.42        11.64        12.23        19.20         2.37         2.53 
TCGA-QH-A65Z TCGA-QH-A6X4 TCGA-QH-A6X8 TCGA-RY-A83Z TCGA-S9-A6TS TCGA-S9-A6TV 
       14.04        14.53        16.73         9.90        62.17        18.77 
TCGA-S9-A6U1 TCGA-S9-A6WP TCGA-S9-A7IS TCGA-S9-A7IZ TCGA-S9-A89V TCGA-S9-A89Z 
       25.81        18.64         7.92        19.99        18.71        20.48 
TCGA-TM-A7C5 TCGA-TM-A84I TCGA-TM-A84Q TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RR 
       49.32        28.08        25.38        40.41        44.09        25.87 
TCGA-TQ-A7RW TCGA-TQ-A8XE TCGA-VM-A8CD TCGA-VV-A829 TCGA-VV-A86M TCGA-WY-A858 
       26.99        31.36         7.89        37.05        16.01        43.96 
TCGA-WY-A85B TCGA-02-0007 TCGA-02-0010 TCGA-02-0011 TCGA-02-0026 TCGA-02-0039 
       45.80        23.18        35.41        20.71        24.59        10.52 
TCGA-02-0048 TCGA-02-0058 TCGA-02-0099 TCGA-02-0330 TCGA-02-0339 TCGA-02-0432 
        3.22         8.35         3.48        15.91        12.39        47.11 
TCGA-02-2466 TCGA-02-2483 TCGA-06-0129 TCGA-06-0152 TCGA-06-0158 TCGA-06-0162 
       16.80        15.32        33.67        12.33        10.82         3.42 
TCGA-06-0171 TCGA-06-0184 TCGA-06-0185 TCGA-06-0214 TCGA-06-0219 TCGA-06-0221 
       13.12        69.90        73.84        15.02         0.72        19.82 
TCGA-06-0743 TCGA-06-0875 TCGA-06-1800 TCGA-06-2558 TCGA-06-2564 TCGA-06-2569 
       26.40        43.46        26.79        12.49         5.95         0.43 
TCGA-06-2570 TCGA-06-6693 TCGA-08-0245 TCGA-08-0348 TCGA-08-0354 TCGA-08-0355 
       31.50       120.56        37.84        12.16        17.95        24.56 
TCGA-08-0389 TCGA-08-0392 TCGA-08-0512 TCGA-08-0517 TCGA-08-0520 TCGA-08-0525 
       15.35         0.72        42.15        58.68        10.75        15.98 
TCGA-12-0821 TCGA-12-0827 TCGA-12-1091 TCGA-14-0787 TCGA-15-0742 TCGA-16-0850 
       10.62        38.76        33.21         2.24        13.78        16.37 
TCGA-19-1388 TCGA-26-5133 TCGA-28-2514 TCGA-28-5204 TCGA-28-5220 
       12.95        14.86         5.26        14.93        12.76 

$`XP LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K 
       42.05        62.01        17.16        23.90        20.09        17.82 
TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M TCGA-06-1806 
       18.64        21.40        45.60        42.77        59.38        15.32 
TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 TCGA-06-5415 
        3.55         8.35         4.54         8.81         8.98         8.55 
TCGA-06-5858 TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 TCGA-06-6699 
        6.15         5.23         8.32        12.85         4.77         1.55 
TCGA-06-6700 TCGA-06-6701 TCGA-06-A6S0 TCGA-06-A7TK TCGA-12-1092 TCGA-12-1598 
        4.77         4.96         3.12        14.60        21.73        15.65 
TCGA-12-1599 TCGA-12-1600 TCGA-12-1602 TCGA-12-3648 TCGA-12-3649 TCGA-12-3650 
       25.68        14.73         6.77        26.93        15.22        10.95 
TCGA-12-3651 TCGA-12-3653 TCGA-12-5299 TCGA-12-5301 TCGA-14-0781 TCGA-14-0783 
       12.69        14.53         3.22         2.04         0.95         6.21 
TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 TCGA-14-0866 TCGA-14-1034 TCGA-14-1395 
       23.05        13.78         3.25        26.33        15.95         1.38 
TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 TCGA-14-1452 
        1.12         3.75        32.05        58.78        23.11         7.10 
TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 TCGA-14-1794 
       30.18         0.92        40.96         6.67        12.43         0.99 
TCGA-14-1795 TCGA-14-1821 TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 TCGA-14-1829 
        1.97        17.79        17.85         7.63         5.88         7.17 
TCGA-14-2554 TCGA-14-2555 TCGA-14-4157 TCGA-16-0848 TCGA-16-1047 TCGA-16-1055 
       17.49         7.96         3.42        17.59         4.57        10.29 
TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 TCGA-19-0960 
       14.01         9.14        21.24        13.97         6.41         8.61 
TCGA-19-0963 TCGA-19-0964 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 TCGA-19-2620 
       14.27         3.39        12.66         3.25         0.13         4.87 
TCGA-19-2624 TCGA-19-2631 TCGA-19-4065 TCGA-19-5950 TCGA-19-5951 TCGA-19-5952 
        0.16         7.00         7.04        17.19         8.02        18.90 
TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5958 TCGA-19-5959 TCGA-19-A60I 
        4.73        12.10         1.78        14.07        16.80        17.79 
TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 TCGA-26-5135 
       28.54        10.03         7.13         9.37         9.40         8.88 
TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 TCGA-27-1833 
       18.97        19.33         5.06        16.60         9.86        24.23 
TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 TCGA-27-2518 
       40.54        21.30        30.05        14.04        11.51        24.76 
TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 TCGA-27-2526 TCGA-27-2527 TCGA-27-2528 
       18.08        16.77        16.08         2.86        14.40        15.78 
TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 TCGA-28-1751 TCGA-28-1752 TCGA-28-1753 
        0.20         2.53         9.21         7.63         8.48         1.22 
TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 TCGA-28-2509 
        1.55         2.83         0.13         0.66         6.74         4.77 
TCGA-32-1970 TCGA-32-1976 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 TCGA-32-1986 
       15.39         0.49        19.50         1.18         4.67        12.69 
TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2495 TCGA-32-2632 TCGA-32-2638 
       14.86        16.93        12.23        15.02         8.84        25.18 
TCGA-32-4211 TCGA-32-5222 TCGA-41-2571 TCGA-41-2573 TCGA-41-3393 TCGA-41-3915 
       12.59        19.23         0.85         8.94         4.44        11.84 
TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9S TCGA-4W-AA9T TCGA-74-6573 
        0.20        15.12        12.46         1.45        25.58         3.45 
TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 TCGA-76-4928 TCGA-76-6191 
        4.34        14.33         8.22         7.50         3.09        16.70 
TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6656 TCGA-76-6657 TCGA-76-6661 
        3.29         2.70        17.06         4.83         5.03        23.90 
TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-RR-A6KA TCGA-RR-A6KC TCGA-CS-4941 
       34.45        18.64        36.20         6.28        20.55         7.69 
TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 
       43.89        36.36        60.10        40.18         0.26        21.01 
TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 
       53.62         6.38        17.69        26.76        37.38        46.95 
TCGA-CS-6667 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 TCGA-DB-5273 TCGA-DB-5274 
       48.30        49.94        49.12       122.73        81.96        75.25 
TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5280 TCGA-DB-A4X9 TCGA-DB-A4XA 
       72.92        50.86        91.13        36.56        46.42        18.84 
TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A64L 
       30.21        39.78        37.45        33.57        72.95        24.20 
TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U 
       25.48        30.12         5.98        31.40        27.45        27.81 
TCGA-DB-A64V TCGA-DB-A64X TCGA-DB-A75K TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O 
       29.23        18.51        12.10        11.24        17.88        30.74 
TCGA-DB-A75P TCGA-DH-5142 TCGA-DH-5143 TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D 
       16.18        63.88        46.06        24.59        30.21        27.81 
TCGA-DH-A66F TCGA-DH-A66G TCGA-DH-A7UR TCGA-DH-A7US TCGA-DH-A7UT TCGA-DH-A7UV 
       17.19        17.19        54.25        23.21        17.46        18.61 
TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 
       14.56        17.46         6.74        13.38         8.45         6.81 
TCGA-DU-5870 TCGA-DU-5872 TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 
      182.33        17.49        15.16       211.17        52.11        22.42 
TCGA-DU-6395 TCGA-DU-6396 TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6402 
       49.02        75.16        46.06        65.75         1.22         7.04 
TCGA-DU-6403 TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6408 TCGA-DU-7009 TCGA-DU-7010 
       11.64        19.89        16.83       114.08       154.36        14.99 
TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 TCGA-DU-7015 TCGA-DU-7019 
      105.21         6.54         8.84       117.40        90.77        26.30 
TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7298 TCGA-DU-7299 TCGA-DU-7301 TCGA-DU-7304 
       10.36         7.96        18.94        44.02        25.91        23.31 
TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8161 TCGA-DU-8162 TCGA-DU-8163 TCGA-DU-8164 
       41.98         2.76        23.74        14.60        20.68        21.40 
TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-A5TP TCGA-DU-A5TR TCGA-DU-A5TT 
       19.13        16.96        15.48        33.27        29.85        24.43 
TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 
       26.17        24.99        33.96        25.55        21.57        95.11 
TCGA-DU-A6S7 TCGA-DU-A76K TCGA-DU-A76L TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB 
       20.98        11.41        26.76       139.04        84.33        51.52 
TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5302 
       37.38         7.50        44.42        38.89         0.56        50.14 
TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-A7YD 
       67.46        41.13        79.99        78.21        95.57        14.30 
TCGA-E1-A7YH TCGA-E1-A7YI TCGA-E1-A7YJ TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO 
       93.21         3.65        19.46        16.18        21.30        75.02 
TCGA-E1-A7YQ TCGA-E1-A7YU TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 
       51.88         0.76        36.82       146.14        13.08        73.48 
TCGA-E1-A7Z4 TCGA-E1-A7Z6 TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5965 
      145.05        32.35         0.20        47.77        25.48        36.82 
TCGA-FG-6688 TCGA-FG-6689 TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 
       18.77        14.93        42.54        41.33        18.44        15.35 
TCGA-FG-7636 TCGA-FG-7638 TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 
       17.88        22.55        20.61        20.09        28.34        13.68 
TCGA-FG-8185 TCGA-FG-8186 TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT 
       14.24        16.01        14.96        22.52        32.61        38.27 
TCGA-FG-A4MU TCGA-FG-A4MW TCGA-FG-A4MX TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6J3 
       10.72        18.38        18.71        14.76        21.53        22.26 
TCGA-FG-A70Y TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 
       28.54        10.78        36.66        48.69         5.72        27.52 
TCGA-HT-7467 TCGA-HT-7468 TCGA-HT-7470 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 
        0.10         6.67        40.11         0.03        16.54         3.75 
TCGA-HT-7475 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 
       17.42         6.38        40.34        75.19        95.93       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7610 TCGA-HT-7611 
        4.57        17.29         3.16        22.06        56.09        57.60 
TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 TCGA-HT-7684 
       14.27         0.16        16.24         0.76        44.68         6.05 
TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7691 TCGA-HT-7693 TCGA-HT-7694 
       42.74         0.10        31.69         0.10        17.52         6.90 
TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7856 TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 
       14.53        39.48        39.09        50.63         0.49        23.61 
TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 
       37.15         0.33         0.13         3.68         5.33        35.47 
TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 
        3.72        11.28         1.64        16.24         9.40        63.55 
TCGA-HT-8015 TCGA-HT-8018 TCGA-HT-8019 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 
        0.10        37.87        33.01         6.25         0.10         0.46 
TCGA-HT-8108 TCGA-HT-8109 TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 
        2.50         5.56        13.78         0.23        29.59        34.19 
TCGA-HT-A4DS TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA 
        0.23        26.04         0.13        20.22         0.07        27.35 
TCGA-HT-A5RB TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 
        0.10         5.33         2.70        16.93         1.81        16.14 
TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HW-7486 
       17.65         2.43        10.52        15.35        11.05        56.58 
TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7493 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8322 
       45.44        41.49        69.27        35.44        39.75        24.92 
TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-KT-A7W1 TCGA-P5-A5EV 
       31.63        12.76        28.87        20.71        14.40         0.23 
TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5F0 TCGA-P5-A5F1 TCGA-P5-A5F2 
        6.71         7.99         2.37         9.44         5.88         7.96 
TCGA-P5-A5F4 TCGA-P5-A72U TCGA-P5-A72X TCGA-P5-A730 TCGA-P5-A731 TCGA-P5-A733 
        7.59         0.23        13.25        10.95         9.01        13.61 
TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A77X TCGA-P5-A781 TCGA-QH-A65R TCGA-QH-A65V 
        9.60         7.56         3.45         4.41        15.16        12.62 
TCGA-QH-A65X TCGA-QH-A6CS TCGA-QH-A6CU TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX 
       15.85        19.33        14.83        14.53        13.61        12.23 
TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 TCGA-QH-A6X5 TCGA-QH-A6X9 TCGA-QH-A6XA 
       13.41         9.17        10.29        16.34         1.91        16.50 
TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO 
       16.70        11.08        12.99        88.83        94.03        32.65 
TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A840 TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 
       30.87         5.46        28.08         2.07        19.59        30.67 
TCGA-S9-A6TU TCGA-S9-A6TW TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 
       87.12        41.10        40.93        35.38        36.82        24.39 
TCGA-S9-A6U2 TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA 
       29.85        32.61        35.15        98.24        95.93         5.85 
TCGA-S9-A6UB TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI 
      123.65        75.25       135.22        85.55        38.56        84.99 
TCGA-S9-A6WL TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WQ TCGA-S9-A7IQ 
       31.10        19.86        26.47        18.61        14.07        36.13 
TCGA-S9-A7IX TCGA-S9-A7IY TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       26.93        23.51        20.02         8.19         2.04        20.68 
TCGA-S9-A7QW TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 
       15.06        18.54        28.37        27.16       169.84        10.39 
TCGA-S9-A7R3 TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-TM-A7C3 TCGA-TM-A7C4 
       99.06        30.05        98.63        31.59        54.77        48.33 
TCGA-TM-A7CA TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G 
       34.78        65.39        24.92        16.18        59.05        40.64 
TCGA-TM-A84H TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84R 
       30.44        24.16        40.83        24.79        33.24        18.61 
TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI 
       14.93        23.80        21.37        19.69        15.98         2.04 
TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP TCGA-TQ-A7RQ TCGA-TQ-A7RU 
       36.69        33.73        31.20        30.05        26.14        33.93 
TCGA-TQ-A7RV TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA TCGA-VM-A8CB TCGA-VM-A8CE 
       61.41        45.93        43.20        13.51         0.10        39.16 
TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VW-A7QS TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K 
       20.02        23.47        23.21         8.05        51.06        13.32 
TCGA-WY-A859 TCGA-WY-A85A TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 
       39.88        43.40        46.88        37.71        20.81         7.63 
TCGA-02-0001 TCGA-02-0003 TCGA-02-0006 TCGA-02-0009 TCGA-02-0014 TCGA-02-0015 
       11.77         4.73        18.35        10.59        82.59        20.61 
TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 TCGA-02-0027 
       87.06        77.65        20.12        53.10        42.74        12.16 
TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0043 
       90.58         2.83        14.14         3.62        10.72        18.31 
TCGA-02-0046 TCGA-02-0047 TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0055 
        6.87        14.73        15.09        12.59         6.54         2.50 
TCGA-02-0057 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 TCGA-02-0069 
       19.86         9.57         6.02        19.73        26.43        28.70 
TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 TCGA-02-0079 TCGA-02-0080 
       25.05         5.49        10.19        20.84        27.25        89.72 
TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 TCGA-02-0089 
       22.72        12.62        51.32         8.81        57.76        16.96 
TCGA-02-0102 TCGA-02-0104 TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 TCGA-02-0113 
       27.02        65.00        11.67        17.65        23.18        92.65 
TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 TCGA-02-0266 
       99.98        15.65        48.95        16.54        16.93        17.72 
TCGA-02-0269 TCGA-02-0271 TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 TCGA-02-0290 
       10.75        14.47         3.98        13.87        14.20        15.95 
TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 TCGA-02-0332 
       12.23         9.90         7.73        10.62         7.33        25.71 
TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0422 TCGA-02-0430 TCGA-02-0440 
        4.37        25.12        10.59        14.50        10.55        11.34 
TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2470 TCGA-02-2485 TCGA-02-2486 
        9.27        16.21         3.35        12.92        15.45        20.32 
TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 
        2.70         6.15        20.38        47.61         6.94         3.98 
TCGA-06-0128 TCGA-06-0130 TCGA-06-0132 TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 
       22.72        12.95        25.35        14.30        26.70        24.23 
TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 
       11.90         0.20        10.29         2.20        11.74         2.33 
TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 
       20.09        17.79        10.09         8.61        19.46        46.59 
TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 TCGA-06-0159 TCGA-06-0160 TCGA-06-0164 
       13.94        10.45         3.19         9.44        11.80        56.91 
TCGA-06-0165 TCGA-06-0166 TCGA-06-0168 TCGA-06-0169 TCGA-06-0173 TCGA-06-0174 
       10.65         5.85        19.66         3.29         4.47         3.22 
TCGA-06-0175 TCGA-06-0176 TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 
        4.04        91.00         4.18        88.14        20.25         3.65 
TCGA-06-0187 TCGA-06-0188 TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 
       27.22        44.58        15.42        10.42        38.96         4.67 
TCGA-06-0195 TCGA-06-0197 TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 
        7.40         5.56         0.39         7.66         8.42         7.40 
TCGA-06-0211 TCGA-06-0213 TCGA-06-0216 TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 
       11.84         0.53        24.16        13.64        13.32        20.42 
TCGA-06-0241 TCGA-06-0394 TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 TCGA-06-0410 
       48.69        10.82         9.01         0.26        72.36         4.70 
TCGA-06-0412 TCGA-06-0413 TCGA-06-0414 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 
        9.57         3.16        35.11        12.62         5.75         5.75 
TCGA-06-0648 TCGA-06-0649 TCGA-06-0650 TCGA-06-0686 TCGA-06-0744 TCGA-06-0745 
        9.80         2.10        23.57        14.20        46.88         7.86 
TCGA-06-0747 TCGA-06-0749 TCGA-06-0750 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 
        2.70         2.70         0.92        46.19         7.17        40.41 
TCGA-06-0881 TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1087 
       16.57        20.78        26.76        23.93         6.84         4.04 
TCGA-06-1801 TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 TCGA-06-2559 
       11.84        15.32        13.61        33.90         1.08         4.93 
TCGA-06-2561 TCGA-06-2562 TCGA-06-2563 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 
       17.65        12.56        30.64        16.64         5.98         4.37 
TCGA-06-6389 TCGA-06-6390 TCGA-06-6694 TCGA-08-0244 TCGA-08-0246 TCGA-08-0344 
        7.79         5.39         7.36        22.68         4.18       115.86 
TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 
        1.74         8.42        25.71         9.80        29.23        65.33 
TCGA-08-0352 TCGA-08-0353 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 
        1.28         8.42        31.10        37.58        22.29         3.39 
TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 TCGA-08-0390 TCGA-08-0509 TCGA-08-0510 
       12.23        14.93        18.02        13.97        12.56         4.27 
TCGA-08-0514 TCGA-08-0516 TCGA-08-0518 TCGA-08-0521 TCGA-08-0524 TCGA-08-0529 
       11.08        19.59        19.33         4.80         7.27        18.41 
TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 
        7.56        14.73        12.99        34.92        10.45         7.59 
TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 
       94.78         0.10        38.17        25.97        26.66        12.13 
TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 
        3.65        20.38        28.41        15.06        53.85        43.23 
TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 
        7.63         9.73        14.93        14.86        91.76        24.79 
TCGA-12-0820 TCGA-12-0822 TCGA-12-0826 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 
       18.48        23.51        27.78         8.94        20.58       127.59 
TCGA-12-1089 TCGA-12-1090 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 
        5.82         7.59        15.98        12.23        15.85         9.11 
TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 
       14.53         3.98         4.14        11.24         1.35         5.39 
TCGA-14-0867 TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-1444 TCGA-15-1446 
        2.04        28.93        19.30         0.79        50.53        19.10 
TCGA-15-1447 TCGA-15-1449 TCGA-16-0846 TCGA-16-0849 TCGA-19-0955 TCGA-19-0957 
       53.19        13.28         3.91        26.07        11.77        21.90 
TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1389 TCGA-26-1442 
        0.66        10.75         9.07         5.95         4.64        31.33 
TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 TCGA-28-5207 
        5.49         1.58         7.92         2.33         7.30        11.28 
TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 TCGA-28-5215 
       17.88        14.53        11.77        31.27        23.44        11.01 
TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 TCGA-28-6450 TCGA-32-2616 TCGA-76-6280 
       13.64         5.16        22.68         5.42         7.36        11.38 
TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
        5.42         3.75         1.61        17.72        26.30 

  XP LOSS MUTATED XP LOSS WILD-TYPE 
             0.10              0.03 
  XP LOSS MUTATED XP LOSS WILD-TYPE 
           156.23            211.17 
  XP LOSS MUTATED XP LOSS WILD-TYPE 
            15.95             16.01 
[1] "0.1 - 156.2 (15.9)" "0.0 - 211.2 (16.0)"
[1] "hr=" "1"  
D81V2, continuous
D81V3, binary
                   cls
clus                  0   1
  XP LOSS MUTATED   113  98
  XP LOSS WILD-TYPE 460 414
[1] "tbl2"
                   cls
clus                [,1] [,2]
  XP LOSS MUTATED    113   98
  XP LOSS WILD-TYPE  460  414
                        clus
vv                       XP LOSS MUTATED XP LOSS WILD-TYPE
  BRAIN                              113               460
  CENTRAL NERVOUS SYSTEM              98               414
[1] 2 2
[1] FALSE
D81V4, binary
                   cls
clus                  0   1
  XP LOSS MUTATED    95 116
  XP LOSS WILD-TYPE 358 516
[1] "tbl2"
                   cls
clus                [,1] [,2]
  XP LOSS MUTATED     95  116
  XP LOSS WILD-TYPE  358  516
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  FEMALE              95               358
  MALE               116               516
[1] 2 2
[1] FALSE
D81V5, binary
                   cls
clus                  0   1
  XP LOSS MUTATED    45 150
  XP LOSS WILD-TYPE 213 620
[1] "tbl2"
                   cls
clus                [,1] [,2]
  XP LOSS MUTATED     45  150
  XP LOSS WILD-TYPE  213  620
     clus
vv    XP LOSS MUTATED XP LOSS WILD-TYPE
  NO               45               213
  YES             150               620
[1] 2 2
[1] FALSE
D81V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  XP LOSS MUTATED            38                             6               27
  XP LOSS WILD-TYPE         156                            24              102
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  XP LOSS MUTATED                  33                   4
  XP LOSS WILD-TYPE               156                  14
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  XP LOSS MUTATED                               103
  XP LOSS WILD-TYPE                             422
D81V7, multiclass
                                 clus
vv                                XP LOSS MUTATED XP LOSS WILD-TYPE
  ASTROCYTOMA                                  38               156
  GLIOBLASTOMA MULTIFORME (GBM)                 6                24
  OLIGOASTROCYTOMA                             27               102
  OLIGODENDROGLIOMA                            33               156
  TREATED PRIMARY GBM                           4                14
  UNTREATED PRIMARY (DE NOVO) GBM             103               422
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  XP LOSS MUTATED                                  0     6
  XP LOSS WILD-TYPE                                1    15
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  XP LOSS MUTATED                          15   184
  XP LOSS WILD-TYPE                        56   775
D81V8, multiclass
                                  clus
vv                                 XP LOSS MUTATED XP LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          6                15
  BLACK OR AFRICAN AMERICAN                     15                56
  WHITE                                        184               775
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D81V9, binary
                   cls
clus                  0   1
  XP LOSS MUTATED    13 178
  XP LOSS WILD-TYPE  31 743
[1] "tbl2"
                   cls
clus                [,1] [,2]
  XP LOSS MUTATED     13  178
  XP LOSS WILD-TYPE   31  743
                        clus
vv                       XP LOSS MUTATED XP LOSS WILD-TYPE
  HISPANIC OR LATINO                  13                31
  NOT HISPANIC OR LATINO             178               743
[1] 2 2
[1] FALSE

Clustering(82) Variable = XQ LOSS MUTATION ANALYSIS
D82V1, survival
                   sevent
clus2                 0   1
  XQ LOSS MUTATED    71 101
  XQ LOSS WILD-TYPE 409 497
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
              172               906 
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
              101               497 
$`XQ LOSS MUTATED`
TCGA-06-5408 TCGA-06-5416 TCGA-06-5418 TCGA-06-5856 TCGA-06-5859 TCGA-06-A5U0 
       11.74         6.71         2.73         3.75         4.57        26.79 
TCGA-06-A5U1 TCGA-06-A6S1 TCGA-06-A7TL TCGA-12-0615 TCGA-12-3644 TCGA-12-3646 
        1.87         2.56        17.72        15.35        59.77        44.02 
TCGA-12-3652 TCGA-12-5295 TCGA-14-0736 TCGA-14-0740 TCGA-14-0862 TCGA-14-0865 
       34.92        14.93        15.12        11.97         2.89        16.50 
TCGA-14-1453 TCGA-14-3477 TCGA-16-1045 TCGA-19-1390 TCGA-19-1392 TCGA-19-1786 
        1.15         3.78        29.03        25.38         3.65         7.17 
TCGA-19-2619 TCGA-19-2621 TCGA-19-2623 TCGA-19-2625 TCGA-19-2629 TCGA-19-5947 
        9.67         1.08         7.53         4.08        24.23         6.64 
TCGA-19-5956 TCGA-19-5960 TCGA-26-1439 TCGA-26-1440 TCGA-27-2524 TCGA-28-1750 
       22.49        14.96        13.87         9.73         7.59         8.35 
TCGA-32-1973 TCGA-32-1977 TCGA-32-1978 TCGA-32-2494 TCGA-32-2615 TCGA-32-2634 
       21.07         0.10        15.85        20.78        15.95        22.78 
TCGA-32-4208 TCGA-32-4213 TCGA-32-4719 TCGA-41-2572 TCGA-41-2575 TCGA-41-3392 
       21.14        19.86        10.85        13.35         9.53         0.99 
TCGA-4W-AA9R TCGA-74-6575 TCGA-76-4925 TCGA-76-4926 TCGA-76-4929 TCGA-76-4931 
        4.08        20.91         4.80         4.54         3.65         9.17 
TCGA-76-4934 TCGA-76-4935 TCGA-76-6285 TCGA-76-6286 TCGA-OX-A56R TCGA-CS-6667 
        2.53        36.85         8.35        20.98         5.92        48.30 
TCGA-DB-5275 TCGA-DB-5279 TCGA-DB-A4XH TCGA-DB-A64W TCGA-DH-5140 TCGA-DH-A66G 
       47.93        44.52        31.63        14.40        19.96        17.19 
TCGA-DU-5847 TCGA-DU-6404 TCGA-DU-6410 TCGA-DU-6542 TCGA-DU-7006 TCGA-DU-7018 
       18.02       133.74         7.96         2.40        11.47        30.67 
TCGA-DU-7294 TCGA-DU-7302 TCGA-DU-8158 TCGA-DU-8168 TCGA-DU-A6S8 TCGA-DU-A76R 
       94.32        60.30         5.10        14.17        22.29        21.30 
TCGA-DU-A7T6 TCGA-E1-5302 TCGA-E1-5311 TCGA-E1-A7YE TCGA-E1-A7YK TCGA-E1-A7YS 
       17.98        50.14       134.27        29.13        12.43        15.32 
TCGA-E1-A7YV TCGA-EZ-7264 TCGA-F6-A8O3 TCGA-FG-5964 TCGA-FG-A6IZ TCGA-FG-A6J1 
       32.45        39.48         0.23        52.21        15.02        16.44 
TCGA-HT-7469 TCGA-HT-7471 TCGA-HT-7477 TCGA-HT-7616 TCGA-HT-7690 TCGA-HT-7692 
       11.54         0.13        24.26         0.23         0.10         2.96 
TCGA-HT-7855 TCGA-HT-8104 TCGA-HT-8564 TCGA-HT-A61B TCGA-HW-7491 TCGA-HW-7493 
       19.23        12.23        15.72        17.52        68.32        69.27 
TCGA-HW-8321 TCGA-IK-7675 TCGA-KT-A74X TCGA-P5-A5EZ TCGA-P5-A5F6 TCGA-P5-A72W 
       42.54        19.00        14.40         2.30         1.28        10.42 
TCGA-P5-A72Z TCGA-P5-A737 TCGA-P5-A77W TCGA-QH-A65Z TCGA-QH-A6X4 TCGA-QH-A6X8 
       11.64        12.23        19.20        14.04        14.53        16.73 
TCGA-RY-A83Z TCGA-S9-A6TV TCGA-S9-A6WP TCGA-S9-A7IS TCGA-S9-A7QW TCGA-S9-A89V 
        9.90        18.77        18.64         7.92        15.06        18.71 
TCGA-S9-A89Z TCGA-TM-A7C5 TCGA-TM-A84I TCGA-TQ-A7RR TCGA-TQ-A7RW TCGA-TQ-A8XE 
       20.48        49.32        28.08        25.87        26.99        31.36 
TCGA-VM-A8CD TCGA-VV-A829 TCGA-02-0007 TCGA-02-0011 TCGA-02-0026 TCGA-02-0039 
        7.89        37.05        23.18        20.71        24.59        10.52 
TCGA-02-0048 TCGA-02-0099 TCGA-02-0330 TCGA-02-0339 TCGA-02-2466 TCGA-06-0129 
        3.22         3.48        15.91        12.39        16.80        33.67 
TCGA-06-0152 TCGA-06-0162 TCGA-06-0171 TCGA-06-0184 TCGA-06-0185 TCGA-06-0214 
       12.33         3.42        13.12        69.90        73.84        15.02 
TCGA-06-0219 TCGA-06-0221 TCGA-06-0875 TCGA-06-1800 TCGA-06-2558 TCGA-06-2564 
        0.72        19.82        43.46        26.79        12.49         5.95 
TCGA-06-2569 TCGA-06-6693 TCGA-08-0245 TCGA-08-0348 TCGA-08-0354 TCGA-08-0355 
        0.43       120.56        37.84        12.16        17.95        24.56 
TCGA-08-0389 TCGA-08-0392 TCGA-08-0512 TCGA-08-0517 TCGA-08-0520 TCGA-08-0525 
       15.35         0.72        42.15        58.68        10.75        15.98 
TCGA-12-0821 TCGA-12-0827 TCGA-12-1091 TCGA-14-0787 TCGA-15-0742 TCGA-15-1447 
       10.62        38.76        33.21         2.24        13.78        53.19 
TCGA-26-5133 TCGA-28-2514 TCGA-28-5204 TCGA-28-5220 
       14.86         5.26        14.93        12.76 

$`XQ LOSS WILD-TYPE`
TCGA-06-6391 TCGA-19-A6J4 TCGA-CS-6665 TCGA-CS-6670 TCGA-DB-A4XC TCGA-DH-5141 
        1.48         3.98        51.55        46.88        46.72        31.82 
TCGA-DH-A66B TCGA-DU-7300 TCGA-DU-A76O TCGA-E1-A7YN TCGA-FG-8187 TCGA-FG-A60K 
       42.05        62.01        17.16        23.90        20.09        17.82 
TCGA-FG-A713 TCGA-FG-A87N TCGA-HT-A619 TCGA-HW-7490 TCGA-IK-8125 TCGA-R8-A73M 
       20.45        18.64        21.40        45.60        42.77        59.38 
TCGA-06-1806 TCGA-06-5410 TCGA-06-5411 TCGA-06-5412 TCGA-06-5413 TCGA-06-5414 
       15.32         3.55         8.35         4.54         8.81         8.98 
TCGA-06-5415 TCGA-06-5858 TCGA-06-6388 TCGA-06-6695 TCGA-06-6697 TCGA-06-6698 
        8.55         6.15         5.23         8.32        12.85         4.77 
TCGA-06-6699 TCGA-06-6700 TCGA-06-6701 TCGA-06-A6S0 TCGA-06-A7TK TCGA-12-1092 
        1.55         4.77         4.96         3.12        14.60        21.73 
TCGA-12-1598 TCGA-12-1599 TCGA-12-1600 TCGA-12-1602 TCGA-12-3648 TCGA-12-3649 
       15.65        25.68        14.73         6.77        26.93        15.22 
TCGA-12-3650 TCGA-12-3651 TCGA-12-3653 TCGA-12-5299 TCGA-12-5301 TCGA-14-0781 
       10.95        12.69        14.53         3.22         2.04         0.95 
TCGA-14-0783 TCGA-14-0786 TCGA-14-0790 TCGA-14-0812 TCGA-14-0866 TCGA-14-1034 
        6.21        23.05        13.78         3.25        26.33        15.95 
TCGA-14-1395 TCGA-14-1396 TCGA-14-1401 TCGA-14-1402 TCGA-14-1450 TCGA-14-1451 
        1.38         1.12         3.75        32.05        58.78        23.11 
TCGA-14-1452 TCGA-14-1454 TCGA-14-1455 TCGA-14-1456 TCGA-14-1458 TCGA-14-1459 
        7.10        30.18         0.92        40.96         6.67        12.43 
TCGA-14-1794 TCGA-14-1795 TCGA-14-1821 TCGA-14-1823 TCGA-14-1825 TCGA-14-1827 
        0.99         1.97        17.79        17.85         7.63         5.88 
TCGA-14-1829 TCGA-14-2554 TCGA-14-2555 TCGA-14-4157 TCGA-16-0848 TCGA-16-1047 
        7.17        17.49         7.96         3.42        17.59         4.57 
TCGA-16-1055 TCGA-16-1056 TCGA-16-1060 TCGA-16-1062 TCGA-16-1063 TCGA-16-1460 
       10.29        14.01         9.14        21.24        13.97         6.41 
TCGA-19-0960 TCGA-19-0963 TCGA-19-0964 TCGA-19-1787 TCGA-19-1789 TCGA-19-1791 
        8.61        14.27         3.39        12.66         3.25         0.13 
TCGA-19-2620 TCGA-19-2624 TCGA-19-2631 TCGA-19-4065 TCGA-19-5950 TCGA-19-5951 
        4.87         0.16         7.00         7.04        17.19         8.02 
TCGA-19-5952 TCGA-19-5953 TCGA-19-5954 TCGA-19-5955 TCGA-19-5958 TCGA-19-5959 
       18.90         4.73        12.10         1.78        14.07        16.80 
TCGA-19-A60I TCGA-19-A6J5 TCGA-26-1438 TCGA-26-1443 TCGA-26-1799 TCGA-26-5132 
       17.79        28.54        10.03         7.13         9.37         9.40 
TCGA-26-5135 TCGA-26-5136 TCGA-26-A7UX TCGA-27-1830 TCGA-27-1831 TCGA-27-1832 
        8.88        18.97        19.33         5.06        16.60         9.86 
TCGA-27-1833 TCGA-27-1834 TCGA-27-1835 TCGA-27-1836 TCGA-27-1837 TCGA-27-1838 
       24.23        40.54        21.30        30.05        14.04        11.51 
TCGA-27-2518 TCGA-27-2519 TCGA-27-2521 TCGA-27-2523 TCGA-27-2526 TCGA-27-2527 
       24.76        18.08        16.77        16.08         2.86        14.40 
TCGA-27-2528 TCGA-28-1746 TCGA-28-1747 TCGA-28-1749 TCGA-28-1751 TCGA-28-1752 
       15.78         0.20         2.53         9.21         7.63         8.48 
TCGA-28-1753 TCGA-28-1755 TCGA-28-1756 TCGA-28-1757 TCGA-28-2502 TCGA-28-2506 
        1.22         1.55         2.83         0.13         0.66         6.74 
TCGA-28-2509 TCGA-32-1970 TCGA-32-1976 TCGA-32-1979 TCGA-32-1980 TCGA-32-1982 
        4.77        15.39         0.49        19.50         1.18         4.67 
TCGA-32-1986 TCGA-32-1987 TCGA-32-1991 TCGA-32-2491 TCGA-32-2495 TCGA-32-2632 
       12.69        14.86        16.93        12.23        15.02         8.84 
TCGA-32-2638 TCGA-32-4210 TCGA-32-4211 TCGA-32-5222 TCGA-41-2571 TCGA-41-2573 
       25.18         3.72        12.59        19.23         0.85         8.94 
TCGA-41-3393 TCGA-41-3915 TCGA-41-4097 TCGA-41-5651 TCGA-41-6646 TCGA-4W-AA9S 
        4.44        11.84         0.20        15.12        12.46         1.45 
TCGA-4W-AA9T TCGA-74-6573 TCGA-74-6577 TCGA-74-6578 TCGA-74-6581 TCGA-74-6584 
       25.58         3.45         4.34        14.33         8.22         7.50 
TCGA-76-4928 TCGA-76-6191 TCGA-76-6192 TCGA-76-6193 TCGA-76-6282 TCGA-76-6656 
        3.09        16.70         3.29         2.70        17.06         4.83 
TCGA-76-6657 TCGA-76-6661 TCGA-76-6662 TCGA-76-6663 TCGA-76-6664 TCGA-RR-A6KA 
        5.03        23.90        34.45        18.64        36.20         6.28 
TCGA-RR-A6KC TCGA-CS-4938 TCGA-CS-4941 TCGA-CS-4942 TCGA-CS-4943 TCGA-CS-4944 
       20.55       117.50         7.69        43.89        36.36        60.10 
TCGA-CS-5393 TCGA-CS-5394 TCGA-CS-5395 TCGA-CS-5396 TCGA-CS-5397 TCGA-CS-6186 
       40.18         0.26        21.01        53.62         6.38        17.69 
TCGA-CS-6188 TCGA-CS-6290 TCGA-CS-6666 TCGA-CS-6668 TCGA-CS-6669 TCGA-DB-5270 
       26.76        37.38        46.95        49.94        49.12       122.73 
TCGA-DB-5273 TCGA-DB-5274 TCGA-DB-5276 TCGA-DB-5277 TCGA-DB-5278 TCGA-DB-5280 
       81.96        75.25        72.92        50.86        91.13        36.56 
TCGA-DB-5281 TCGA-DB-A4X9 TCGA-DB-A4XA TCGA-DB-A4XB TCGA-DB-A4XD TCGA-DB-A4XE 
       78.28        46.42        18.84        30.21        39.78        37.45 
TCGA-DB-A4XF TCGA-DB-A4XG TCGA-DB-A64L TCGA-DB-A64O TCGA-DB-A64P TCGA-DB-A64Q 
       33.57        72.95        24.20        25.48        30.12         5.98 
TCGA-DB-A64R TCGA-DB-A64S TCGA-DB-A64U TCGA-DB-A64V TCGA-DB-A64X TCGA-DB-A75K 
       31.40        27.45        27.81        29.23        18.51        12.10 
TCGA-DB-A75L TCGA-DB-A75M TCGA-DB-A75O TCGA-DB-A75P TCGA-DH-5142 TCGA-DH-5143 
       11.24        17.88        30.74        16.18        63.88        46.06 
TCGA-DH-5144 TCGA-DH-A669 TCGA-DH-A66D TCGA-DH-A66F TCGA-DH-A7UR TCGA-DH-A7US 
       24.59        30.21        27.81        17.19        54.25        23.21 
TCGA-DH-A7UT TCGA-DH-A7UU TCGA-DH-A7UV TCGA-DU-5849 TCGA-DU-5851 TCGA-DU-5852 
       17.46        13.71        18.61        14.56        17.46         6.74 
TCGA-DU-5853 TCGA-DU-5854 TCGA-DU-5855 TCGA-DU-5870 TCGA-DU-5871 TCGA-DU-5872 
       13.38         8.45         6.81       182.33        18.94        17.49 
TCGA-DU-5874 TCGA-DU-6392 TCGA-DU-6393 TCGA-DU-6394 TCGA-DU-6395 TCGA-DU-6396 
       15.16       211.17        52.11        22.42        49.02        75.16 
TCGA-DU-6397 TCGA-DU-6399 TCGA-DU-6400 TCGA-DU-6401 TCGA-DU-6402 TCGA-DU-6403 
       46.06        65.75         1.22        87.45         7.04        11.64 
TCGA-DU-6405 TCGA-DU-6406 TCGA-DU-6407 TCGA-DU-6408 TCGA-DU-7007 TCGA-DU-7008 
       19.89        16.83        94.52       114.08        62.96       156.23 
TCGA-DU-7009 TCGA-DU-7010 TCGA-DU-7011 TCGA-DU-7012 TCGA-DU-7013 TCGA-DU-7014 
      154.36        14.99       105.21         6.54         8.84       117.40 
TCGA-DU-7015 TCGA-DU-7019 TCGA-DU-7290 TCGA-DU-7292 TCGA-DU-7298 TCGA-DU-7299 
       90.77        26.30        10.36         7.96        18.94        44.02 
TCGA-DU-7301 TCGA-DU-7304 TCGA-DU-7306 TCGA-DU-7309 TCGA-DU-8161 TCGA-DU-8162 
       25.91        23.31        41.98         2.76        23.74        14.60 
TCGA-DU-8163 TCGA-DU-8164 TCGA-DU-8165 TCGA-DU-8166 TCGA-DU-8167 TCGA-DU-A5TP 
       20.68        21.40        19.13        16.96        15.48        33.27 
TCGA-DU-A5TR TCGA-DU-A5TS TCGA-DU-A5TT TCGA-DU-A5TU TCGA-DU-A5TW TCGA-DU-A5TY 
       29.85        31.69        24.43        26.17        24.99        33.96 
TCGA-DU-A6S2 TCGA-DU-A6S3 TCGA-DU-A6S6 TCGA-DU-A6S7 TCGA-DU-A76K TCGA-DU-A76L 
       25.55        21.57        95.11        20.98        11.41        26.76 
TCGA-DU-A7T8 TCGA-DU-A7TA TCGA-DU-A7TB TCGA-DU-A7TC TCGA-DU-A7TD TCGA-DU-A7TG 
      139.04        84.33        51.52        37.38         7.50        44.42 
TCGA-DU-A7TI TCGA-DU-A7TJ TCGA-E1-5303 TCGA-E1-5304 TCGA-E1-5305 TCGA-E1-5307 
       38.89         0.56        67.46        41.13        79.99        57.93 
TCGA-E1-5318 TCGA-E1-5319 TCGA-E1-5322 TCGA-E1-A7YD TCGA-E1-A7YH TCGA-E1-A7YI 
       78.21        95.57       130.78        14.30        93.21         3.65 
TCGA-E1-A7YJ TCGA-E1-A7YL TCGA-E1-A7YM TCGA-E1-A7YO TCGA-E1-A7YQ TCGA-E1-A7YU 
       19.46        16.18        21.30        75.02        51.88         0.76 
TCGA-E1-A7YW TCGA-E1-A7YY TCGA-E1-A7Z2 TCGA-E1-A7Z3 TCGA-E1-A7Z4 TCGA-E1-A7Z6 
       36.82       146.14        13.08        73.48       145.05        32.35 
TCGA-F6-A8O4 TCGA-FG-5962 TCGA-FG-5963 TCGA-FG-5965 TCGA-FG-6688 TCGA-FG-6689 
        0.20        47.77        25.48        36.82        18.77        14.93 
TCGA-FG-6690 TCGA-FG-6691 TCGA-FG-6692 TCGA-FG-7634 TCGA-FG-7636 TCGA-FG-7638 
       42.54        41.33        18.44        15.35        17.88        22.55 
TCGA-FG-7641 TCGA-FG-7643 TCGA-FG-8181 TCGA-FG-8182 TCGA-FG-8185 TCGA-FG-8186 
       20.61        20.09        28.34        13.68        14.24        16.01 
TCGA-FG-8188 TCGA-FG-8189 TCGA-FG-8191 TCGA-FG-A4MT TCGA-FG-A4MU TCGA-FG-A4MW 
       14.96        22.52        32.61        38.27        10.72        18.38 
TCGA-FG-A4MX TCGA-FG-A4MY TCGA-FG-A60J TCGA-FG-A60L TCGA-FG-A6J3 TCGA-FG-A70Y 
       18.71        23.70        14.76        21.53        22.26        28.54 
TCGA-FG-A70Z TCGA-FG-A710 TCGA-FG-A711 TCGA-FG-A87Q TCGA-FN-7833 TCGA-HT-7467 
       10.78        36.66        48.69         5.72        27.52         0.10 
TCGA-HT-7468 TCGA-HT-7470 TCGA-HT-7472 TCGA-HT-7473 TCGA-HT-7474 TCGA-HT-7475 
        6.67        40.11         0.03        16.54         3.75        17.42 
TCGA-HT-7476 TCGA-HT-7478 TCGA-HT-7479 TCGA-HT-7480 TCGA-HT-7481 TCGA-HT-7482 
        6.54         6.38        40.34        75.19        95.93       106.95 
TCGA-HT-7483 TCGA-HT-7485 TCGA-HT-7601 TCGA-HT-7602 TCGA-HT-7603 TCGA-HT-7604 
      172.77         4.01         5.03        29.85        23.18       122.47 
TCGA-HT-7605 TCGA-HT-7606 TCGA-HT-7607 TCGA-HT-7608 TCGA-HT-7609 TCGA-HT-7610 
        4.57        17.29         3.16        22.06        45.99        56.09 
TCGA-HT-7611 TCGA-HT-7620 TCGA-HT-7676 TCGA-HT-7677 TCGA-HT-7680 TCGA-HT-7681 
       57.60        14.27         0.16        16.24         0.76        44.68 
TCGA-HT-7684 TCGA-HT-7686 TCGA-HT-7687 TCGA-HT-7688 TCGA-HT-7689 TCGA-HT-7691 
        6.05        42.74         0.10        31.69        14.96         0.10 
TCGA-HT-7693 TCGA-HT-7694 TCGA-HT-7695 TCGA-HT-7854 TCGA-HT-7856 TCGA-HT-7857 
       17.52         6.90        14.53        39.48        39.09         0.23 
TCGA-HT-7858 TCGA-HT-7860 TCGA-HT-7873 TCGA-HT-7874 TCGA-HT-7875 TCGA-HT-7877 
       50.63         0.49        23.61        37.15         0.33         0.13 
TCGA-HT-7879 TCGA-HT-7880 TCGA-HT-7881 TCGA-HT-7882 TCGA-HT-7884 TCGA-HT-7902 
        3.68         5.33        35.47         3.72        11.28        31.43 
TCGA-HT-8010 TCGA-HT-8011 TCGA-HT-8012 TCGA-HT-8013 TCGA-HT-8015 TCGA-HT-8018 
        1.64        16.24         9.40        63.55         0.10        37.87 
TCGA-HT-8019 TCGA-HT-8105 TCGA-HT-8106 TCGA-HT-8107 TCGA-HT-8108 TCGA-HT-8109 
       33.01         6.25         0.10         0.46         2.50         5.56 
TCGA-HT-8110 TCGA-HT-8111 TCGA-HT-8113 TCGA-HT-8114 TCGA-HT-8563 TCGA-HT-A4DS 
       13.78         0.23        29.59        34.19        28.27         0.23 
TCGA-HT-A4DV TCGA-HT-A5R5 TCGA-HT-A5R7 TCGA-HT-A5R9 TCGA-HT-A5RA TCGA-HT-A5RB 
       26.04         0.13        20.22         0.07        27.35         0.10 
TCGA-HT-A5RC TCGA-HT-A614 TCGA-HT-A615 TCGA-HT-A616 TCGA-HT-A617 TCGA-HT-A618 
        5.33         2.70        16.93         1.81        16.14        16.83 
TCGA-HT-A61C TCGA-HT-A74H TCGA-HT-A74J TCGA-HT-A74K TCGA-HT-A74L TCGA-HT-A74O 
       17.65         2.43        10.52        15.35        11.05         0.10 
TCGA-HW-7486 TCGA-HW-7487 TCGA-HW-7489 TCGA-HW-7495 TCGA-HW-8319 TCGA-HW-8320 
       56.58        45.44        41.49        35.44        39.75        40.01 
TCGA-HW-8322 TCGA-HW-A5KJ TCGA-HW-A5KK TCGA-HW-A5KL TCGA-HW-A5KM TCGA-KT-A7W1 
       24.92        31.63        12.76        28.87        20.71        14.40 
TCGA-P5-A5EV TCGA-P5-A5EW TCGA-P5-A5EX TCGA-P5-A5EY TCGA-P5-A5F0 TCGA-P5-A5F1 
        0.23         6.71         7.99         2.37         9.44         5.88 
TCGA-P5-A5F2 TCGA-P5-A5F4 TCGA-P5-A72U TCGA-P5-A72X TCGA-P5-A730 TCGA-P5-A731 
        7.96         7.59         0.23        13.25        10.95         9.01 
TCGA-P5-A733 TCGA-P5-A735 TCGA-P5-A736 TCGA-P5-A77X TCGA-P5-A780 TCGA-P5-A781 
       13.61         9.60         7.56         3.45         2.37         4.41 
TCGA-QH-A65R TCGA-QH-A65S TCGA-QH-A65V TCGA-QH-A65X TCGA-QH-A6CS TCGA-QH-A6CU 
       15.16         2.53        12.62        15.85        19.33        14.83 
TCGA-QH-A6CV TCGA-QH-A6CW TCGA-QH-A6CX TCGA-QH-A6CY TCGA-QH-A6CZ TCGA-QH-A6X3 
       14.53        13.61        12.23        13.41         9.17        10.29 
TCGA-QH-A6X5 TCGA-QH-A6X9 TCGA-QH-A6XA TCGA-QH-A6XC TCGA-QH-A86X TCGA-QH-A870 
       16.34         1.91        16.50        16.70        11.08        12.99 
TCGA-R8-A6MK TCGA-R8-A6ML TCGA-R8-A6MO TCGA-RY-A83X TCGA-RY-A83Y TCGA-RY-A840 
       88.83        94.03        32.65        30.87         5.46        28.08 
TCGA-RY-A843 TCGA-RY-A845 TCGA-RY-A847 TCGA-S9-A6TS TCGA-S9-A6TU TCGA-S9-A6TW 
        2.07        19.59        30.67        62.17        87.12        41.10 
TCGA-S9-A6TX TCGA-S9-A6TY TCGA-S9-A6TZ TCGA-S9-A6U0 TCGA-S9-A6U1 TCGA-S9-A6U2 
       40.93        35.38        36.82        24.39        25.81        29.85 
TCGA-S9-A6U5 TCGA-S9-A6U6 TCGA-S9-A6U8 TCGA-S9-A6U9 TCGA-S9-A6UA TCGA-S9-A6UB 
       32.61        35.15        98.24        95.93         5.85       123.65 
TCGA-S9-A6WD TCGA-S9-A6WE TCGA-S9-A6WG TCGA-S9-A6WH TCGA-S9-A6WI TCGA-S9-A6WL 
       75.25       135.22        85.55        38.56        84.99        31.10 
TCGA-S9-A6WM TCGA-S9-A6WN TCGA-S9-A6WO TCGA-S9-A6WQ TCGA-S9-A7IQ TCGA-S9-A7IX 
       19.86        26.47        18.61        14.07        36.13        26.93 
TCGA-S9-A7IY TCGA-S9-A7IZ TCGA-S9-A7J0 TCGA-S9-A7J1 TCGA-S9-A7J2 TCGA-S9-A7J3 
       23.51        19.99        20.02         8.19         2.04        20.68 
TCGA-S9-A7QX TCGA-S9-A7QY TCGA-S9-A7QZ TCGA-S9-A7R1 TCGA-S9-A7R2 TCGA-S9-A7R3 
       18.54        28.37        27.16       169.84        10.39        99.06 
TCGA-S9-A7R4 TCGA-S9-A7R7 TCGA-S9-A7R8 TCGA-TM-A7C3 TCGA-TM-A7C4 TCGA-TM-A7CA 
       30.05        98.63        31.59        54.77        48.33        34.78 
TCGA-TM-A7CF TCGA-TM-A84B TCGA-TM-A84C TCGA-TM-A84F TCGA-TM-A84G TCGA-TM-A84H 
       65.39        24.92        16.18        59.05        40.64        30.44 
TCGA-TM-A84J TCGA-TM-A84L TCGA-TM-A84M TCGA-TM-A84O TCGA-TM-A84Q TCGA-TM-A84R 
       24.16        40.83        24.79        33.24        25.38        18.61 
TCGA-TM-A84S TCGA-TM-A84T TCGA-TQ-A7RF TCGA-TQ-A7RG TCGA-TQ-A7RH TCGA-TQ-A7RI 
       14.93        23.80        21.37        19.69        15.98         2.04 
TCGA-TQ-A7RJ TCGA-TQ-A7RK TCGA-TQ-A7RM TCGA-TQ-A7RN TCGA-TQ-A7RO TCGA-TQ-A7RP 
       40.41        44.09        36.69        33.73        31.20        30.05 
TCGA-TQ-A7RQ TCGA-TQ-A7RU TCGA-TQ-A7RV TCGA-VM-A8C8 TCGA-VM-A8C9 TCGA-VM-A8CA 
       26.14        33.93        61.41        45.93        43.20        13.51 
TCGA-VM-A8CB TCGA-VM-A8CE TCGA-VM-A8CF TCGA-VM-A8CH TCGA-VV-A86M TCGA-VW-A7QS 
        0.10        39.16        20.02        23.47        16.01        23.21 
TCGA-VW-A8FI TCGA-W9-A837 TCGA-WH-A86K TCGA-WY-A858 TCGA-WY-A859 TCGA-WY-A85A 
        8.05        51.06        13.32        43.96        39.88        43.40 
TCGA-WY-A85B TCGA-WY-A85C TCGA-WY-A85D TCGA-WY-A85E TCGA-06-0209 TCGA-02-0001 
       45.80        46.88        37.71        20.81         7.63        11.77 
TCGA-02-0003 TCGA-02-0006 TCGA-02-0009 TCGA-02-0010 TCGA-02-0014 TCGA-02-0015 
        4.73        18.35        10.59        35.41        82.59        20.61 
TCGA-02-0016 TCGA-02-0021 TCGA-02-0023 TCGA-02-0024 TCGA-02-0025 TCGA-02-0027 
       87.06        77.65        20.12        53.10        42.74        12.16 
TCGA-02-0028 TCGA-02-0033 TCGA-02-0034 TCGA-02-0037 TCGA-02-0038 TCGA-02-0043 
       90.58         2.83        14.14         3.62        10.72        18.31 
TCGA-02-0046 TCGA-02-0047 TCGA-02-0051 TCGA-02-0052 TCGA-02-0054 TCGA-02-0055 
        6.87        14.73        15.09        12.59         6.54         2.50 
TCGA-02-0057 TCGA-02-0058 TCGA-02-0059 TCGA-02-0060 TCGA-02-0064 TCGA-02-0068 
       19.86         8.35         9.57         6.02        19.73        26.43 
TCGA-02-0069 TCGA-02-0070 TCGA-02-0071 TCGA-02-0074 TCGA-02-0075 TCGA-02-0079 
       28.70        25.05         5.49        10.19        20.84        27.25 
TCGA-02-0080 TCGA-02-0083 TCGA-02-0084 TCGA-02-0085 TCGA-02-0086 TCGA-02-0087 
       89.72        22.72        12.62        51.32         8.81        57.76 
TCGA-02-0089 TCGA-02-0102 TCGA-02-0104 TCGA-02-0106 TCGA-02-0107 TCGA-02-0111 
       16.96        27.02        65.00        11.67        17.65        23.18 
TCGA-02-0113 TCGA-02-0114 TCGA-02-0115 TCGA-02-0116 TCGA-02-0258 TCGA-02-0260 
       92.65        99.98        15.65        48.95        16.54        16.93 
TCGA-02-0266 TCGA-02-0269 TCGA-02-0271 TCGA-02-0281 TCGA-02-0285 TCGA-02-0289 
       17.72        10.75        14.47         3.98        13.87        14.20 
TCGA-02-0290 TCGA-02-0317 TCGA-02-0321 TCGA-02-0324 TCGA-02-0325 TCGA-02-0326 
       15.95        12.23         9.90         7.73        10.62         7.33 
TCGA-02-0332 TCGA-02-0333 TCGA-02-0337 TCGA-02-0338 TCGA-02-0422 TCGA-02-0430 
       25.71         4.37        25.12        10.59        14.50        10.55 
TCGA-02-0432 TCGA-02-0440 TCGA-02-0446 TCGA-02-0451 TCGA-02-0456 TCGA-02-2470 
       47.11        11.34         9.27        16.21         3.35        12.92 
TCGA-02-2483 TCGA-02-2485 TCGA-02-2486 TCGA-06-0119 TCGA-06-0122 TCGA-06-0124 
       15.32        15.45        20.32         2.70         6.15        20.38 
TCGA-06-0125 TCGA-06-0126 TCGA-06-0127 TCGA-06-0128 TCGA-06-0130 TCGA-06-0132 
       47.61         6.94         3.98        22.72        12.95        25.35 
TCGA-06-0133 TCGA-06-0137 TCGA-06-0138 TCGA-06-0139 TCGA-06-0140 TCGA-06-0141 
       14.30        26.70        24.23        11.90         0.20        10.29 
TCGA-06-0142 TCGA-06-0143 TCGA-06-0145 TCGA-06-0146 TCGA-06-0147 TCGA-06-0148 
        2.20        11.74         2.33        20.09        17.79        10.09 
TCGA-06-0149 TCGA-06-0150 TCGA-06-0151 TCGA-06-0154 TCGA-06-0155 TCGA-06-0157 
        8.61        19.46        46.59        13.94        10.45         3.19 
TCGA-06-0158 TCGA-06-0159 TCGA-06-0160 TCGA-06-0164 TCGA-06-0165 TCGA-06-0166 
       10.82         9.44        11.80        56.91        10.65         5.85 
TCGA-06-0168 TCGA-06-0169 TCGA-06-0173 TCGA-06-0174 TCGA-06-0175 TCGA-06-0176 
       19.66         3.29         4.47         3.22         4.04        91.00 
TCGA-06-0177 TCGA-06-0178 TCGA-06-0179 TCGA-06-0182 TCGA-06-0187 TCGA-06-0188 
        4.18        88.14        20.25         3.65        27.22        44.58 
TCGA-06-0189 TCGA-06-0190 TCGA-06-0192 TCGA-06-0194 TCGA-06-0195 TCGA-06-0197 
       15.42        10.42        38.96         4.67         7.40         5.56 
TCGA-06-0201 TCGA-06-0206 TCGA-06-0208 TCGA-06-0210 TCGA-06-0211 TCGA-06-0213 
        0.39         7.66         8.42         7.40        11.84         0.53 
TCGA-06-0216 TCGA-06-0237 TCGA-06-0238 TCGA-06-0240 TCGA-06-0241 TCGA-06-0394 
       24.16        13.64        13.32        20.42        48.69        10.82 
TCGA-06-0397 TCGA-06-0402 TCGA-06-0409 TCGA-06-0410 TCGA-06-0412 TCGA-06-0413 
        9.01         0.26        72.36         4.70         9.57         3.16 
TCGA-06-0414 TCGA-06-0644 TCGA-06-0645 TCGA-06-0646 TCGA-06-0648 TCGA-06-0649 
       35.11        12.62         5.75         5.75         9.80         2.10 
TCGA-06-0650 TCGA-06-0686 TCGA-06-0743 TCGA-06-0744 TCGA-06-0745 TCGA-06-0747 
       23.57        14.20        26.40        46.88         7.86         2.70 
TCGA-06-0749 TCGA-06-0750 TCGA-06-0876 TCGA-06-0878 TCGA-06-0879 TCGA-06-0881 
        2.70         0.92        46.19         7.17        40.41        16.57 
TCGA-06-0882 TCGA-06-0939 TCGA-06-1084 TCGA-06-1086 TCGA-06-1087 TCGA-06-1801 
       20.78        26.76        23.93         6.84         4.04        11.84 
TCGA-06-1802 TCGA-06-1804 TCGA-06-1805 TCGA-06-2557 TCGA-06-2559 TCGA-06-2561 
       15.32        13.61        33.90         1.08         4.93        17.65 
TCGA-06-2562 TCGA-06-2563 TCGA-06-2565 TCGA-06-2566 TCGA-06-2567 TCGA-06-2570 
       12.56        30.64        16.64         5.98         4.37        31.50 
TCGA-06-6389 TCGA-06-6390 TCGA-06-6694 TCGA-08-0244 TCGA-08-0246 TCGA-08-0344 
        7.79         5.39         7.36        22.68         4.18       115.86 
TCGA-08-0345 TCGA-08-0346 TCGA-08-0347 TCGA-08-0349 TCGA-08-0350 TCGA-08-0351 
        1.74         8.42        25.71         9.80        29.23        65.33 
TCGA-08-0352 TCGA-08-0353 TCGA-08-0356 TCGA-08-0357 TCGA-08-0358 TCGA-08-0359 
        1.28         8.42        31.10        37.58        22.29         3.39 
TCGA-08-0375 TCGA-08-0380 TCGA-08-0386 TCGA-08-0390 TCGA-08-0509 TCGA-08-0510 
       12.23        14.93        18.02        13.97        12.56         4.27 
TCGA-08-0514 TCGA-08-0516 TCGA-08-0518 TCGA-08-0521 TCGA-08-0524 TCGA-08-0529 
       11.08        19.59        19.33         4.80         7.27        18.41 
TCGA-08-0531 TCGA-12-0616 TCGA-12-0618 TCGA-12-0619 TCGA-12-0620 TCGA-12-0654 
        7.56        14.73        12.99        34.92        10.45         7.59 
TCGA-12-0656 TCGA-12-0657 TCGA-12-0662 TCGA-12-0670 TCGA-12-0688 TCGA-12-0691 
       94.78         0.10        38.17        25.97        26.66        12.13 
TCGA-12-0692 TCGA-12-0703 TCGA-12-0707 TCGA-12-0769 TCGA-12-0772 TCGA-12-0773 
        3.65        20.38        28.41        15.06        53.85        43.23 
TCGA-12-0775 TCGA-12-0776 TCGA-12-0778 TCGA-12-0780 TCGA-12-0818 TCGA-12-0819 
        7.63         9.73        14.93        14.86        91.76        24.79 
TCGA-12-0820 TCGA-12-0822 TCGA-12-0826 TCGA-12-0828 TCGA-12-0829 TCGA-12-1088 
       18.48        23.51        27.78         8.94        20.58       127.59 
TCGA-12-1089 TCGA-12-1090 TCGA-12-1093 TCGA-12-1094 TCGA-12-1095 TCGA-12-1096 
        5.82         7.59        15.98        12.23        15.85         9.11 
TCGA-12-1097 TCGA-12-1098 TCGA-12-1099 TCGA-14-0789 TCGA-14-0813 TCGA-14-0817 
       14.53         3.98         4.14        11.24         1.35         5.39 
TCGA-14-0867 TCGA-14-0871 TCGA-14-1037 TCGA-14-1043 TCGA-15-1444 TCGA-15-1446 
        2.04        28.93        19.30         0.79        50.53        19.10 
TCGA-15-1449 TCGA-16-0846 TCGA-16-0849 TCGA-16-0850 TCGA-19-0955 TCGA-19-0957 
       13.28         3.91        26.07        16.37        11.77        21.90 
TCGA-19-0962 TCGA-19-1385 TCGA-19-1386 TCGA-19-1387 TCGA-19-1388 TCGA-19-1389 
        0.66        10.75         9.07         5.95        12.95         4.64 
TCGA-26-1442 TCGA-26-5134 TCGA-26-5139 TCGA-26-6173 TCGA-26-6174 TCGA-28-2513 
       31.33         5.49         1.58         7.92         2.33         7.30 
TCGA-28-5207 TCGA-28-5208 TCGA-28-5209 TCGA-28-5211 TCGA-28-5213 TCGA-28-5214 
       11.28        17.88        14.53        11.77        31.27        23.44 
TCGA-28-5215 TCGA-28-5216 TCGA-28-5218 TCGA-28-5219 TCGA-28-6450 TCGA-32-2616 
       11.01        13.64         5.16        22.68         5.42         7.36 
TCGA-76-6280 TCGA-76-6283 TCGA-76-6660 TCGA-81-5910 TCGA-81-5911 TCGA-87-5896 
       11.38         5.42         3.75         1.61        17.72        26.30 

  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
             0.10              0.03 
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
           134.27            211.17 
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
           15.090            16.225 
[1] "0.1 - 134.3 (15.1)" "0.0 - 211.2 (16.2)"
[1] "hr=" "1.2"
D82V2, continuous
D82V3, binary
                   cls
clus                  0   1
  XQ LOSS MUTATED   104  70
  XQ LOSS WILD-TYPE 469 442
[1] "tbl2"
                   cls
clus                [,1] [,2]
  XQ LOSS MUTATED    104   70
  XQ LOSS WILD-TYPE  469  442
                        clus
vv                       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  BRAIN                              104               469
  CENTRAL NERVOUS SYSTEM              70               442
[1] 2 2
[1] FALSE
D82V4, binary
                   cls
clus                  0   1
  XQ LOSS MUTATED    74 100
  XQ LOSS WILD-TYPE 379 532
[1] "tbl2"
                   cls
clus                [,1] [,2]
  XQ LOSS MUTATED     74  100
  XQ LOSS WILD-TYPE  379  532
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  FEMALE              74               379
  MALE               100               532
[1] 2 2
[1] FALSE
D82V5, binary
                   cls
clus                  0   1
  XQ LOSS MUTATED    36 126
  XQ LOSS WILD-TYPE 222 644
[1] "tbl2"
                   cls
clus                [,1] [,2]
  XQ LOSS MUTATED     36  126
  XQ LOSS WILD-TYPE  222  644
     clus
vv    XQ LOSS MUTATED XQ LOSS WILD-TYPE
  NO               36               222
  YES             126               644
[1] 2 2
[1] FALSE
D82V6, continuous
                   vv
clus                ASTROCYTOMA GLIOBLASTOMA MULTIFORME (GBM) OLIGOASTROCYTOMA
  XQ LOSS MUTATED            24                             6               17
  XQ LOSS WILD-TYPE         170                            24              112
                   vv
clus                OLIGODENDROGLIOMA TREATED PRIMARY GBM
  XQ LOSS MUTATED                  29                   2
  XQ LOSS WILD-TYPE               160                  16
                   vv
clus                UNTREATED PRIMARY (DE NOVO) GBM
  XQ LOSS MUTATED                                96
  XQ LOSS WILD-TYPE                             429
D82V7, multiclass
                                 clus
vv                                XQ LOSS MUTATED XQ LOSS WILD-TYPE
  ASTROCYTOMA                                  24               170
  GLIOBLASTOMA MULTIFORME (GBM)                 6                24
  OLIGOASTROCYTOMA                             17               112
  OLIGODENDROGLIOMA                            29               160
  TREATED PRIMARY GBM                           2                16
  UNTREATED PRIMARY (DE NOVO) GBM              96               429
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                AMERICAN INDIAN OR ALASKA NATIVE ASIAN
  XQ LOSS MUTATED                                  0     5
  XQ LOSS WILD-TYPE                                1    16
                   vv
clus                BLACK OR AFRICAN AMERICAN WHITE
  XQ LOSS MUTATED                          14   150
  XQ LOSS WILD-TYPE                        57   809
D82V8, multiclass
                                  clus
vv                                 XQ LOSS MUTATED XQ LOSS WILD-TYPE
  AMERICAN INDIAN OR ALASKA NATIVE               0                 1
  ASIAN                                          5                16
  BLACK OR AFRICAN AMERICAN                     14                57
  WHITE                                        150               809
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D82V9, binary
                   cls
clus                  0   1
  XQ LOSS MUTATED     8 147
  XQ LOSS WILD-TYPE  36 774
[1] "tbl2"
                   cls
clus                [,1] [,2]
  XQ LOSS MUTATED      8  147
  XQ LOSS WILD-TYPE   36  774
                        clus
vv                       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  HISPANIC OR LATINO                   8                36
  NOT HISPANIC OR LATINO             147               774
[1] 2 2
[1] FALSE
